http://www.hackteria.org/wiki/api.php?action=feedcontributions&user=Sem2490&feedformat=atomHackteria Wiki - User contributions [en]2024-03-29T07:26:45ZUser contributionsMediaWiki 1.28.0http://www.hackteria.org/wiki/index.php?title=User:Navadrian.cinthus&diff=1732User:Navadrian.cinthus2009-10-21T20:12:01Z<p>Sem2490: </p>
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Akash Hirosh<br />
2nd year founadtion student in Srishti School of art design and technology.<br />
<br />
Eternal curiosity for the more complex problems while complete boredom when things are simple.<br />
Hacker, atheist, Gamer, digital artist, loves to take up new chalenges and opportunities no matter how bizzarre they may sound.Finds it real easy to pick up an obsession, but rarely keeps to it once all the grounds are covered or could be covered.Boredom is my bane.Gets bored with almost anything if it doesnt have any new challenges. Boredom leads to laziness and laziness leads to lethargy. A pretty sadistic mindset. I would skin, cook and eat my pet bunny rabbits...:D...<br />
<br />
so yeah...pretty normal in the head.<br />
<br />
<br />
The very random and impossible ideas<br />
<br />
[[File:bactiprint.jpg]]<br />
[[File:bactiprint1.jpg]]<br />
<html><br />
</div><br />
<br />
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</html></div>Sem2490http://www.hackteria.org/wiki/index.php?title=User:Navadrian.cinthus&diff=1731User:Navadrian.cinthus2009-10-21T20:11:16Z<p>Sem2490: </p>
<hr />
<div><html><br />
<link rel="stylesheet" href="http://hackteria.org/as.css" type="text/css" /><br />
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<div id="asTitle"><br />
<h1>Our Approach</h1><br />
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<br />
<div id="asMenu"><br />
<ul><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore">Home</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Team">People</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Project">Project</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Aproach">Approach</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Notebook">Notebook</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Outreach">Outreach</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Links">Links</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Gallery">Gallery</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Safety">Safety</a></li><br />
<li><a href="http://2009.igem.org/Team:ArtScienceBangalore/Parts">Parts</a></li><br />
</ul><br />
</div><br />
<br />
<div id="asContent"><br />
Akash Hirosh<br />
2nd year founadtion student in Srishti School of art design and technology.<br />
<br />
Eternal curiosity for the more complex problems while complete boredom when things are simple.<br />
Hacker, atheist, Gamer, digital artist, loves to take up new chalenges and opportunities no matter how bizzarre they may sound.Finds it real easy to pick up an obsession, but rarely keeps to it once all the grounds are covered or could be covered.Boredom is my bane.Gets bored with almost anything if it doesnt have any new challenges. Boredom leads to laziness and laziness leads to lethargy. A pretty sadistic mindset. I would skin, cook and eat my pet bunny rabbits...:D...<br />
<br />
so yeah...pretty normal in the head.<br />
<br />
<br />
The very random and impossible ideas<br />
<br />
[[File:bactiprint.jpg]]<br />
[[File:bactiprint1.jpg]]<br />
<br />
</div><br />
<br />
</div><br />
</html></div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bioelectronics_for_artists_@_CEMA&diff=1724Bioelectronics for artists @ CEMA2009-07-29T10:23:02Z<p>Sem2490: </p>
<hr />
<div>== Abstract ==<br />
<br />
[[File:sample_hackteria_workshop.jpg|200px|left|]]<br />
<br />
<br />
The workshop is an experimental make-workshop with multilayered outcome for people interested in sound, DIY-biology, microscopy and simple technological interaction with living microorganisms. Participants will become involved in hacking webcams to be used for live-video microscopy, finding microorganisms from the urban environment, and then develop open hardware and software tools with which these organisms can be both viewed and become the subjects for simple interactions.<br />
<br />
more info a about [[DIY_microscopy]]<br />
<br />
== Call for participation ==<br />
<br />
The workshop "Bioelectronics for Artists @ CEMA, Bangalore" is open to the public to join. Feel free to contact us at yashas(AT)cema(DOT)in for more information. Artists are welcome to join in only partially if their schedules doesnt allow the whole 5 days.<br />
<br />
== Workshop mentors ==<br />
<br />
'''Yashas Shetty''' | [http://cema.srishti.ac.in/ CEMA], [http://thedepartment.in /DFG] India<br />
<br />
Yashas Shetty is an artist and composer based in Bangalore, India. He is currently an artist in residence at the National Center for Biological Sciences in Bangalore and faculty at the Srishti School of Art, Design and Technology. He helped found the Center for Experimental Media Arts at Srishti and has previously taught at design schools across India, His works look at the relationship between language,ecology and technology.<br />
<br />
'''Marc Dusseiller''' | [http://www.dusseiller.ch/labs/ dusjagr labs], [http://www.mechatronicart.ch/ SGMK], Switzerland<br />
<br />
Dr. Marc R. Dusseiller is a transdisciplinary scholar, lecturer for Micro- and Nanotechnology and artist. He works in an integral way to combine science, art and education. He performs DIY-workshops in lo-fi electronics, music and robotics, has made various short movies and is currently developing means to perform biological science (mammalian cell culture, microfluidics, live-microscopy) in a DIY fashion in your kitchen or your atelier. He is also co-organizing dock18, Room for Mediacultures, and various other engagments like the diy* festival as the president of the Swiss Mechatronic Art Society, SGMK.<br />
<br />
== Participants ==<br />
<br />
Joanne Hoffmann<br />
<br />
Kannan Mehta<br />
<br />
Avinash<br />
<br />
Navin<br />
<br />
Victor Vina<br />
<br />
kinshuk surjan<br />
<br />
Shikhar Srivastava<br />
<br />
Nitya Kumar<br />
<br />
[[User: Sem2490| Sandeep Mathew]]<br />
<br />
<br />
<br />
...<br />
<br />
== Presentations ==<br />
<br />
[[File:hackteria_CEMA_introduction.pdf]]<br />
<br />
[[File:hackteria_CEMA_bioelectronix_intro.pdf]]<br />
<br />
[[File:hackteria_CEMA_size_of_things.pdf]]<br />
<br />
[[File:hackteria_CEMA_microscopy.pdf]]<br />
<br />
<br />
== Schedule ==<br />
<br />
'''Friday, 24th July till Wednesday 29th July, 2009'''<br />
<br />
Day 1 | Friday<br />
• welcome/introduction and overview<br />
• inputs from participants<br />
• how big are the things we want to work with? first views of the microcosmos <br />
• microscopy overview<br />
• webcam hacking<br />
<br />
[[File:diy_microscope_steps.jpg|180px|building an inverted microscope setup for access and easy handling of biological species]]<br />
<br />
Day 2 | Saturday<br />
• intro to bioelectronix<br />
• webcam hacking, cont.<br />
• build a microscope<br />
• puredata for microscopy <br />
<br />
[[File:rotifer_in_space.jpg|180px|dirt sample with a rotifer in the left side of the image]]<br />
<br />
Day 3 | Monday<br />
• improve the microscope / leds, motors and sensors<br />
• design and build the bioelectronix device<br />
• BioArduino / control your bioelectronix device<br />
• observation and biohacking <br />
<br />
[[File:bioelectronix.jpg|180px|the combination of living organisms and electronix. tardigrade on a CMOS chip of a webcam]]<br />
<br />
Day 4 | Tuesday<br />
• intro to biosensors<br />
• bio2sound interfaces<br />
• sound2bio communication<br />
• brainstorm about concepts for installations/performances<br />
• urban walk and field research<br />
<br />
[[File:nematode_digicam.jpg|180px|building an inverted microscope setup for access and easy handling of biological species]]<br />
<br />
Day 5 | Wednesday<br />
• finish microscopes<br />
• investigate urban samples<br />
• open discussions<br />
• prepare installations/performances<br />
<br />
== Hardware ==<br />
<br />
== Software ==<br />
<br />
[[File:pd_microscope_close.png|300px]]<br />
<br />
pd patch for linux inculding arduino controls (v4l, v4l2, pdp, simple message system)<br />
<br />
[[File:pd_arduino_microscope_screenshot.png|300px]]<br />
<br />
[[File:hackteria_microscope.zip]]<br />
<br />
== Discussions ==<br />
<br />
So we get these nice videos and images... and now what?<br />
<br />
''Discussion on Day 4:''<br />
<br />
''Super Bio Mario Land''<br />
<br />
creating a computer game with a bio-generated landscape and moving organisms. a digital character will have to dodge and jump around the stuff<br />
<br />
''micro jam session''<br />
<br />
musical jamming with microorganisms. use the lifeforms to generate musical patterns and the human musican jams to it using normal instruments<br />
<br />
''bio-music videos / wormdancing''<br />
<br />
add music to various videos to tell stories... <br />
<br />
''microtorture chambers''<br />
<br />
no comment<br />
<br />
''universe to microverse''<br />
<br />
alien landscapes and local microenvironments<br />
<br />
<br />
<br />
== hackteria walk through Yelahanka neighbourhood ==<br />
<br />
[[File:hackteria_exploration_crew.jpg|300px]]<br />
<br />
[[File:sample 1.jpg|300px]] <i>water used to wash utensils at chai kadai <br />
<br />
[[File:sample 2.jpg|300px]]<br />
<br />
[[File:sample 3.jpg|300px]]<br />
<br />
[[File:sample 4.jpg|300px]]<br />
<br />
[[File:sample 5.jpg|300px]]<br />
<br />
[[File:sample 6.jpg|300px]]<br />
<br />
[[File:sample 7.jpg|300px]]<br />
<br />
[[File:sample 8.jpg|300px]]<br />
<br />
[[File:sample 9.jpg|300px]]<br />
<br />
[[File:sample 10.jpg|300px]]<br />
<br />
[[File:sample 11.jpg|300px]]<br />
<br />
[[File:sample 12.jpg|300px]]<br />
<br />
[[File:sample 13.jpg|300px]]<br />
<br />
[[File:sample 14.jpg|300px]]</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1470ArtScience IGEM team2009-06-18T18:30:12Z<p>Sem2490: </p>
<hr />
<div>[[File:hackteria banner1.png]]<br />
<br />
== About ==<br />
As amateurs/novices,we hope to bring our training in the arts and<br />
design as 'outsiders' and (hopefully) critical thinkers to synthetic<br />
biology, which, no doubt is a powerful tool and paradigm in looking at<br />
the life sciences.<br />
During the course of the workshop we hope to not only learn the tools<br />
and techniques of synthetic biology and come up with a piece of life<br />
which reflects our concerns but also use the process to engage with<br />
the political, ethical and cultural implications of Synthetic Biology.<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
Major Outcomes -<br />
<br />
* [[Ideas for Bacteria.]]<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
<br />
<br />
<br />
<br />
{| border="0" cellspacing="0" cellpadding="4" align="center"<br />
![[Week One]]<br />
![[Week Two]]<br />
![[Week Three]]<br />
![[Week Four]]<br />
|-<br />
![[Week Five]]<br />
![[Week Six]]<br />
![[Week Seven]]<br />
![[Week Eight]]<br />
|}<br />
<br />
<br/><br />
<br />
=== Other ===<br />
<br />
http://www.historyforkids.org/scienceforkids/biology/cells/doing/dna.htm<br />
<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
The IBB Pune Team's wiki<br />
[http://2009.igem.org/Team:IBB_Pune#]<br />
<br />
[http://2008.igem.org/Team:NYMU-Taipei NYMU-Taipei's 2008 Wiki]<br />
<br />
== Readings ==<br />
<br />
'''[[Art and Politics]]'''<br />
<br />
'''[[Art]]'''<br />
<br />
'''[[Science]]'''<br />
<br />
'''[[Ethics]]'''<br />
<br />
'''[[Design & Technology]]'''<br />
<br />
'''[[Synthetic Biology]]'''<br />
<br />
'''[[General Design Links]]'''</div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:Hackteria_banner1.png&diff=1469File:Hackteria banner1.png2009-06-18T18:28:37Z<p>Sem2490: </p>
<hr />
<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=Transformation_and_inoculation&diff=1468Transformation and inoculation2009-06-18T15:09:05Z<p>Sem2490: </p>
<hr />
<div>'''What is Transformation?'''<br />
<br />
Tranformation is the process of inserting DNA into competent bacteria. <br />
<br />
<br />
----<br />
The pBAD and Lysis DNA parts have been ligated and are ready to be inserted back into competent E.coli cells. <br />
<br />
The Process: <br />
<br />
# A solution of DH 5-alpha E.Coli cells were added into the plasmid solution.<br />
#The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through. <br />
#The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) # The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker. <br />
#Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
#Discard 900 micro ml of the supernatant and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin. <br />
#The plates were incubated at 37ºC for 12-14 hours, making sure the agar side of the plate is up. If incubated for too long the antibiotics, especially ampicillin, start to break down and un-transformed cells will begin to grow.<br />
<br />
Once the colones start forming, they must be inoculated.<br />
<br />
'''What is inoculation?'''<br />
<br />
Inoculation is simply putting bacteria in a nutritious substance so that it can cultivate. <br />
<br />
We had four batches of the prepared plasmids. One of them had no colonies, while the other three had 18 colonies in total. Each colony was inoculated seperately. The inoculation is done by carefully picking up the colony with the tip of a pippet and dropping the tip into Centrifuge tubes with 5ml of LB with Ampicilin. The tubes are then centrifuged for 12 to 14 hours.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Transformation_and_inoculation&diff=1467Transformation and inoculation2009-06-18T15:08:42Z<p>Sem2490: </p>
<hr />
<div>'''What is Transformation?'''<br />
<br />
Tranformation is the process of inserting DNA into competent bacteria. <br />
<br />
<br />
----<br />
The pBAD and Lysis DNA parts have been ligated and are ready to be inserted back into competent E.coli cells. <br />
<br />
The Process: <br />
<br />
# A solution of DH 5-alpha E.Coli cells were added into the plasmid solution. <br />
<br />
#The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through. <br />
<br />
#The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) # The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker. <br />
<br />
#Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
<br />
#Discard 900 micro ml of the supernatant and dissolve pellets in remaining 100 micro ml. <br />
<br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin. <br />
<br />
#The plates were incubated at 37ºC for 12-14 hours, making sure the agar side of the plate is up. If incubated for too long the antibiotics, especially ampicillin, start to break down and un-transformed cells will begin to grow.<br />
<br />
Once the colones start forming, they must be inoculated.<br />
<br />
'''What is inoculation?'''<br />
<br />
Inoculation is simply putting bacteria in a nutritious substance so that it can cultivate. <br />
<br />
We had four batches of the prepared plasmids. One of them had no colonies, while the other three had 18 colonies in total. Each colony was inoculated seperately. The inoculation is done by carefully picking up the colony with the tip of a pippet and dropping the tip into Centrifuge tubes with 5ml of LB with Ampicilin. The tubes are then centrifuged for 12 to 14 hours.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Transformation_and_inoculation&diff=1466Transformation and inoculation2009-06-18T15:06:10Z<p>Sem2490: Created page with ''''What is Transformation?''' Tranformation is the process of inserting DNA into competent bacteria. ---- The pBAD and Lysis DNA parts have been ligated and are ready to be i...'</p>
<hr />
<div>'''What is Transformation?'''<br />
<br />
Tranformation is the process of inserting DNA into competent bacteria. <br />
<br />
<br />
----<br />
The pBAD and Lysis DNA parts have been ligated and are ready to be inserted back into competent E.coli cells. <br />
<br />
The Process: <br />
<br />
2) A solution of DH 5-alpha E.Coli cells were added into the plasmid solution. <br />
<br />
3) The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through. <br />
<br />
4) The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) # The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker. <br />
<br />
5) Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
<br />
6) Discard 900 micro ml of the supernatant and dissolve pellets in remaining 100 micro ml. <br />
<br />
7) These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin. <br />
<br />
8)The plates were incubated at 37ºC for 12-14 hours, making sure the agar side of the plate is up. If incubated for too long the antibiotics, especially ampicillin, start to break down and un-transformed cells will begin to grow.<br />
<br />
Once the colones start forming, they must be inoculated.<br />
<br />
'''What is inoculation?'''<br />
<br />
Inoculation is simply putting bacteria in a nutritious substance so that it can cultivate. <br />
<br />
We had four batches of the prepared plasmids. One of them had no colonies, while the other three had 18 colonies in total. Each colony was inoculated seperately. The inoculation is done by carefully picking up the colony with the tip of a pippet and dropping the tip into Centrifuge tubes with 5ml of LB with Ampicilin. The tubes are then centrifuged for 12 to 14 hours.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Week_Four&diff=1465Week Four2009-06-18T12:32:12Z<p>Sem2490: </p>
<hr />
<div>===June 8th- 17th===<br />
<br />
Our Step-wise Process:<br />
<br />
'''[[Step 1 - Taking dry DNA from wells]]'''<br />
<br />
'''[[Step 2 - Transforming competent cells]]'''<br />
<br />
'''Step 3 - Picking a single colony.'''<br />
<br />
'''Step 4 - Inoculating broth with Ampicillin-R''' (an antibiotic) and letting it grow for 18 hours.<br />
<br />
'''Step 5 - Using the resulting culture for [[mini-prep.]]''' - ''a process used to purify plasmids and yields clean, usable DNA.''<br />
<br />
'''Step 6 - [[Digesting the DNA]]'''<br />
<br />
'''Step 7 - [[Gel Electrophoresis]]'''<br />
<br />
'''Step 8- [[Ligation]]'''<br />
<br />
'''Step 9- [[Transformation and inoculation]]'''<br />
<br />
<br />
<br />
===June 9th===<br />
[[The June 9th Image Gallery]]<br />
<br />
Images of the various results attained:<br />
<br />
<gallery><br />
File:Gelimage090609.png<br />
File:Not working.jpg<br />
File:PBAD-insert f.png<br />
</gallery><br />
<br />
<br />
<br />
'''For June 15th:'''<br />
<br />
These bands will be kept overnight in 37 degrees Celsius.<br />
<br />
Then these will be run through a preparative gel which takes about 3 hours.<br />
<br />
The next step is to [[elute the released products]] which wold take 1.5 hours.<br />
<br />
CIP treatment will be done<br />
[Calf Intestine Phosphate]<br />
This treatment is given to only the vector of Lysis (Process will take 1.5 hour)<br />
This is done so that the vector doesn't self ligate.<br />
<br />
This enzyme will then be inactivated at 65 degree C.<br />
<br />
This vector needs to be purified using column or chloroform</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Ligation&diff=1464Ligation2009-06-18T12:29:15Z<p>Sem2490: Created page with '''' What is Ligation?''' Ligation is a process by which two DNA molecules are joined together in the pressence of a catalyst - DNA ligase, an ensyme.'</p>
<hr />
<div>''' What is Ligation?'''<br />
<br />
Ligation is a process by which two DNA molecules are joined together in the pressence of a catalyst - DNA ligase, an ensyme.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1426ArtScience IGEM team2009-06-17T04:44:34Z<p>Sem2490: /* Workshop */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== About ==<br />
As amateurs/novices,we hope to bring our training in the arts and<br />
design as 'outsiders' and (hopefully) critical thinkers to synthetic<br />
biology, which, no doubt is a powerful tool and paradigm in looking at<br />
the life sciences.<br />
During the course of the workshop we hope to not only learn the tools<br />
and techniques of synthetic biology and come up with a piece of life<br />
which reflects our concerns but also use the process to engage with<br />
the political, ethical and cultural implications of Synthetic Biology.<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
Major Outcomes -<br />
<br />
* [[Ideas for Bacteria.]]<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
<br />
<br />
<br />
<br />
{| border="0" cellspacing="0" cellpadding="4" align="center"<br />
![[Week One]]<br />
![[Week Two]]<br />
![[Week Three]]<br />
![[Week Four]]<br />
|-<br />
![[Week]]<br />
![[Week]]<br />
|-<br />
![[Week]]<br />
![[Week]]<br />
|}<br />
<br />
<br />
=== Other ===<br />
<br />
http://www.historyforkids.org/scienceforkids/biology/cells/doing/dna.htm<br />
<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
The IBB Pune Team's wiki<br />
[http://2009.igem.org/Team:IBB_Pune#]<br />
<br />
[http://2008.igem.org/Team:NYMU-Taipei NYMU-Taipei's 2008 Wiki]<br />
<br />
== Readings ==<br />
<br />
'''[[Art and Politics]]'''<br />
<br />
'''[[Art]]'''<br />
<br />
'''[[Science]]'''<br />
<br />
'''[[Ethics]]'''<br />
<br />
'''[[Design & Technology]]'''<br />
<br />
'''[[Synthetic Biology]]'''<br />
<br />
'''[[General Design Links]]'''</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1424ArtScience IGEM team2009-06-17T04:35:03Z<p>Sem2490: /* Other */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== About ==<br />
As amateurs/novices,we hope to bring our training in the arts and<br />
design as 'outsiders' and (hopefully) critical thinkers to synthetic<br />
biology, which, no doubt is a powerful tool and paradigm in looking at<br />
the life sciences.<br />
During the course of the workshop we hope to not only learn the tools<br />
and techniques of synthetic biology and come up with a piece of life<br />
which reflects our concerns but also use the process to engage with<br />
the political, ethical and cultural implications of Synthetic Biology.<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
Major Outcomes -<br />
<br />
* [[Ideas for Bacteria.]]<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
[[Week One]]<br />
<br />
[[Week Two]]<br />
<br />
[[Week Three]]<br />
<br />
[[Week Four]]<br />
<br />
<br />
=== Other ===<br />
<br />
http://www.historyforkids.org/scienceforkids/biology/cells/doing/dna.htm<br />
<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
The IBB Pune Team's wiki<br />
[http://2009.igem.org/Team:IBB_Pune#]<br />
<br />
[http://2008.igem.org/Team:NYMU-Taipei NYMU-Taipei's 2008 Wiki]<br />
<br />
== Readings ==<br />
<br />
'''[[Art and Politics]]'''<br />
<br />
'''[[Art]]'''<br />
<br />
'''[[Science]]'''<br />
<br />
'''[[Ethics]]'''<br />
<br />
'''[[Design & Technology]]'''<br />
<br />
'''[[Synthetic Biology]]'''<br />
<br />
'''[[General Design Links]]'''</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1423ArtScience IGEM team2009-06-17T04:34:42Z<p>Sem2490: /* Other */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== About ==<br />
As amateurs/novices,we hope to bring our training in the arts and<br />
design as 'outsiders' and (hopefully) critical thinkers to synthetic<br />
biology, which, no doubt is a powerful tool and paradigm in looking at<br />
the life sciences.<br />
During the course of the workshop we hope to not only learn the tools<br />
and techniques of synthetic biology and come up with a piece of life<br />
which reflects our concerns but also use the process to engage with<br />
the political, ethical and cultural implications of Synthetic Biology.<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
Major Outcomes -<br />
<br />
* [[Ideas for Bacteria.]]<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
[[Week One]]<br />
<br />
[[Week Two]]<br />
<br />
[[Week Three]]<br />
<br />
[[Week Four]]<br />
<br />
<br />
=== Other ===<br />
<br />
http://www.historyforkids.org/scienceforkids/biology/cells/doing/dna.htm<br />
<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
The IBB Pune Team's wiki<br />
[http://2009.igem.org/Team:IBB_Pune#]<br />
<br />
[http://2008.igem.org/Team:NYMU-Taipei|NYMU-Taipei's 2008 Wiki]<br />
<br />
== Readings ==<br />
<br />
'''[[Art and Politics]]'''<br />
<br />
'''[[Art]]'''<br />
<br />
'''[[Science]]'''<br />
<br />
'''[[Ethics]]'''<br />
<br />
'''[[Design & Technology]]'''<br />
<br />
'''[[Synthetic Biology]]'''<br />
<br />
'''[[General Design Links]]'''</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Elute_the_released_products&diff=1356Elute the released products2009-06-16T04:31:16Z<p>Sem2490: </p>
<hr />
<div>'''June 15th'''<br />
<br />
'''The Procedure'''<br />
<br />
#Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA.<br />
#Weigh the gel slice in a clorless tube. Add 3 times the volume of Buffer QG to 1 volume of gel.<br />
#Incubate at 50°C for 10 minutes, or until all the gel has dissolved. Mix the tube using the vortex mixer every 2 or 3 minutes to make sure it dissolves.<br />
#Check if the mixture is yellow in color. If it is, it means that its pH is around 7.5. This is the pH at which the adsorbtion (stickiness)of the QIAquick membrane is most efficient. If it is orange or violet, it is too acidic. Add 10µl of 3 M sodium acetate (pH 5.0) and mix, if that is the case. <br />
#Add isopropanol of a volume equal to the volume of the gel to the sample and mix. The isopropanol precipitates the DNA.(?)<br />
#Place QIAquick spin column in a 2ml collection tube. <br />
#To collect the DNA, pour the sample into the QIAquick column, and centrifuge for 1 min.<br />
#Discard flow-through and place QIAquick column back in the same collection tube.<br/> ''Collection tubes are re-used to reduce plastic waste.''<br />
# Add 0.75 ml of Buffer PE to QIAquick column, let it stand for 2 to 5 minutes and then centrifuge for 1 min at 13,000 rpm.<br />
#Discard the flow-through and centrifuge the QIAquick column for another minute at 13,000 rpm.<br />
#The QIAquick column should then be placed in a fresh eppendorff tube.<br />
#To elute (extract) the DNA, add 50 μl of Buffer EB (10 mM Tris·Cl, pH 8.5) or H2O to the center of the QIAquick membrane (a small disc of silica gel) and centrifuge the column for 1 min.<br/> For stronger concentration of DNA, add 30 μl elution buffer to the center of the QIAquick membrane, let it stand for 1 minute, and then centrifuge for 1 minute.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Elute_the_released_products&diff=1355Elute the released products2009-06-15T13:50:37Z<p>Sem2490: </p>
<hr />
<div>'''The Procedure'''<br />
<br />
#Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA.<br />
#Weigh the gel slice in a clorless tube. Add 3 times the volume of Buffer QG to 1 volume of gel.<br />
#Incubate at 50°C for 10 minutes, or until all the gel has dissolved. Mix the tube using the vortex mixer every 2 or 3 minutes to make sure it dissolves.<br />
#Check if the mixture is yellow in color. If it is, it means that its pH is around 7.5. This is the pH at which the adsorbtion (stickiness)of the QIAquick membrane is most efficient. If it is orange or violet, it is too acidic. Add 10µl of 3 M sodium acetate (pH 5.0) and mix, if that is the case. <br />
#Add isopropanol of a volume equal to the volume of the gel to the sample and mix. The isopropanol precipitates the DNA.(?)<br />
#Place QIAquick spin column in a 2ml collection tube. <br />
#To collect the DNA, pour the sample into the QIAquick column, and centrifuge for 1 min.<br />
#Discard flow-through and place QIAquick column back in the same collection tube.<br/> ''Collection tubes are re-used to reduce plastic waste.''<br />
# Add 0.75 ml of Buffer PE to QIAquick column, let it stand for 2 to 5 minutes and then centrifuge for 1 min at 13,000 rpm.<br />
#Discard the flow-through and centrifuge the QIAquick column for another minute at 13,000 rpm.<br />
#The QIAquick column should then be placed in a fresh eppendorff tube.<br />
#To elute (extract) the DNA, add 50 μl of Buffer EB (10 mM Tris·Cl, pH 8.5) or H2O to the center of the QIAquick membrane (a small disc of silica gel) and centrifuge the column for 1 min.<br/> For stronger concentration of DNA, add 30 μl elution buffer to the center of the QIAquick membrane, let it stand for 1 minute, and then centrifuge for 1 minute.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Elute_the_released_products&diff=1354Elute the released products2009-06-15T13:50:02Z<p>Sem2490: </p>
<hr />
<div>'''The Procedure'''<br />
<br />
#Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA.<br />
#Weigh the gel slice in a clorless tube. Add 3 times the volume of Buffer QG to 1 volume of gel.<br />
#Incubate at 50°C for 10 minutes, or until all the gel has dissolved. Mix the tube using the vortex mixer every 2 or 3 minutes to make sure it dissolves.<br />
#Check if the mixture is yellow in color. If it is, it means that its pH is around 7.5. This is the pH at which the adsorbtion (stickiness)of the QIAquick membrane is most efficient. If it is orange or violet, it is too acidic. Add 10µl of 3 M sodium acetate (pH 5.0) and mix, if that is the case. <br />
#Add isopropanol of a volume equal to the volume of the gel to the sample and mix. The isopropanol precipitates the DNA.(?)<br />
#Place QIAquick spin column in a 2ml collection tube. <br />
#To collect the DNA, pour the sample into the QIAquick column, and centrifuge for 1 min.<br />
#Discard flow-through and place QIAquick column back in the same collection tube.<br/> ''Collection tubes are re-used to reduce plastic waste.''<br />
# Add 0.75 ml of Buffer PE to QIAquick column, let it stand for 2 to 5 minutes and then centrifuge for 1 min at 13,000 rpm.<br />
#Discard the flow-through and centrifuge the QIAquick column for another minute at 13,000 rpm.<br />
#The QIAquick column should then be placed in a fresh eppendorff tube.<br />
#To elute (extract) the DNA, add 50 μl of Buffer EB (10 mM Tris·Cl, pH 8.5) or H2O to the center of the QIAquick membrane (a small disc of silica gel) and centrifuge the column for 1 min.<br/> For stronger concentration of DNA, add 30 μl elution buffer to the center of the QIAquick membrane,<br />
let it stand for 1 minute, and then centrifuge for 1 minute.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Elute_the_released_products&diff=1353Elute the released products2009-06-15T13:44:15Z<p>Sem2490: </p>
<hr />
<div>'''The Procedure'''<br />
<br />
#Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA.<br />
#Weigh the gel slice in a clorless tube. Add 3 times the volume of Buffer QG to 1 volume of gel.<br />
#Incubate at 50°C for 10 minutes, or until all the gel has dissolved. Mix the tube using the vortex mixer every 2 or 3 minutes to make sure it dissolves.<br />
#Check if the mixture is yellow in color. If it is, it means that its pH is around 7.5. This is the pH at which the adsorbtion (stickiness)of the QIAquick membrane is most efficient. If it is orange or violet, it is too acidic. Add 10µl of 3 M sodium acetate (pH 5.0) and mix, if that is the case. <br />
#Add isopropanol of a volume equal to the volume of the gel to the sample and mix. The isopropanol precipitates the DNA.(?)<br />
#Place QIAquick spin column in a 2ml collection tube. <br />
#To collect the DNA, pour the sample into the QIAquick column, and centrifuge for 1 min.<br />
#Discard flow-through and place QIAquick column back in the same collection tube.<br/> ''Collection tubes are re-used to reduce plastic waste.''<br />
# Add 0.75 ml of Buffer PE to QIAquick column, let it stand for 2 to 5 minutes and then centrifuge for 1 min at 13,000 rpm.<br />
#Discard the flow-through and centrifuge the QIAquick column for another minute at 13,000 rpm.<br />
#The QIAquick column which is a small disc of silica gel should then be placed in a fresh eppendorff tube.<br />
#To elute DNA, add 50 μl of Buffer EB (10 mM Tris·Cl, pH 8.5) or H2O to the center of the<br />
QIAquick membrane and centrifuge the column for 1 min. Alternatively, for increased<br />
DNA concentration, add 30 μl elution buffer to the center of the QIAquick membrane,<br />
let the column stand for 1 min, and then centrifuge for 1 min.<br />
<br />
IMPORTANT: Ensure that the elution buffer is dispensed directly onto the QIAquick<br />
membrane for complete elution of bound DNA. The average eluate volume is 48 μl<br />
from 50 μl elution buffer volume, and 28 μl from 30 μl.<br />
<br />
Elution efficiency is dependent on pH. The maximum elution efficiency is achieved<br />
between pH 7.0 and 8.5. When using water, make sure that the pH value is within<br />
this range, and store DNA at –20°C as DNA may degrade in the absence of a<br />
buffering agent. The purified DNA can also be eluted in TE (10 mM Tris·Cl, 1 mM<br />
EDTA, pH 8.0), but the EDTA may inhibit subsequent enzymatic reactions.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Elute_the_released_products&diff=1352Elute the released products2009-06-15T13:31:10Z<p>Sem2490: </p>
<hr />
<div>'''The Procedure'''<br />
<br />
#Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA.<br />
#Weigh the gel slice in a clorless tube. Add 3 times the volume of Buffer QG to 1 volume of gel.<br />
#Incubate at 50°C for 10 minutes, or until all the gel has dissolved. Mix the tube using the vortex mixer every 2 or 3 minutes to make sure it dissolves.<br />
#Check if the mixture is yellow in color. If it is, it means that its pH is around 7.5. This is the pH at which the adsorbtion (stickiness)of the QIAquick membrane is most efficient. If it is orange or violet, it is too acidic. Add 10µl of 3 M sodium acetate (pH 5.0) and mix, if that is the case. <br />
#Add isopropanol of a volume equal to the volume of the gel to the sample and mix. The isopropanol precipitates the DNA.(?)<br />
#Place QIAquick spin column in a 2ml collection tube. <br />
#To bind DNA, apply the sample to the QIAquick column, and centrifuge for 1 min.<br />
<br />
The maximum volume of the column reservoir is 800 μl. For sample volumes of more<br />
than 800 μl, simply load and spin again.<br />
<br />
8. Discard flow-through and place QIAquick column back in the same collection tube.<br />
Collection tubes are re-used to reduce plastic waste.<br />
<br />
9. (Optional): Add 0.5 ml of Buffer QG to QIAquick column and centrifuge for 1 min.<br />
<br />
This step will remove all traces of agarose. It is only required when the DNA will<br />
subsequently be used for direct sequencing, in vitro transcription or microinjection.<br />
<br />
10. To wash, add 0.75 ml of Buffer PE to QIAquick column and centrifuge for 1 min.<br />
<br />
Note: If the DNA will be used for salt sensitive applications, such as blunt-end ligation<br />
and direct sequencing, let the column stand 2–5 min after addition of Buffer PE,<br />
before centrifuging.<br />
<br />
11. Discard the flow-through and centrifuge the QIAquick column for an additional 1 min<br />
at 13,000 rpm (~17,900 x g).<br />
<br />
IMPORTANT: Residual ethanol from Buffer PE will not be completely removed unless<br />
the flow-through is discarded before this additional centrifugation.<br />
<br />
12. Place QIAquick column into a clean 1.5 ml microcentrifuge tube.<br />
<br />
13. To elute DNA, add 50 μl of Buffer EB (10 mM Tris·Cl, pH 8.5) or H2O to the center of the<br />
QIAquick membrane and centrifuge the column for 1 min. Alternatively, for increased<br />
DNA concentration, add 30 μl elution buffer to the center of the QIAquick membrane,<br />
let the column stand for 1 min, and then centrifuge for 1 min.<br />
<br />
IMPORTANT: Ensure that the elution buffer is dispensed directly onto the QIAquick<br />
membrane for complete elution of bound DNA. The average eluate volume is 48 μl<br />
from 50 μl elution buffer volume, and 28 μl from 30 μl.<br />
<br />
Elution efficiency is dependent on pH. The maximum elution efficiency is achieved<br />
between pH 7.0 and 8.5. When using water, make sure that the pH value is within<br />
this range, and store DNA at –20°C as DNA may degrade in the absence of a<br />
buffering agent. The purified DNA can also be eluted in TE (10 mM Tris·Cl, 1 mM<br />
EDTA, pH 8.0), but the EDTA may inhibit subsequent enzymatic reactions.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Elute_the_released_products&diff=1351Elute the released products2009-06-15T13:19:43Z<p>Sem2490: </p>
<hr />
<div>'''The Procedure'''<br />
<br />
#Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA.<br />
#Weigh the gel slice in a clorless tube. Add 3 times the volume of Buffer QG to 1 volume of gel.<br />
#Incubate at 50°C for 10 minutes, or until all the gel has dissolved. Mix the tube using the vortex mixer every 2 or 3 minutes to make sure it dissolves.<br />
#Check if the mixture is yellow in color. If it is, it means that its pH is around 7.5. This is the pH at which the adsorbtion (stickiness)of the QIAquick membrane is most efficient. If it is orange or violet, it is too acidic. Add 10µl of 3 M sodium acetate (pH 5.0) and mix, if that is the case. <br />
#Add isopropanol of a volume equal to the volume of the gel to the sample and mix. The isopropanol precipitates the DNA. (?)</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Elute_the_released_products&diff=1350Elute the released products2009-06-15T13:10:56Z<p>Sem2490: Created page with ''''The Procedure''' #Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA. #Weigh the gel...'</p>
<hr />
<div>'''The Procedure'''<br />
<br />
#Remove the DNA fragments from the agarose gel with a clean scalpel. Try to get as small a piece of gel as possible, without touching the DNA.<br />
#Weigh the gel slice in a clorless tube. Add 3 times the volume of Buffer QG to 1 volume of gel.<br />
#Incubate at 50°C for 10 minutes, or until all the gel has dissolved. Mix the tube using the vortex mixer every 2 or 3 minutes to make sure it dissolves.<br />
#Check if the mixture is yellow in color. If it is, it means that its pH is around 7.5. This is the pH at which the adsorbtion (stickiness)of the QIAquick membrane is most efficient. If it is orange or violet, it is too acidic.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1160Bacterial Transformation : The Process2009-06-09T04:42:44Z<p>Sem2490: </p>
<hr />
<div>[[File:IMG_5912_-Desktop_Resolution-.JPG|170px|thumb|right|1.The eppendorf tubes being labeled]]<br />
[[File:DSC_8084.jpg|170px|thumb|right|2.The dry DNA being extracted]]<br />
<br />
What are we doing?<br />
<br />
This is an attempt to alter the genetic composition of a bacteria by adding foreign genetic material.<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated.<br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) which is a source of required nutrients and enables the bacteria to grow.<br />
# The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the supernatant and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.<br />
<br />
[[File:DSC_8082.jpg|170px|thumb|none|3.]]<br />
[[File:DSC_8122.jpg|170px|thumb|right|4.]]<br />
[[File:DSC_8120.jpg|170px|thumb|none|4.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8130.jpg|170px|thumb|right|5.]]<br />
[[File:DSC_8139.jpg|170px|thumb|none|6.]]<br />
[[File:DSC_8164.jpg|170px|thumb|right|8.]]<br />
[[File:IMG_5948_-Desktop_Resolution-.JPG|170px|thumb|none|9.]]<br />
[[File:DSC_8176.jpg|170px|thumb|right|10.]]</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Preparing_the_pBAD_and_Lysis_plasmids_for_gel_electrophoresis&diff=1157Preparing the pBAD and Lysis plasmids for gel electrophoresis2009-06-09T04:21:38Z<p>Sem2490: </p>
<hr />
<div>#Take 1.5µl of the culture in an epenndorff tube.<br />
# Centrifuge the culture at 13200 rpm for 3 minutes, making sure the centrifuge is balanced. The centrifugal force created in the centrifuge forces the bacteria in the solution to collect in a pellet at the bottom of the eppendorff tube.<br />
#The liquid around the collected pellet, called the supernatant can be discarded.<br />
#Dissolve the pellet in 150µl of [[ALS I]]<br />
...</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Preparing_the_pBAD_and_Lysis_plasmids_for_gel_electrophoresis&diff=1156Preparing the pBAD and Lysis plasmids for gel electrophoresis2009-06-09T04:20:55Z<p>Sem2490: </p>
<hr />
<div>#Take 1.5ml of the culture in an epenndorff tube.<br />
# Centrifuge the culture at 13200 rpm for 3 minutes, making sure the centrifuge is balanced. The centrifugal force created in the centrifuge forces the bacteria in the solution to collect in a pellet at the bottom of the eppendorff tube.<br />
#The liquid around the collected pellet, called the supernatant can be discarded.<br />
#Dissolve the pellet in 150µl of [[ALS I]]<br />
...</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Preparing_the_pBAD_and_Lysis_plasmids_for_gel_electrophoresis&diff=1155Preparing the pBAD and Lysis plasmids for gel electrophoresis2009-06-09T04:20:28Z<p>Sem2490: </p>
<hr />
<div>#Take 1.5ml of the culture in an epenndorff tube.<br />
# Centrifuge the culture at 13200 rpm for 3 minutes, making sure the centrifuge is balanced. The centrifugal force created in the centrifuge forces the bacteria in the solution to collect in a pellet at the bottom of the eppendorff tube.<br />
#The liquid around the collected pellet, called the supernatant can be discarded.<br />
#Dissolve the pellet in 150µl of[ALS I]<br />
...</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Preparing_the_pBAD_and_Lysis_plasmids_for_gel_electrophoresis&diff=1154Preparing the pBAD and Lysis plasmids for gel electrophoresis2009-06-09T04:19:45Z<p>Sem2490: Created page with '#Take 1.5ml of the culture in an epenndorff tube. # Centrifuge the culture at 13200 rpm for 3 minutes, making sure the centrifuge is balanced. The centrifugal force created in th...'</p>
<hr />
<div>#Take 1.5ml of the culture in an epenndorff tube.<br />
# Centrifuge the culture at 13200 rpm for 3 minutes, making sure the centrifuge is balanced. The centrifugal force created in the centrifuge forces the bacteria in the solution to collect in a pellet at the bottom of the eppendorff tube.<br />
#The liquid around the collected pellet, called the supernatant can be discarded.<br />
#Dissolve the pellet in 150µl ALS I</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1153ArtScience IGEM team2009-06-09T04:08:41Z<p>Sem2490: /* June 8th */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
-bacteria that prevents corrosion <br />
<br />
-Time keeper or clock<br />
<br />
-Combustible bacteria<br />
<br />
-Related to weather - smell of rain<br />
<br />
-Bacteria that is resistant to Scientific Probing/Instruments<br />
<br />
-Mirror of bacteria<br />
<br />
-Buoyant bacteria<br />
<br />
-Interactive bacteria(painting)<br />
<br />
-Another creature made from bacteria<br />
<br />
-Bacteria and sound<br />
- Bacteria visualizations. (Both colour changes and 'choreographed' movement)<br />
<br />
-Neuro transmitters- bacteria as sensors for emotions<br />
<br />
-Glue<br />
<br />
-Bacteria that detects cravings<br />
<br />
-Magnetic bacteria<br />
<br />
-Self mutating Bacteria<br />
<br />
-Lie detector<br />
<br />
-Bacteria creates an identity<br />
<br />
-Bacteria becoming material on death<br />
<br />
-Constructing a 'Bacterial Ecology'<br />
<br />
-Bacteria that acts like oil<br />
- A lubricant<br />
- A liquid that can withstand high temperatures<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
=== '''May 15th''' ===<br />
<br />
-We discussed two Claire Pentacost Readings-[http://www.clairepentecost.org/beyond_face.htm Beyond Face ] and [http://www.clairepentecost.org/lab%20of%20symbolic_text.htm Critical Inventory of BioArt ]. <br />
-The gist of the Pentacost readings were that artists work with the symbolic and that the Artist's consent to work and learn in public is important.<br />
-We also discussed the political and cultural implications of Scientific Authority.<br />
-We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]<br />
-Most of the Ideas[see above] today, dealt with the use of bacteria as <br />
-a) A sensor or Reactor - (to Inputs,emotions,light..etc)<br />
-b) A Producer (of energy, proteins..etc)<br />
-c) A Material<br />
<br />
-Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?<br />
-Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?<br />
<br />
-Replace financial transactions with Bacteria<br />
<br />
=== '''May 16th''' ===<br />
<br />
Here's some creatures we created using techno-scientific jargon and aesthetics:<br />
<gallery><br />
File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names<br />
File:Upasana.jpg|Upasana's Ideas<br />
File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''<br />
File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph<br />
File:Page_1.jpg| Avni's ''actinodopaine''<br />
File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria<br />
File:2.jpg|Immuno Bacteria<br />
File:Sanya1.jpg|Plastico Collecticus<br />
File:bactiprint.jpg|Id bacteria-Akash<br />
File:bacteria.jpg|<br />
</gallery><br />
<br />
<br />
Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.<br />
<br />
-The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies . <br />
<br />
-One of the things enduring about the reading was her appeal to "love" our creations, not in a tech.no- phillic sense but in a more nurturing and caring way.<br />
<br />
=== '''May 17th''' ===<br />
<br />
'''Hybrid creatures from mythology:'''<br />
<gallery><br />
File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification<br />
File:aker.jpg| Double headed Lion- Egyptian Earth god<br />
File:Bastet-_goddess_of_fire.jpg| Bastet - Egyptian Goddess of Fire<br />
File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance<br />
File:Khepera-_beetle_god_of_rising_sun.jpg| Khepera - Egyptian Beetle God of Rising Sun<br />
File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War<br />
File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky<br />
File:Rainbow_snake-a_kangaroo's_head,_a_crocodile's_tail_and_a_python's_body,_all_decorated_with_water_lilies_and_waving_tendrils..jpg| Australian Rainbow Snake - Kangaroo's head, Crocodile's tail, Python's body<br />
File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse<br />
File:Futakuchi-onna.jpg|J.M.-Two mouthed woman<br />
File:Sanzuniao-Three_legged_bird.jpg| Chinese three legged bird<br />
File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened<br />
File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.<br />
File:be2.jpg| Nagas<br />
File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.<br />
File:Brahma.jpg| Lord Brahma the creator.<br />
File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.<br />
File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.<br />
File:kali.jpg| Kali<br />
File:krishna1baby.jpg| Lord Krishna<br />
File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.<br />
File:narasimha2.jpg| Narasimha is believed to possess the head of a lion and the body of a human. He is one of the avatars that lord Vishnu takes.<br />
File:Valkyrie.jpg|Valkyrie<br />
File:medusa.png|Medusa<br />
File:colossus.jpg|Colossus<br />
File:Leviathan.jpg|Leviathan<br />
File:mantacore.jpg|Mantacore<br />
File:hydra.jpg|Hydra<br />
File:lucifer.jpg|Lucifer<br />
File:Freyja.jpg|Freyja<br />
File:Heimdall.jpg|Heimdall<br />
File:centaur.jpg|Centaur<br />
<br />
<br />
</gallery><br />
<br />
*[[The May 17th Notebook]]<br />
<br />
=== '''May 19th''' ===<br />
<br />
We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis<br />
And looking at some of the microscopy equipment at NCBS.<br />
<br />
*[[Mukund's Brief Overview on Synthetic Biology Basics]]<br />
<br />
*[[Gel Electrophorosis]]<br />
<br />
*([[Talk:ArtScience_IGEM_team|Click here to discuss]])<br />
<br />
*[[Streaking and Spreading to obtain bacterial colonies]] <br />
<br />
*[[Imaging]]<br />
<br />
*[[Discussion over Lunch]]<br />
<br />
<br />
----<br />
'''Some images of our day at NCBS:'''<br />
<br />
<gallery><br />
<br />
File:DSC01409.JPG|Gel electrophoresis Apparatus<br />
File:DSC01410.JPG|The Voltmeter<br />
File:DSC01411.JPG|Gel Electrophoresis Tray<br />
File:DSC01418.JPG|Some lab equipment we were working with<br />
File:DSC01419.JPG|Using micropipettes<br />
File:DSC01420.JPG|One of the steps of Gel Electrophoresis<br />
File:DSC01422.JPG|Using the Comb Tray<br />
File:DSC01425.JPG|Fixing the comb in the comb tray<br />
File:DSC01426.JPG|The Gel Electrophoresis Apparatus-1<br />
File:DSC01427.JPG|The Gel Electrophoresis Apparatus-2<br />
File:DSC01428.JPG|Using the micropipettes<br />
File:DSC01470.JPG|Mukund's Excercise- Demonstrating how DNA replicates-1<br />
File:DSC01471.JPG|Mukund's Excercise- Demonstrating how DNA replicates-2<br />
File:DSC01472.JPG|Mukund's Excercise- Demonstrating how DNA replicates-3<br />
<br />
</gallery><br />
<br />
Non-categorised images [[here]]<br />
<br />
=== '''May 21st''' ===<br />
<br />
We put down all the information that we had about learnt about geosmin. We then put down the various paths we could take in order to produce the results we wanted. This exercise cleared certain doubts we had, but also raised a lot of questions.<br />
<br />
<gallery><br />
File:geosmin_synthesis.jpg|The Scientific Representation<br />
File:Rain_scenario_1.jpg<br />
File:RAin_scenario_2.jpg<br />
File:rain_scenario_3.jpg<br />
File:Bactothing2.png|The Artistic Representation<br />
</gallery><br />
<br />
[[First Prototype of the Bacteria]]<br />
<br />
=== ''May 22nd'' ===<br />
<br />
Today's Reading:<br />
<br />
[[File:Jenshauser.png]]<br />
<br />
<br />
<br />
Some basics of Gene Expression and production of Protiens and Enzymes by Gene's<br />
<br />
<br />
===May 25th===<br />
<br />
'''May 23rd-May 25th'''<br />
<br />
Presentation ideas- Bollywood sculpture?<br />
<gallery><br />
File:Nehasculpture.jpg<br />
File:krupakar_sc.jpg<br />
File:sandeep-machine.png|Its this big box. There is a projection of a window looking out into rain. All the paraphanalia can fit in the space below. fog machine?. The curtain goes all round.<br />
File:Installation_idea.jpg<br />
</gallery><br />
<br />
<br />
<br />
'''How to read a scientific Paper''' by Mukund<br />
<br />
Scan through the entire article quickly and find out what they are saying or trying to say<br />
Do not get lost in the references beyond 2 layers<br />
<br />
<br />
how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]<br />
<br />
<br />
'''Today's Reading:'''<br />
<br />
[http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]<br />
<br />
<br/><br />
<br />
===May 27th===<br />
http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1<br />
<br />
http://umassigem.blogspot.com/<br />
<br />
http://diybio.org/2009/03/20/extract-dna-from-strawberries/<br />
<br />
<br />
===May 28th===<br />
<br />
'''Bio-Sculptures:'''<br />
<br />
Avni's 'Chicken in a Kaleidoscope'<br />
<br />
Neha's '''From a Spider'''<br />
<br />
<gallery><br />
File:Spider.jpg| '''Spider-artist?''' A spider made to crawl through watercolor on white paper in a one-holed plastic box overnight. <br />
File:Spider2.jpg| An attempt to trace its movement in colors. Perhaps record a pattern?Would this be art?<br />
</gallery><br />
<br />
<br />
Sandeep's Mustard seeds<br />
<br />
=== May 29th ===<br />
<br />
<gallery><br />
<br />
File:TheArtScientistA.jpg|Neha's 'TheArtScientist'-Page 1<br />
<br />
File:The Art ScientistB.jpg|TheArtScientist-Page 2<br />
<br />
</gallery><br />
<br />
<br />
=== May 30th ===<br />
<br />
<br />
<br />
(all DNA pictures have been uploaded. Take your pick [[Special:ListFiles|here]]. (Not like you have a lot of options or anything..))<br />
<br />
'''Extracting DNA from Banana:'''<br />
<br />
<br />
'''What you need'''<br />
# 3 glass or clear plastic cups<br />
# A cup of water<br />
# A banana<br />
# A spoon<br />
# An eyedropper<br />
# A strainer<br />
# A funnel<br />
# A toothpick<br />
# A tablespoon of salt<br />
# 3 Tablespoons of liquid detergent containing Sodium Laurel Sulphate (look at back of the bottle)<br />
# A third of a cup of rubbing alcohol<br />
<br />
'''What you need to do'''<br />
# Put the rubbing alcohol in the freezer to chill it.<br />
# Mash the banana up with the spoon.<br />
# Strain the pulp through the funnel into one of the empty glasses (You might need some water to help it through.)<br />
# In another glass stir the detergent and salt together.<br />
# Mix the banana pulp and the salty detergent together for about a minute. Try to avoid bubbles.<br />
# When it settles, gently pour the alcohol down the side of the cup over the back end of the spoon. The alcohol should form a layer over the mixture.<br />
# Soon, you'll see tiny white strands of millions DNA gathering between the two layers.<br />
# Pick them out with the toothpick. They should be white, whiter than the rest of the banana pulp. Admire!<br />
<br />
<br />
<br />
<br />
<br />
<br />
<br />
'''Exracting DNA from Saliva:'''<br />
<br />
'''Images of our DNA we extracted from saliva:'''<br />
<gallery><br />
<br />
File:NehasDNA.JPG|Neha's DNA<br />
File:KrupakarsDNA.JPG|Krupakar's DNA<br />
File:DhruvsDNA.JPG|Dhruv's DNA<br />
File:SandeepsDNA.JPG|Sandeep's DNA<br />
<br />
</gallery><br />
<br />
<br />
===May 31st===<br />
<br />
Some interesting articles I came across.<br />
<br />
http://www.thenewatlantis.com/publications/the-promise-and-perils-of-synthetic-biology<br />
<br />
http://www.nature.com/msb/journal/v2/n1/full/msb4100104.html - I haven't read this one properly yet!! But the topic seems interesting and relevant...<br />
<br />
An interesting work i found while surfing-<br />
http://www.edgarlissel.de/data/mnemosyne_II_01e.html<br />
the photosensitive stripes are made of bacteria<br />
<br />
===June 3rd===<br />
'''''Registry of Parts Exercise'''''<br />
<br />
Sanya: Bacteria that indicates rise in and regulates body temperature.[[Media:Light.jpg]]<br />
<br />
[[Upasana]]<br />
<br />
[[Neha's Bacterial Jewellery]]<br />
<br />
===June 5th===<br />
<br />
[[Bacterial Transformation : The Process]]<br />
<br />
<gallery><br />
File:DSC_8065.jpg<br />
File:DSC_8072.jpg<br />
File:DSC_8074.jpg<br />
File:DSC_8082.jpg<br />
File:DSC_8084.jpg<br />
File:IMG_5913_-Desktop_Resolution-.JPG<br />
File:IMG_5881_-Desktop_Resolution-.JPG<br />
File:DSC_8088.jpg<br />
File:IMG 5897 -Desktop Resolution-.JPG<br />
File:DSC_8104.jpg<br />
File:DSC_8113.jpg<br />
File:IMG_5912_-Desktop_Resolution-.JPG<br />
File:DSC_8116.jpg<br />
File:IMG_5915_-Desktop_Resolution-.JPG|UV light killing unwanted bacteria<br />
File:DSC_8118.jpg<br />
File:DSC_8120.jpg<br />
File:DSC_8122.jpg<br />
File:DSC_8125.jpg<br />
File:DSC_8129.jpg<br />
File:DSC_8130.jpg<br />
File:DSC_8132.jpg<br />
File:DSC_8134.jpg<br />
File:DSC_8139.jpg<br />
File:DSC_8145.jpg<br />
File:DSC_8146.jpg<br />
File:DSC_8149.jpg<br />
File:DSC_8150.jpg<br />
File:DSC_8151.jpg<br />
File:DSC_8152.jpg<br />
File:IMG_5937_-Desktop_Resolution-.JPG<br />
File:DSC_8154.jpg<br />
File:DSC_8155.jpg<br />
File:DSC_8164.jpg<br />
File:DSC_8165.jpg<br />
File:DSC_8168.jpg<br />
File:IMG_5948_-Desktop_Resolution-.JPG<br />
File:DSC_8172.jpg<br />
File:DSC_8176.jpg<br />
File:IMG_5953_-Desktop_Resolution-.JPG<br />
<br />
</gallery><br />
<br />
===June 8th===<br />
'''Brief''' <br/><br />
The plasmids that contained the pBAD and Lysis genes that were prepared were extracted from the bacteria cultures. The unwanted protein around the DNA was then removed. After that the DNA was cleansed of any remaining salt. The plasmids were then cut at certain points such that only the required gene could be extracted. These cut parts were prepared for gel electrophoresis.<br />
<br />
[[Preparing the pBAD and Lysis plasmids for gel electrophoresis|The process]]<br />
<br />
<br />
<gallery><br />
File:DSC_8178.JPG<br />
File:DSC_8193.jpg<br />
File:DSC_8197.jpg<br />
File:DSC_8198.jpg<br />
File:DSC_8202.jpg<br />
File:DSC_8205.jpg<br />
File:DSC_8207.jpg<br />
File:DSC_8213.jpg<br />
File:DSC_8216.jpg<br />
File:DSC_8218.jpg<br />
File:DSC_8224.jpg<br />
File:DSC_8227.jpg<br />
File:DSC_8233.jpg<br />
File:DSC_8237.jpg<br />
File:DSC_8239.jpg<br />
File:DSC_8241.jpg<br />
File:DSC_8242.jpg<br />
File:DSC_8245.jpg<br />
File:DSC_8246.jpg<br />
File:DSC_8252.jpg<br />
File:DSC_8255.jpg<br />
File:DSC_8265.jpg<br />
File:DSC_8268.jpg<br />
File:DSC_8275.jpg<br />
File:DSC_8276.jpg<br />
File:DSC_8277.jpg<br />
File:DSC_8280.jpg<br />
File:DSC_8285.jpg<br />
File:DSC_8286.jpg<br />
File:DSC_8287.jpg<br />
File:DSC_8290.jpg<br />
File:DSC_8297.jpg<br />
File:DSC_8303.jpg<br />
File:DSC_8309.jpg<br />
File:DSC_8333.jpg<br />
File:DSC_8335.jpg<br />
File:DSC_8339.jpg<br />
File:DSC_8345.jpg<br />
File:DSC_8348.jpg<br />
File:DSC_8356.jpg<br />
File:DSC_8360.jpg<br />
File:DSC_8361.jpg<br />
File:DSC_8364.jpg<br />
File:DSC_8367.jpg<br />
File:DSC_8369.jpg<br />
File:DSC_8384.jpg<br />
File:DSC_8385.jpg<br />
File:DSC_8388.jpg<br />
File:DSC_8389.jpg<br />
File:DSC_8391.jpg<br />
File:DSC_8396.jpg<br />
File:DSC_8400.jpg<br />
File:DSC_8403.jpg<br />
File:DSC_8407.jpg<br />
File:DSC_8412.jpg<br />
File:DSC_8413.jpg<br />
File:DSC_8421.jpg<br />
File:DSC_8430.jpg<br />
File:DSC_8431.jpg<br />
File:DSC_8432.jpg<br />
File:DSC_8433.jpg<br />
</gallery><br />
<br />
===Other Teams===<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
== Readings ==<br />
<br />
<br />
'''Art and Politics'''<br />
<br />
Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]<br />
<br />
Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]<br />
<br />
Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]<br />
<br />
Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life<br />
<br />
'''Art'''<br />
<br />
GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]<br />
<br />
Adam Zaretsky[http://www.emutagen.com/]<br />
<br />
Patricia Piccinini[http://www.patriciapiccinini.net/]<br />
<br />
Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]<br />
<br />
'''Science'''<br />
<br />
What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]<br />
<br />
Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]<br />
<br />
Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/<br />
<br />
DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]<br />
<br />
"'Ethics"'<br />
<br />
Playing God for Fun and Profit[http://radar.oreilly.com/2008/02/play-god-for-fun-and-profit-mo.html]<br />
<br />
<br />
<br />
'''Design & Technology'''<br />
<br />
Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]<br />
<br />
Designer Bacteria may have a future in Fashion[http://www.nytimes.com/2001/08/19/style/designer-bacteria-may-have-a-future-in-fashion.html]<br />
<br />
Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]<br />
<br />
Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]<br />
<br />
Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]<br />
<br />
Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]<br />
<br />
'''Synthetic Biology:<br />
'''<br />
<br />
Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]<br />
<br />
Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]<br />
<br />
Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]<br />
<br />
Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]<br />
<br />
The Synthetic Biology Comic[[http://www.nature.com/nature/comics/syntheticbiologycomic/]] The .pdf version is here:[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf]<br />
<br />
Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]<br />
<br />
Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]<br />
<br />
Ibio Seminars [http://www.ibioseminars.org/]<br />
<br />
Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]<br />
<br />
Primer on Synthetic Biology[http://openwetware.org/images/3/3d/SB_Primer_100707.pdf]<br />
<br />
[[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]<br />
Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]<br />
<br />
Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]<br />
<br />
BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]<br />
<br />
[http://diybio.org/wp-content/uploads/2009/04/CodeCon09_SynthBio_tutorial_handout/appendix3%20-%20GinkgoBioworks%20guide%20to%20engineering%20biology.pdf Ginko BioWorks Guide to Synthetic Biology]<br />
<br />
[http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast]<br />
<br />
[http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms]<br />
<br />
'''General Design Links'''<br />
<br />
http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/<br />
<br />
http://www.wallwisher.com/wall/iGemSrishti</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1152ArtScience IGEM team2009-06-09T04:06:49Z<p>Sem2490: /* June 8th */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
-bacteria that prevents corrosion <br />
<br />
-Time keeper or clock<br />
<br />
-Combustible bacteria<br />
<br />
-Related to weather - smell of rain<br />
<br />
-Bacteria that is resistant to Scientific Probing/Instruments<br />
<br />
-Mirror of bacteria<br />
<br />
-Buoyant bacteria<br />
<br />
-Interactive bacteria(painting)<br />
<br />
-Another creature made from bacteria<br />
<br />
-Bacteria and sound<br />
- Bacteria visualizations. (Both colour changes and 'choreographed' movement)<br />
<br />
-Neuro transmitters- bacteria as sensors for emotions<br />
<br />
-Glue<br />
<br />
-Bacteria that detects cravings<br />
<br />
-Magnetic bacteria<br />
<br />
-Self mutating Bacteria<br />
<br />
-Lie detector<br />
<br />
-Bacteria creates an identity<br />
<br />
-Bacteria becoming material on death<br />
<br />
-Constructing a 'Bacterial Ecology'<br />
<br />
-Bacteria that acts like oil<br />
- A lubricant<br />
- A liquid that can withstand high temperatures<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
=== '''May 15th''' ===<br />
<br />
-We discussed two Claire Pentacost Readings-[http://www.clairepentecost.org/beyond_face.htm Beyond Face ] and [http://www.clairepentecost.org/lab%20of%20symbolic_text.htm Critical Inventory of BioArt ]. <br />
-The gist of the Pentacost readings were that artists work with the symbolic and that the Artist's consent to work and learn in public is important.<br />
-We also discussed the political and cultural implications of Scientific Authority.<br />
-We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]<br />
-Most of the Ideas[see above] today, dealt with the use of bacteria as <br />
-a) A sensor or Reactor - (to Inputs,emotions,light..etc)<br />
-b) A Producer (of energy, proteins..etc)<br />
-c) A Material<br />
<br />
-Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?<br />
-Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?<br />
<br />
-Replace financial transactions with Bacteria<br />
<br />
=== '''May 16th''' ===<br />
<br />
Here's some creatures we created using techno-scientific jargon and aesthetics:<br />
<gallery><br />
File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names<br />
File:Upasana.jpg|Upasana's Ideas<br />
File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''<br />
File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph<br />
File:Page_1.jpg| Avni's ''actinodopaine''<br />
File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria<br />
File:2.jpg|Immuno Bacteria<br />
File:Sanya1.jpg|Plastico Collecticus<br />
File:bactiprint.jpg|Id bacteria-Akash<br />
File:bacteria.jpg|<br />
</gallery><br />
<br />
<br />
Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.<br />
<br />
-The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies . <br />
<br />
-One of the things enduring about the reading was her appeal to "love" our creations, not in a tech.no- phillic sense but in a more nurturing and caring way.<br />
<br />
=== '''May 17th''' ===<br />
<br />
'''Hybrid creatures from mythology:'''<br />
<gallery><br />
File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification<br />
File:aker.jpg| Double headed Lion- Egyptian Earth god<br />
File:Bastet-_goddess_of_fire.jpg| Bastet - Egyptian Goddess of Fire<br />
File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance<br />
File:Khepera-_beetle_god_of_rising_sun.jpg| Khepera - Egyptian Beetle God of Rising Sun<br />
File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War<br />
File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky<br />
File:Rainbow_snake-a_kangaroo's_head,_a_crocodile's_tail_and_a_python's_body,_all_decorated_with_water_lilies_and_waving_tendrils..jpg| Australian Rainbow Snake - Kangaroo's head, Crocodile's tail, Python's body<br />
File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse<br />
File:Futakuchi-onna.jpg|J.M.-Two mouthed woman<br />
File:Sanzuniao-Three_legged_bird.jpg| Chinese three legged bird<br />
File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened<br />
File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.<br />
File:be2.jpg| Nagas<br />
File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.<br />
File:Brahma.jpg| Lord Brahma the creator.<br />
File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.<br />
File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.<br />
File:kali.jpg| Kali<br />
File:krishna1baby.jpg| Lord Krishna<br />
File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.<br />
File:narasimha2.jpg| Narasimha is believed to possess the head of a lion and the body of a human. He is one of the avatars that lord Vishnu takes.<br />
File:Valkyrie.jpg|Valkyrie<br />
File:medusa.png|Medusa<br />
File:colossus.jpg|Colossus<br />
File:Leviathan.jpg|Leviathan<br />
File:mantacore.jpg|Mantacore<br />
File:hydra.jpg|Hydra<br />
File:lucifer.jpg|Lucifer<br />
File:Freyja.jpg|Freyja<br />
File:Heimdall.jpg|Heimdall<br />
File:centaur.jpg|Centaur<br />
<br />
<br />
</gallery><br />
<br />
*[[The May 17th Notebook]]<br />
<br />
=== '''May 19th''' ===<br />
<br />
We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis<br />
And looking at some of the microscopy equipment at NCBS.<br />
<br />
*[[Mukund's Brief Overview on Synthetic Biology Basics]]<br />
<br />
*[[Gel Electrophorosis]]<br />
<br />
*([[Talk:ArtScience_IGEM_team|Click here to discuss]])<br />
<br />
*[[Streaking and Spreading to obtain bacterial colonies]] <br />
<br />
*[[Imaging]]<br />
<br />
*[[Discussion over Lunch]]<br />
<br />
<br />
----<br />
'''Some images of our day at NCBS:'''<br />
<br />
<gallery><br />
<br />
File:DSC01409.JPG|Gel electrophoresis Apparatus<br />
File:DSC01410.JPG|The Voltmeter<br />
File:DSC01411.JPG|Gel Electrophoresis Tray<br />
File:DSC01418.JPG|Some lab equipment we were working with<br />
File:DSC01419.JPG|Using micropipettes<br />
File:DSC01420.JPG|One of the steps of Gel Electrophoresis<br />
File:DSC01422.JPG|Using the Comb Tray<br />
File:DSC01425.JPG|Fixing the comb in the comb tray<br />
File:DSC01426.JPG|The Gel Electrophoresis Apparatus-1<br />
File:DSC01427.JPG|The Gel Electrophoresis Apparatus-2<br />
File:DSC01428.JPG|Using the micropipettes<br />
File:DSC01470.JPG|Mukund's Excercise- Demonstrating how DNA replicates-1<br />
File:DSC01471.JPG|Mukund's Excercise- Demonstrating how DNA replicates-2<br />
File:DSC01472.JPG|Mukund's Excercise- Demonstrating how DNA replicates-3<br />
<br />
</gallery><br />
<br />
Non-categorised images [[here]]<br />
<br />
=== '''May 21st''' ===<br />
<br />
We put down all the information that we had about learnt about geosmin. We then put down the various paths we could take in order to produce the results we wanted. This exercise cleared certain doubts we had, but also raised a lot of questions.<br />
<br />
<gallery><br />
File:geosmin_synthesis.jpg|The Scientific Representation<br />
File:Rain_scenario_1.jpg<br />
File:RAin_scenario_2.jpg<br />
File:rain_scenario_3.jpg<br />
File:Bactothing2.png|The Artistic Representation<br />
</gallery><br />
<br />
[[First Prototype of the Bacteria]]<br />
<br />
=== ''May 22nd'' ===<br />
<br />
Today's Reading:<br />
<br />
[[File:Jenshauser.png]]<br />
<br />
<br />
<br />
Some basics of Gene Expression and production of Protiens and Enzymes by Gene's<br />
<br />
<br />
===May 25th===<br />
<br />
'''May 23rd-May 25th'''<br />
<br />
Presentation ideas- Bollywood sculpture?<br />
<gallery><br />
File:Nehasculpture.jpg<br />
File:krupakar_sc.jpg<br />
File:sandeep-machine.png|Its this big box. There is a projection of a window looking out into rain. All the paraphanalia can fit in the space below. fog machine?. The curtain goes all round.<br />
File:Installation_idea.jpg<br />
</gallery><br />
<br />
<br />
<br />
'''How to read a scientific Paper''' by Mukund<br />
<br />
Scan through the entire article quickly and find out what they are saying or trying to say<br />
Do not get lost in the references beyond 2 layers<br />
<br />
<br />
how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]<br />
<br />
<br />
'''Today's Reading:'''<br />
<br />
[http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]<br />
<br />
<br/><br />
<br />
===May 27th===<br />
http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1<br />
<br />
http://umassigem.blogspot.com/<br />
<br />
http://diybio.org/2009/03/20/extract-dna-from-strawberries/<br />
<br />
<br />
===May 28th===<br />
<br />
'''Bio-Sculptures:'''<br />
<br />
Avni's 'Chicken in a Kaleidoscope'<br />
<br />
Neha's '''From a Spider'''<br />
<br />
<gallery><br />
File:Spider.jpg| '''Spider-artist?''' A spider made to crawl through watercolor on white paper in a one-holed plastic box overnight. <br />
File:Spider2.jpg| An attempt to trace its movement in colors. Perhaps record a pattern?Would this be art?<br />
</gallery><br />
<br />
<br />
Sandeep's Mustard seeds<br />
<br />
=== May 29th ===<br />
<br />
<gallery><br />
<br />
File:TheArtScientistA.jpg|Neha's 'TheArtScientist'-Page 1<br />
<br />
File:The Art ScientistB.jpg|TheArtScientist-Page 2<br />
<br />
</gallery><br />
<br />
<br />
=== May 30th ===<br />
<br />
<br />
<br />
(all DNA pictures have been uploaded. Take your pick [[Special:ListFiles|here]]. (Not like you have a lot of options or anything..))<br />
<br />
'''Extracting DNA from Banana:'''<br />
<br />
<br />
'''What you need'''<br />
# 3 glass or clear plastic cups<br />
# A cup of water<br />
# A banana<br />
# A spoon<br />
# An eyedropper<br />
# A strainer<br />
# A funnel<br />
# A toothpick<br />
# A tablespoon of salt<br />
# 3 Tablespoons of liquid detergent containing Sodium Laurel Sulphate (look at back of the bottle)<br />
# A third of a cup of rubbing alcohol<br />
<br />
'''What you need to do'''<br />
# Put the rubbing alcohol in the freezer to chill it.<br />
# Mash the banana up with the spoon.<br />
# Strain the pulp through the funnel into one of the empty glasses (You might need some water to help it through.)<br />
# In another glass stir the detergent and salt together.<br />
# Mix the banana pulp and the salty detergent together for about a minute. Try to avoid bubbles.<br />
# When it settles, gently pour the alcohol down the side of the cup over the back end of the spoon. The alcohol should form a layer over the mixture.<br />
# Soon, you'll see tiny white strands of millions DNA gathering between the two layers.<br />
# Pick them out with the toothpick. They should be white, whiter than the rest of the banana pulp. Admire!<br />
<br />
<br />
<br />
<br />
<br />
<br />
<br />
'''Exracting DNA from Saliva:'''<br />
<br />
'''Images of our DNA we extracted from saliva:'''<br />
<gallery><br />
<br />
File:NehasDNA.JPG|Neha's DNA<br />
File:KrupakarsDNA.JPG|Krupakar's DNA<br />
File:DhruvsDNA.JPG|Dhruv's DNA<br />
File:SandeepsDNA.JPG|Sandeep's DNA<br />
<br />
</gallery><br />
<br />
<br />
===May 31st===<br />
<br />
Some interesting articles I came across.<br />
<br />
http://www.thenewatlantis.com/publications/the-promise-and-perils-of-synthetic-biology<br />
<br />
http://www.nature.com/msb/journal/v2/n1/full/msb4100104.html - I haven't read this one properly yet!! But the topic seems interesting and relevant...<br />
<br />
An interesting work i found while surfing-<br />
http://www.edgarlissel.de/data/mnemosyne_II_01e.html<br />
the photosensitive stripes are made of bacteria<br />
<br />
===June 3rd===<br />
'''''Registry of Parts Exercise'''''<br />
<br />
Sanya: Bacteria that indicates rise in and regulates body temperature.[[Media:Light.jpg]]<br />
<br />
[[Upasana]]<br />
<br />
[[Neha's Bacterial Jewellery]]<br />
<br />
===June 5th===<br />
<br />
[[Bacterial Transformation : The Process]]<br />
<br />
<gallery><br />
File:DSC_8065.jpg<br />
File:DSC_8072.jpg<br />
File:DSC_8074.jpg<br />
File:DSC_8082.jpg<br />
File:DSC_8084.jpg<br />
File:IMG_5913_-Desktop_Resolution-.JPG<br />
File:IMG_5881_-Desktop_Resolution-.JPG<br />
File:DSC_8088.jpg<br />
File:IMG 5897 -Desktop Resolution-.JPG<br />
File:DSC_8104.jpg<br />
File:DSC_8113.jpg<br />
File:IMG_5912_-Desktop_Resolution-.JPG<br />
File:DSC_8116.jpg<br />
File:IMG_5915_-Desktop_Resolution-.JPG|UV light killing unwanted bacteria<br />
File:DSC_8118.jpg<br />
File:DSC_8120.jpg<br />
File:DSC_8122.jpg<br />
File:DSC_8125.jpg<br />
File:DSC_8129.jpg<br />
File:DSC_8130.jpg<br />
File:DSC_8132.jpg<br />
File:DSC_8134.jpg<br />
File:DSC_8139.jpg<br />
File:DSC_8145.jpg<br />
File:DSC_8146.jpg<br />
File:DSC_8149.jpg<br />
File:DSC_8150.jpg<br />
File:DSC_8151.jpg<br />
File:DSC_8152.jpg<br />
File:IMG_5937_-Desktop_Resolution-.JPG<br />
File:DSC_8154.jpg<br />
File:DSC_8155.jpg<br />
File:DSC_8164.jpg<br />
File:DSC_8165.jpg<br />
File:DSC_8168.jpg<br />
File:IMG_5948_-Desktop_Resolution-.JPG<br />
File:DSC_8172.jpg<br />
File:DSC_8176.jpg<br />
File:IMG_5953_-Desktop_Resolution-.JPG<br />
<br />
</gallery><br />
<br />
===June 8th===<br />
'''Brief''' <br/><br />
The plasmids that contained the pBAD and Lysis genes that were prepared were extracted from the bacteria cultures. The unwanted protein around the DNA was then removed. After that the DNA was cleansed of any remaining salt. The plasmids were then cut at certain points such that only the required gene could be extracted. These cut parts were prepared for gel electrophoresis.<br />
<br />
[[The process]]<br />
<br />
<br />
<gallery><br />
File:DSC_8178.JPG<br />
File:DSC_8193.jpg<br />
File:DSC_8197.jpg<br />
File:DSC_8198.jpg<br />
File:DSC_8202.jpg<br />
File:DSC_8205.jpg<br />
File:DSC_8207.jpg<br />
File:DSC_8213.jpg<br />
File:DSC_8216.jpg<br />
File:DSC_8218.jpg<br />
File:DSC_8224.jpg<br />
File:DSC_8227.jpg<br />
File:DSC_8233.jpg<br />
File:DSC_8237.jpg<br />
File:DSC_8239.jpg<br />
File:DSC_8241.jpg<br />
File:DSC_8242.jpg<br />
File:DSC_8245.jpg<br />
File:DSC_8246.jpg<br />
File:DSC_8252.jpg<br />
File:DSC_8255.jpg<br />
File:DSC_8265.jpg<br />
File:DSC_8268.jpg<br />
File:DSC_8275.jpg<br />
File:DSC_8276.jpg<br />
File:DSC_8277.jpg<br />
File:DSC_8280.jpg<br />
File:DSC_8285.jpg<br />
File:DSC_8286.jpg<br />
File:DSC_8287.jpg<br />
File:DSC_8290.jpg<br />
File:DSC_8297.jpg<br />
File:DSC_8303.jpg<br />
File:DSC_8309.jpg<br />
File:DSC_8333.jpg<br />
File:DSC_8335.jpg<br />
File:DSC_8339.jpg<br />
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File:DSC_8348.jpg<br />
File:DSC_8356.jpg<br />
File:DSC_8360.jpg<br />
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File:DSC_8385.jpg<br />
File:DSC_8388.jpg<br />
File:DSC_8389.jpg<br />
File:DSC_8391.jpg<br />
File:DSC_8396.jpg<br />
File:DSC_8400.jpg<br />
File:DSC_8403.jpg<br />
File:DSC_8407.jpg<br />
File:DSC_8412.jpg<br />
File:DSC_8413.jpg<br />
File:DSC_8421.jpg<br />
File:DSC_8430.jpg<br />
File:DSC_8431.jpg<br />
File:DSC_8432.jpg<br />
File:DSC_8433.jpg<br />
</gallery><br />
<br />
===Other Teams===<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
== Readings ==<br />
<br />
<br />
'''Art and Politics'''<br />
<br />
Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]<br />
<br />
Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]<br />
<br />
Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]<br />
<br />
Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life<br />
<br />
'''Art'''<br />
<br />
GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]<br />
<br />
Adam Zaretsky[http://www.emutagen.com/]<br />
<br />
Patricia Piccinini[http://www.patriciapiccinini.net/]<br />
<br />
Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]<br />
<br />
'''Science'''<br />
<br />
What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]<br />
<br />
Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]<br />
<br />
Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/<br />
<br />
DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]<br />
<br />
"'Ethics"'<br />
<br />
Playing God for Fun and Profit[http://radar.oreilly.com/2008/02/play-god-for-fun-and-profit-mo.html]<br />
<br />
<br />
<br />
'''Design & Technology'''<br />
<br />
Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]<br />
<br />
Designer Bacteria may have a future in Fashion[http://www.nytimes.com/2001/08/19/style/designer-bacteria-may-have-a-future-in-fashion.html]<br />
<br />
Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]<br />
<br />
Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]<br />
<br />
Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]<br />
<br />
Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]<br />
<br />
'''Synthetic Biology:<br />
'''<br />
<br />
Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]<br />
<br />
Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]<br />
<br />
Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]<br />
<br />
Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]<br />
<br />
The Synthetic Biology Comic[[http://www.nature.com/nature/comics/syntheticbiologycomic/]] The .pdf version is here:[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf]<br />
<br />
Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]<br />
<br />
Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]<br />
<br />
Ibio Seminars [http://www.ibioseminars.org/]<br />
<br />
Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]<br />
<br />
Primer on Synthetic Biology[http://openwetware.org/images/3/3d/SB_Primer_100707.pdf]<br />
<br />
[[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]<br />
Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]<br />
<br />
Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]<br />
<br />
BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]<br />
<br />
[http://diybio.org/wp-content/uploads/2009/04/CodeCon09_SynthBio_tutorial_handout/appendix3%20-%20GinkgoBioworks%20guide%20to%20engineering%20biology.pdf Ginko BioWorks Guide to Synthetic Biology]<br />
<br />
[http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast]<br />
<br />
[http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms]<br />
<br />
'''General Design Links'''<br />
<br />
http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/<br />
<br />
http://www.wallwisher.com/wall/iGemSrishti</div>Sem2490http://www.hackteria.org/wiki/index.php?title=The_process&diff=1151The process2009-06-09T04:06:34Z<p>Sem2490: Created page with 'take 1.5 of the culture....'</p>
<hr />
<div>take 1.5 of the culture....</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1150Bacterial Transformation : The Process2009-06-08T19:24:43Z<p>Sem2490: </p>
<hr />
<div>[[File:IMG_5912_-Desktop_Resolution-.JPG|200px|thumb|left|1.The eppendorf tubes being labeled]]<br />
[[File:DSC_8084.jpg|200px|thumb|right|2.The dry DNA being extracted]]<br />
[[File:DSC_8082.jpg|200px|thumb|left|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|right|4.]]<br />
[[File:DSC_8120.jpg|200px|thumb|left|4.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8130.jpg|200px|thumb|right|5.]]<br />
[[File:DSC_8139.jpg|200px|thumb|left|6.]]<br />
[[File:DSC_8164.jpg|200px|thumb|right|8.]]<br />
[[File:IMG_5948_-Desktop_Resolution-.JPG|200px|thumb|left|9.]]<br />
[[File:DSC_8176.jpg|200px|thumb|right|10.]]<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated.<br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) which is a source of required nutrients.<br />
# The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1149Bacterial Transformation : The Process2009-06-08T19:23:21Z<p>Sem2490: </p>
<hr />
<div>[[File:IMG_5912_-Desktop_Resolution-.JPG|200px|thumb|left|1.The eppendorf tubes being labeled]]<br />
[[File:DSC_8084.jpg|200px|thumb|right|2.The dry DNA being extracted]]<br />
[[File:DSC_8082.jpg|200px|thumb|left|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|right|4.]]<br />
[[File:DSC_8120.jpg|200px|thumb|left|4.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8130.jpg|200px|thumb|right|5.]]<br />
[[File:DSC_8139.jpg|200px|thumb|left|5.]]<br />
[[File:DSC_8164.jpg|200px|thumb|right|9.]]<br />
[[File:IMG_5948_-Desktop_Resolution-.JPG|200px|thumb|left|10.]]<br />
[[File:DSC_8176.jpg|200px|thumb|right|11.]]<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated.<br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) which is a source of required nutrients.<br />
# The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1148Bacterial Transformation : The Process2009-06-08T19:19:19Z<p>Sem2490: </p>
<hr />
<div>[[File:IMG_5912_-Desktop_Resolution-.JPG|200px|thumb|left|1.The eppendorf tubes being labeled]]<br />
[[File:DSC_8084.jpg|200px|thumb|right|2.The dry DNA being extracted]]<br />
[[File:DSC_8082.jpg|200px|thumb|left|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|right|5.]]<br />
[[File:DSC_8120.jpg|200px|thumb|left|5.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8130.jpg|200px|thumb|right|6.]]<br />
[[File:DSC_8139.jpg|200px|thumb|left|7.]]<br />
[[File:DSC_8164.jpg|200px|thumb|right|10.]]<br />
[[File:IMG_5948_-Desktop_Resolution-.JPG|200px|thumb|left|11.]]<br />
[[File:DSC_8176.jpg|200px|thumb|right|12.]]<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. <br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) which is a source of required nutrients.<br />
# The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1147Bacterial Transformation : The Process2009-06-08T19:18:16Z<p>Sem2490: </p>
<hr />
<div>[[[[File:DSC_8120.jpg|200px|thumb|left|1.The four eppendorf tubes being labeled]]|200px|thumb|left|<br />
[[File:DSC_8084.jpg|200px|thumb|right|2.The dry DNA being extracted]]<br />
[[File:DSC_8082.jpg|200px|thumb|left|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|right|5.]]<br />
[[File:DSC_8120.jpg|200px|thumb|left|5.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8130.jpg|200px|thumb|right|6.]]<br />
[[File:DSC_8139.jpg|200px|thumb|left|7.]]<br />
[[File:DSC_8164.jpg|200px|thumb|right|10.]]<br />
[[File:IMG_5948_-Desktop_Resolution-.JPG|200px|thumb|left|11.]]<br />
[[File:DSC_8176.jpg|200px|thumb|right|12.]]<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. <br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) which is a source of required nutrients.<br />
# The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1146Bacterial Transformation : The Process2009-06-08T19:13:55Z<p>Sem2490: </p>
<hr />
<div>[[File:DSC_8120.jpg|200px|thumb|left|1.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8084.jpg|200px|thumb|right|2.The dry DNA being extracted]]<br />
[[File:DSC_8082.jpg|200px|thumb|left|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|right|5.]]<br />
[[File:DSC_8130.jpg|200px|thumb|left|6.]]<br />
[[File:DSC_8139.jpg|200px|thumb|right|7.]]<br />
[[File:DSC_8164.jpg|200px|thumb|left|10.]]<br />
[[File:IMG_5948_-Desktop_Resolution-.JPG|200px|thumb|right|11.]]<br />
[[File:DSC_8176.jpg|200px|thumb|left|12.]]<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. <br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) which is a source of required nutrients.<br />
# The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1145Bacterial Transformation : The Process2009-06-08T19:07:34Z<p>Sem2490: </p>
<hr />
<div>[[File:DSC_8120.jpg|200px|thumb|right|1.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8084.jpg|200px|thumb|right|2.The dry DNA being extracted]]<br />
[[File:DSC_8082.jpg|200px|thumb|right|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|right|5.]]<br />
[[File:DSC_8130.jpg|200px|thumb|right|6.]]<br />
[[File:DSC_8139.jpg|200px|thumb|right|7.]]<br />
[[File:DSC_8164.jpg|200px|thumb|right|10.]]<br />
[[File:IMG_5948_-Desktop_Resolution-.JPG|200px|thumb|right|11.]]<br />
[[File:File:DSC_8176.jpg|200px|thumb|right|12.]]<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. <br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# The Bacteria were then mixed into 330 micro ml LB (Luria Bertani) which is a source of required nutrients.<br />
# The bacteria were then left to cultivate for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. <br />
#These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1144Bacterial Transformation : The Process2009-06-08T18:56:30Z<p>Sem2490: </p>
<hr />
<div>[[File:DSC_8120.jpg|200px|thumb|right|1.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8084.jpg|200px|thumb|right|2.The dry DNA being extracted]]<br />
[[File:DSC_8082.jpg|200px|thumb|right|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|right|5.]]<br />
<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. <br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# They were mixed with 330 micro ml LB (Luria Bertani).<br />
# Left to grow for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1142Bacterial Transformation : The Process2009-06-08T18:55:27Z<p>Sem2490: </p>
<hr />
<div>[[File:DSC_8120.jpg|200px|thumb|right|1.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8084.jpg|200px|thumb|left|2.The dry DNA being extracted]]<br />
[[File:File:DSC_8082.jpg|200px|thumb|right|3.]]<br />
[[File:DSC_8122.jpg|200px|thumb|left|5.]]<br />
<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. <br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# They were mixed with 330 micro ml LB (Luria Bertani).<br />
# Left to grow for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1139Bacterial Transformation : The Process2009-06-08T18:52:20Z<p>Sem2490: </p>
<hr />
<div>[[File:DSC_8120.jpg|200px|thumb|right|1.The four eppendorf tubes being cooled]]<br />
[[File:DSC_8084.jpg|200px|thumb|left|2.The dry DNA being extracted]]<br />
# Four eppendorf tubes were taken and marked lysis, p-tet, +ve and -ve. <br />
# The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
# 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
# The positive control had the gene that promoted Ampicillin resistance and the negative control did not. If any colonies started forming in the negative control batch, that would mean the entire batch is contaminated<br />
# The bacteria were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes. The heat shock causes tiny pores in the walls of the bacteria to expand, allowing the plasmids to go through.<br />
# They were mixed with 330 micro ml LB (Luria Bertani).<br />
# Left to grow for approximately an hour @ 37 degrees Celsius in the shaker.<br />
# Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
# Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
#Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1131ArtScience IGEM team2009-06-08T18:38:22Z<p>Sem2490: /* June 8th */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
-bacteria that prevents corrosion <br />
<br />
-Time keeper or clock<br />
<br />
-Combustible bacteria<br />
<br />
-Related to weather - smell of rain<br />
<br />
-Bacteria that is resistant to Scientific Probing/Instruments<br />
<br />
-Mirror of bacteria<br />
<br />
-Buoyant bacteria<br />
<br />
-Interactive bacteria(painting)<br />
<br />
-Another creature made from bacteria<br />
<br />
-Bacteria and sound<br />
- Bacteria visualizations. (Both colour changes and 'choreographed' movement)<br />
<br />
-Neuro transmitters- bacteria as sensors for emotions<br />
<br />
-Glue<br />
<br />
-Bacteria that detects cravings<br />
<br />
-Magnetic bacteria<br />
<br />
-Self mutating Bacteria<br />
<br />
-Lie detector<br />
<br />
-Bacteria creates an identity<br />
<br />
-Bacteria becoming material on death<br />
<br />
-Constructing a 'Bacterial Ecology'<br />
<br />
-Bacteria that acts like oil<br />
- A lubricant<br />
- A liquid that can withstand high temperatures<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
=== '''May 15th''' ===<br />
<br />
-We discussed two Claire Pentacost Readings-[http://www.clairepentecost.org/beyond_face.htm Beyond Face ] and [http://www.clairepentecost.org/lab%20of%20symbolic_text.htm Critical Inventory of BioArt ]. <br />
-The gist of the Pentacost readings were that artists work with the symbolic and that the Artist's consent to work and learn in public is important.<br />
-We also discussed the political and cultural implications of Scientific Authority.<br />
-We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]<br />
-Most of the Ideas[see above] today, dealt with the use of bacteria as <br />
-a) A sensor or Reactor - (to Inputs,emotions,light..etc)<br />
-b) A Producer (of energy, proteins..etc)<br />
-c) A Material<br />
<br />
-Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?<br />
-Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?<br />
<br />
-Replace financial transactions with Bacteria<br />
<br />
=== '''May 16th''' ===<br />
<br />
Here's some creatures we created using techno-scientific jargon and aesthetics:<br />
<gallery><br />
File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names<br />
File:Upasana.jpg|Upasana's Ideas<br />
File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''<br />
File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph<br />
File:Page_1.jpg| Avni's ''actinodopaine''<br />
File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria<br />
File:2.jpg|Immuno Bacteria<br />
File:Sanya1.jpg|Plastico Collecticus<br />
File:bactiprint.jpg|Id bacteria-Akash<br />
File:bacteria.jpg|<br />
</gallery><br />
<br />
<br />
Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.<br />
<br />
-The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies . <br />
<br />
-One of the things enduring about the reading was her appeal to "love" our creations, not in a tech.no- phillic sense but in a more nurturing and caring way.<br />
<br />
=== '''May 17th''' ===<br />
<br />
'''Hybrid creatures from mythology:'''<br />
<gallery><br />
File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification<br />
File:aker.jpg| Double headed Lion- Egyptian Earth god<br />
File:Bastet-_goddess_of_fire.jpg| Bastet - Egyptian Goddess of Fire<br />
File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance<br />
File:Khepera-_beetle_god_of_rising_sun.jpg| Khepera - Egyptian Beetle God of Rising Sun<br />
File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War<br />
File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky<br />
File:Rainbow_snake-a_kangaroo's_head,_a_crocodile's_tail_and_a_python's_body,_all_decorated_with_water_lilies_and_waving_tendrils..jpg| Australian Rainbow Snake - Kangaroo's head, Crocodile's tail, Python's body<br />
File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse<br />
File:Futakuchi-onna.jpg|J.M.-Two mouthed woman<br />
File:Sanzuniao-Three_legged_bird.jpg| Chinese three legged bird<br />
File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened<br />
File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.<br />
File:be2.jpg| Nagas<br />
File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.<br />
File:Brahma.jpg| Lord Brahma the creator.<br />
File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.<br />
File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.<br />
File:kali.jpg| Kali<br />
File:krishna1baby.jpg| Lord Krishna<br />
File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.<br />
File:narasimha2.jpg| Narasimha is believed to possess the head of a lion and the body of a human. He is one of the avatars that lord Vishnu takes.<br />
File:Valkyrie.jpg|Valkyrie<br />
File:medusa.png|Medusa<br />
File:colossus.jpg|Colossus<br />
File:Leviathan.jpg|Leviathan<br />
File:mantacore.jpg|Mantacore<br />
File:hydra.jpg|Hydra<br />
File:lucifer.jpg|Lucifer<br />
File:Freyja.jpg|Freyja<br />
File:Heimdall.jpg|Heimdall<br />
File:centaur.jpg|Centaur<br />
<br />
<br />
</gallery><br />
<br />
*[[The May 17th Notebook]]<br />
<br />
=== '''May 19th''' ===<br />
<br />
We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis<br />
And looking at some of the microscopy equipment at NCBS.<br />
<br />
*[[Mukund's Brief Overview on Synthetic Biology Basics]]<br />
<br />
*[[Gel Electrophorosis]]<br />
<br />
*([[Talk:ArtScience_IGEM_team|Click here to discuss]])<br />
<br />
*[[Streaking and Spreading to obtain bacterial colonies]] <br />
<br />
*[[Imaging]]<br />
<br />
*[[Discussion over Lunch]]<br />
<br />
<br />
----<br />
'''Some images of our day at NCBS:'''<br />
<br />
<gallery><br />
<br />
File:DSC01409.JPG|Gel electrophoresis Apparatus<br />
File:DSC01410.JPG|The Voltmeter<br />
File:DSC01411.JPG|Gel Electrophoresis Tray<br />
File:DSC01418.JPG|Some lab equipment we were working with<br />
File:DSC01419.JPG|Using micropipettes<br />
File:DSC01420.JPG|One of the steps of Gel Electrophoresis<br />
File:DSC01422.JPG|Using the Comb Tray<br />
File:DSC01425.JPG|Fixing the comb in the comb tray<br />
File:DSC01426.JPG|The Gel Electrophoresis Apparatus-1<br />
File:DSC01427.JPG|The Gel Electrophoresis Apparatus-2<br />
File:DSC01428.JPG|Using the micropipettes<br />
File:DSC01470.JPG|Mukund's Excercise- Demonstrating how DNA replicates-1<br />
File:DSC01471.JPG|Mukund's Excercise- Demonstrating how DNA replicates-2<br />
File:DSC01472.JPG|Mukund's Excercise- Demonstrating how DNA replicates-3<br />
<br />
</gallery><br />
<br />
Non-categorised images [[here]]<br />
<br />
=== '''May 21st''' ===<br />
<br />
We put down all the information that we had about learnt about geosmin. We then put down the various paths we could take in order to produce the results we wanted. This exercise cleared certain doubts we had, but also raised a lot of questions.<br />
<br />
<gallery><br />
File:geosmin_synthesis.jpg|The Scientific Representation<br />
File:Rain_scenario_1.jpg<br />
File:RAin_scenario_2.jpg<br />
File:rain_scenario_3.jpg<br />
File:Bactothing2.png|The Artistic Representation<br />
</gallery><br />
<br />
[[First Prototype of the Bacteria]]<br />
<br />
=== ''May 22nd'' ===<br />
<br />
Today's Reading:<br />
<br />
[[File:Jenshauser.png]]<br />
<br />
<br />
<br />
Some basics of Gene Expression and production of Protiens and Enzymes by Gene's<br />
<br />
<br />
===May 25th===<br />
<br />
'''May 23rd-May 25th'''<br />
<br />
Presentation ideas- Bollywood sculpture?<br />
<gallery><br />
File:Nehasculpture.jpg<br />
File:krupakar_sc.jpg<br />
File:sandeep-machine.png|Its this big box. There is a projection of a window looking out into rain. All the paraphanalia can fit in the space below. fog machine?. The curtain goes all round.<br />
File:Installation_idea.jpg<br />
</gallery><br />
<br />
<br />
<br />
'''How to read a scientific Paper''' by Mukund<br />
<br />
Scan through the entire article quickly and find out what they are saying or trying to say<br />
Do not get lost in the references beyond 2 layers<br />
<br />
<br />
how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]<br />
<br />
<br />
'''Today's Reading:'''<br />
<br />
[http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]<br />
<br />
<br/><br />
<br />
===May 27th===<br />
http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1<br />
<br />
http://umassigem.blogspot.com/<br />
<br />
http://diybio.org/2009/03/20/extract-dna-from-strawberries/<br />
<br />
<br />
===May 28th===<br />
<br />
Bio-Sculptures:<br />
Avni's 'Chicken in a Kaleidoscope'<br />
<br />
Neha's 'From a Spider'<br />
<br />
Sandeep's Mustard seeds<br />
<br />
=== May 29th ===<br />
<br />
<gallery><br />
<br />
File:TheArtScientistA.jpg|Neha's 'TheArtScientist'-Page 1<br />
<br />
File:The Art ScientistB.jpg|TheArtScientist-Page 2<br />
<br />
</gallery><br />
<br />
<br />
=== May 30th ===<br />
<br />
<br />
<br />
(all DNA pictures have been uploaded. Take your pick [[Special:ListFiles|here]]. (Not like you have a lot of options or anything..))<br />
<br />
'''Extracting DNA from Banana:'''<br />
<br />
<br />
'''What you need'''<br />
# 3 glass or clear plastic cups<br />
# A cup of water<br />
# A banana<br />
# A spoon<br />
# An eyedropper<br />
# A strainer<br />
# A funnel<br />
# A toothpick<br />
# A tablespoon of salt<br />
# 3 Tablespoons of liquid detergent containing Sodium Laurel Sulphate (look at back of the bottle)<br />
# A third of a cup of rubbing alcohol<br />
<br />
'''What you need to do'''<br />
# Put the rubbing alcohol in the freezer to chill it.<br />
# Mash the banana up with the spoon.<br />
# Strain the pulp through the funnel into one of the empty glasses (You might need some water to help it through.)<br />
# In another glass stir the detergent and salt together.<br />
# Mix the banana pulp and the salty detergent together for about a minute. Try to avoid bubbles.<br />
# When it settles, gently pour the alcohol down the side of the cup over the back end of the spoon. The alcohol should form a layer over the mixture.<br />
# Soon, you'll see tiny white strands of millions DNA gathering between the two layers.<br />
# Pick them out with the toothpick. They should be white, whiter than the rest of the banana pulp. Admire!<br />
<br />
<br />
<br />
<br />
<br />
<br />
<br />
'''Exracting DNA from Saliva:'''<br />
<br />
'''Images of our DNA we extracted from saliva:'''<br />
<gallery><br />
<br />
File:NehasDNA.JPG|Neha's DNA<br />
File:KrupakarsDNA.JPG|Krupakar's DNA<br />
File:DhruvsDNA.JPG|Dhruv's DNA<br />
File:SandeepsDNA.JPG|Sandeep's DNA<br />
<br />
</gallery><br />
<br />
<br />
===May 31st===<br />
<br />
Some interesting articles I came across.<br />
<br />
http://www.thenewatlantis.com/publications/the-promise-and-perils-of-synthetic-biology<br />
<br />
http://www.nature.com/msb/journal/v2/n1/full/msb4100104.html - I haven't read this one properly yet!! But the topic seems interesting and relevant...<br />
<br />
An interesting work i found while surfing-<br />
http://www.edgarlissel.de/data/mnemosyne_II_01e.html<br />
the photosensitive stripes are made of bacteria<br />
<br />
===June 3rd===<br />
'''''Registry of Parts Exercise'''''<br />
<br />
Sanya: Bacteria that indicates rise in and regulates body temperature.[[Media:Light.jpg]]<br />
<br />
[[Upasana]]<br />
<br />
[[Neha's Bacterial Jewellery]]<br />
<br />
===June 5th===<br />
<br />
[[Bacterial Transformation : The Process]]<br />
<br />
<gallery><br />
File:DSC_8065.jpg<br />
File:DSC_8072.jpg<br />
File:DSC_8074.jpg<br />
File:DSC_8082.jpg<br />
File:DSC_8084.jpg<br />
File:IMG_5913_-Desktop_Resolution-.JPG<br />
File:IMG_5881_-Desktop_Resolution-.JPG<br />
File:DSC_8088.jpg<br />
File:IMG 5897 -Desktop Resolution-.JPG<br />
File:DSC_8104.jpg<br />
File:DSC_8113.jpg<br />
File:IMG_5912_-Desktop_Resolution-.JPG<br />
File:DSC_8116.jpg<br />
File:IMG_5915_-Desktop_Resolution-.JPG|UV light killing unwanted bacteria<br />
File:DSC_8118.jpg<br />
File:DSC_8120.jpg<br />
File:DSC_8122.jpg<br />
File:DSC_8125.jpg<br />
File:DSC_8129.jpg<br />
File:DSC_8130.jpg<br />
File:DSC_8132.jpg<br />
File:DSC_8134.jpg<br />
File:DSC_8139.jpg<br />
File:DSC_8145.jpg<br />
File:DSC_8146.jpg<br />
File:DSC_8149.jpg<br />
File:DSC_8150.jpg<br />
File:DSC_8151.jpg<br />
File:DSC_8152.jpg<br />
File:IMG_5937_-Desktop_Resolution-.JPG<br />
File:DSC_8154.jpg<br />
File:DSC_8155.jpg<br />
File:DSC_8164.jpg<br />
File:DSC_8165.jpg<br />
File:DSC_8168.jpg<br />
File:IMG_5948_-Desktop_Resolution-.JPG<br />
File:DSC_8172.jpg<br />
File:DSC_8176.jpg<br />
File:IMG_5953_-Desktop_Resolution-.JPG<br />
<br />
</gallery><br />
<br />
===June 8th===<br />
'''Brief''' <br/><br />
The plasmids that contained the pBAD and Lysis genes that were prepared were extracted from the bacteria cultures. The unwanted protein around the DNA was then removed. After that the DNA was cleansed of any remaining salt. The plasmids were then cut at certain points such that only the required gene could be extracted. These cut parts were prepared for gel electrophoresis.<br />
<br />
===Other Teams===<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
== Readings ==<br />
<br />
<br />
'''Art and Politics'''<br />
<br />
Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]<br />
<br />
Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]<br />
<br />
Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]<br />
<br />
Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life<br />
<br />
'''Art'''<br />
<br />
GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]<br />
<br />
Adam Zaretsky[http://www.emutagen.com/]<br />
<br />
Patricia Piccinini[http://www.patriciapiccinini.net/]<br />
<br />
Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]<br />
<br />
'''Science'''<br />
<br />
What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]<br />
<br />
Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]<br />
<br />
Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/<br />
<br />
DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]<br />
<br />
"'Ethics"'<br />
<br />
Playing God for Fun and Profit[http://radar.oreilly.com/2008/02/play-god-for-fun-and-profit-mo.html]<br />
<br />
<br />
<br />
'''Design & Technology'''<br />
<br />
Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]<br />
<br />
Designer Bacteria may have a future in Fashion[http://www.nytimes.com/2001/08/19/style/designer-bacteria-may-have-a-future-in-fashion.html]<br />
<br />
Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]<br />
<br />
Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]<br />
<br />
Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]<br />
<br />
Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]<br />
<br />
'''Synthetic Biology:<br />
'''<br />
<br />
Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]<br />
<br />
Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]<br />
<br />
Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]<br />
<br />
Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]<br />
<br />
The Synthetic Biology Comic[[http://www.nature.com/nature/comics/syntheticbiologycomic/]] The .pdf version is here:[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf]<br />
<br />
Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]<br />
<br />
Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]<br />
<br />
Ibio Seminars [http://www.ibioseminars.org/]<br />
<br />
Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]<br />
<br />
Primer on Synthetic Biology[http://openwetware.org/images/3/3d/SB_Primer_100707.pdf]<br />
<br />
[[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]<br />
Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]<br />
<br />
Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]<br />
<br />
BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]<br />
<br />
[http://diybio.org/wp-content/uploads/2009/04/CodeCon09_SynthBio_tutorial_handout/appendix3%20-%20GinkgoBioworks%20guide%20to%20engineering%20biology.pdf Ginko BioWorks Guide to Synthetic Biology]<br />
<br />
[http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast]<br />
<br />
[http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms]<br />
<br />
'''General Design Links'''<br />
<br />
http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/<br />
<br />
http://www.wallwisher.com/wall/iGemSrishti</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1130ArtScience IGEM team2009-06-08T18:35:03Z<p>Sem2490: </p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
-bacteria that prevents corrosion <br />
<br />
-Time keeper or clock<br />
<br />
-Combustible bacteria<br />
<br />
-Related to weather - smell of rain<br />
<br />
-Bacteria that is resistant to Scientific Probing/Instruments<br />
<br />
-Mirror of bacteria<br />
<br />
-Buoyant bacteria<br />
<br />
-Interactive bacteria(painting)<br />
<br />
-Another creature made from bacteria<br />
<br />
-Bacteria and sound<br />
- Bacteria visualizations. (Both colour changes and 'choreographed' movement)<br />
<br />
-Neuro transmitters- bacteria as sensors for emotions<br />
<br />
-Glue<br />
<br />
-Bacteria that detects cravings<br />
<br />
-Magnetic bacteria<br />
<br />
-Self mutating Bacteria<br />
<br />
-Lie detector<br />
<br />
-Bacteria creates an identity<br />
<br />
-Bacteria becoming material on death<br />
<br />
-Constructing a 'Bacterial Ecology'<br />
<br />
-Bacteria that acts like oil<br />
- A lubricant<br />
- A liquid that can withstand high temperatures<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
=== '''May 15th''' ===<br />
<br />
-We discussed two Claire Pentacost Readings-[http://www.clairepentecost.org/beyond_face.htm Beyond Face ] and [http://www.clairepentecost.org/lab%20of%20symbolic_text.htm Critical Inventory of BioArt ]. <br />
-The gist of the Pentacost readings were that artists work with the symbolic and that the Artist's consent to work and learn in public is important.<br />
-We also discussed the political and cultural implications of Scientific Authority.<br />
-We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]<br />
-Most of the Ideas[see above] today, dealt with the use of bacteria as <br />
-a) A sensor or Reactor - (to Inputs,emotions,light..etc)<br />
-b) A Producer (of energy, proteins..etc)<br />
-c) A Material<br />
<br />
-Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?<br />
-Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?<br />
<br />
-Replace financial transactions with Bacteria<br />
<br />
=== '''May 16th''' ===<br />
<br />
Here's some creatures we created using techno-scientific jargon and aesthetics:<br />
<gallery><br />
File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names<br />
File:Upasana.jpg|Upasana's Ideas<br />
File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''<br />
File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph<br />
File:Page_1.jpg| Avni's ''actinodopaine''<br />
File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria<br />
File:2.jpg|Immuno Bacteria<br />
File:Sanya1.jpg|Plastico Collecticus<br />
File:bactiprint.jpg|Id bacteria-Akash<br />
File:bacteria.jpg|<br />
</gallery><br />
<br />
<br />
Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.<br />
<br />
-The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies . <br />
<br />
-One of the things enduring about the reading was her appeal to "love" our creations, not in a tech.no- phillic sense but in a more nurturing and caring way.<br />
<br />
=== '''May 17th''' ===<br />
<br />
'''Hybrid creatures from mythology:'''<br />
<gallery><br />
File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification<br />
File:aker.jpg| Double headed Lion- Egyptian Earth god<br />
File:Bastet-_goddess_of_fire.jpg| Bastet - Egyptian Goddess of Fire<br />
File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance<br />
File:Khepera-_beetle_god_of_rising_sun.jpg| Khepera - Egyptian Beetle God of Rising Sun<br />
File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War<br />
File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky<br />
File:Rainbow_snake-a_kangaroo's_head,_a_crocodile's_tail_and_a_python's_body,_all_decorated_with_water_lilies_and_waving_tendrils..jpg| Australian Rainbow Snake - Kangaroo's head, Crocodile's tail, Python's body<br />
File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse<br />
File:Futakuchi-onna.jpg|J.M.-Two mouthed woman<br />
File:Sanzuniao-Three_legged_bird.jpg| Chinese three legged bird<br />
File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened<br />
File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.<br />
File:be2.jpg| Nagas<br />
File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.<br />
File:Brahma.jpg| Lord Brahma the creator.<br />
File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.<br />
File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.<br />
File:kali.jpg| Kali<br />
File:krishna1baby.jpg| Lord Krishna<br />
File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.<br />
File:narasimha2.jpg| Narasimha is believed to possess the head of a lion and the body of a human. He is one of the avatars that lord Vishnu takes.<br />
File:Valkyrie.jpg|Valkyrie<br />
File:medusa.png|Medusa<br />
File:colossus.jpg|Colossus<br />
File:Leviathan.jpg|Leviathan<br />
File:mantacore.jpg|Mantacore<br />
File:hydra.jpg|Hydra<br />
File:lucifer.jpg|Lucifer<br />
File:Freyja.jpg|Freyja<br />
File:Heimdall.jpg|Heimdall<br />
File:centaur.jpg|Centaur<br />
<br />
<br />
</gallery><br />
<br />
*[[The May 17th Notebook]]<br />
<br />
=== '''May 19th''' ===<br />
<br />
We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis<br />
And looking at some of the microscopy equipment at NCBS.<br />
<br />
*[[Mukund's Brief Overview on Synthetic Biology Basics]]<br />
<br />
*[[Gel Electrophorosis]]<br />
<br />
*([[Talk:ArtScience_IGEM_team|Click here to discuss]])<br />
<br />
*[[Streaking and Spreading to obtain bacterial colonies]] <br />
<br />
*[[Imaging]]<br />
<br />
*[[Discussion over Lunch]]<br />
<br />
<br />
----<br />
'''Some images of our day at NCBS:'''<br />
<br />
<gallery><br />
<br />
File:DSC01409.JPG|Gel electrophoresis Apparatus<br />
File:DSC01410.JPG|The Voltmeter<br />
File:DSC01411.JPG|Gel Electrophoresis Tray<br />
File:DSC01418.JPG|Some lab equipment we were working with<br />
File:DSC01419.JPG|Using micropipettes<br />
File:DSC01420.JPG|One of the steps of Gel Electrophoresis<br />
File:DSC01422.JPG|Using the Comb Tray<br />
File:DSC01425.JPG|Fixing the comb in the comb tray<br />
File:DSC01426.JPG|The Gel Electrophoresis Apparatus-1<br />
File:DSC01427.JPG|The Gel Electrophoresis Apparatus-2<br />
File:DSC01428.JPG|Using the micropipettes<br />
File:DSC01470.JPG|Mukund's Excercise- Demonstrating how DNA replicates-1<br />
File:DSC01471.JPG|Mukund's Excercise- Demonstrating how DNA replicates-2<br />
File:DSC01472.JPG|Mukund's Excercise- Demonstrating how DNA replicates-3<br />
<br />
</gallery><br />
<br />
Non-categorised images [[here]]<br />
<br />
=== '''May 21st''' ===<br />
<br />
We put down all the information that we had about learnt about geosmin. We then put down the various paths we could take in order to produce the results we wanted. This exercise cleared certain doubts we had, but also raised a lot of questions.<br />
<br />
<gallery><br />
File:geosmin_synthesis.jpg|The Scientific Representation<br />
File:Rain_scenario_1.jpg<br />
File:RAin_scenario_2.jpg<br />
File:rain_scenario_3.jpg<br />
File:Bactothing2.png|The Artistic Representation<br />
</gallery><br />
<br />
[[First Prototype of the Bacteria]]<br />
<br />
=== ''May 22nd'' ===<br />
<br />
Today's Reading:<br />
<br />
[[File:Jenshauser.png]]<br />
<br />
<br />
<br />
Some basics of Gene Expression and production of Protiens and Enzymes by Gene's<br />
<br />
<br />
===May 25th===<br />
<br />
'''May 23rd-May 25th'''<br />
<br />
Presentation ideas- Bollywood sculpture?<br />
<gallery><br />
File:Nehasculpture.jpg<br />
File:krupakar_sc.jpg<br />
File:sandeep-machine.png|Its this big box. There is a projection of a window looking out into rain. All the paraphanalia can fit in the space below. fog machine?. The curtain goes all round.<br />
File:Installation_idea.jpg<br />
</gallery><br />
<br />
<br />
<br />
'''How to read a scientific Paper''' by Mukund<br />
<br />
Scan through the entire article quickly and find out what they are saying or trying to say<br />
Do not get lost in the references beyond 2 layers<br />
<br />
<br />
how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]<br />
<br />
<br />
'''Today's Reading:'''<br />
<br />
[http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]<br />
<br />
<br/><br />
<br />
===May 27th===<br />
http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1<br />
<br />
http://umassigem.blogspot.com/<br />
<br />
http://diybio.org/2009/03/20/extract-dna-from-strawberries/<br />
<br />
<br />
===May 28th===<br />
<br />
Bio-Sculptures:<br />
Avni's 'Chicken in a Kaleidoscope'<br />
<br />
Neha's 'From a Spider'<br />
<br />
Sandeep's Mustard seeds<br />
<br />
=== May 29th ===<br />
<br />
<gallery><br />
<br />
File:TheArtScientistA.jpg|Neha's 'TheArtScientist'-Page 1<br />
<br />
File:The Art ScientistB.jpg|TheArtScientist-Page 2<br />
<br />
</gallery><br />
<br />
<br />
=== May 30th ===<br />
<br />
<br />
<br />
(all DNA pictures have been uploaded. Take your pick [[Special:ListFiles|here]]. (Not like you have a lot of options or anything..))<br />
<br />
'''Extracting DNA from Banana:'''<br />
<br />
<br />
'''What you need'''<br />
# 3 glass or clear plastic cups<br />
# A cup of water<br />
# A banana<br />
# A spoon<br />
# An eyedropper<br />
# A strainer<br />
# A funnel<br />
# A toothpick<br />
# A tablespoon of salt<br />
# 3 Tablespoons of liquid detergent containing Sodium Laurel Sulphate (look at back of the bottle)<br />
# A third of a cup of rubbing alcohol<br />
<br />
'''What you need to do'''<br />
# Put the rubbing alcohol in the freezer to chill it.<br />
# Mash the banana up with the spoon.<br />
# Strain the pulp through the funnel into one of the empty glasses (You might need some water to help it through.)<br />
# In another glass stir the detergent and salt together.<br />
# Mix the banana pulp and the salty detergent together for about a minute. Try to avoid bubbles.<br />
# When it settles, gently pour the alcohol down the side of the cup over the back end of the spoon. The alcohol should form a layer over the mixture.<br />
# Soon, you'll see tiny white strands of millions DNA gathering between the two layers.<br />
# Pick them out with the toothpick. They should be white, whiter than the rest of the banana pulp. Admire!<br />
<br />
<br />
<br />
<br />
<br />
<br />
<br />
'''Exracting DNA from Saliva:'''<br />
<br />
'''Images of our DNA we extracted from saliva:'''<br />
<gallery><br />
<br />
File:NehasDNA.JPG|Neha's DNA<br />
File:KrupakarsDNA.JPG|Krupakar's DNA<br />
File:DhruvsDNA.JPG|Dhruv's DNA<br />
File:SandeepsDNA.JPG|Sandeep's DNA<br />
<br />
</gallery><br />
<br />
<br />
===May 31st===<br />
<br />
Some interesting articles I came across.<br />
<br />
http://www.thenewatlantis.com/publications/the-promise-and-perils-of-synthetic-biology<br />
<br />
http://www.nature.com/msb/journal/v2/n1/full/msb4100104.html - I haven't read this one properly yet!! But the topic seems interesting and relevant...<br />
<br />
An interesting work i found while surfing-<br />
http://www.edgarlissel.de/data/mnemosyne_II_01e.html<br />
the photosensitive stripes are made of bacteria<br />
<br />
===June 3rd===<br />
'''''Registry of Parts Exercise'''''<br />
<br />
Sanya: Bacteria that indicates rise in and regulates body temperature.[[Media:Light.jpg]]<br />
<br />
[[Upasana]]<br />
<br />
[[Neha's Bacterial Jewellery]]<br />
<br />
===June 5th===<br />
<br />
[[Bacterial Transformation : The Process]]<br />
<br />
<gallery><br />
File:DSC_8065.jpg<br />
File:DSC_8072.jpg<br />
File:DSC_8074.jpg<br />
File:DSC_8082.jpg<br />
File:DSC_8084.jpg<br />
File:IMG_5913_-Desktop_Resolution-.JPG<br />
File:IMG_5881_-Desktop_Resolution-.JPG<br />
File:DSC_8088.jpg<br />
File:IMG 5897 -Desktop Resolution-.JPG<br />
File:DSC_8104.jpg<br />
File:DSC_8113.jpg<br />
File:IMG_5912_-Desktop_Resolution-.JPG<br />
File:DSC_8116.jpg<br />
File:IMG_5915_-Desktop_Resolution-.JPG|UV light killing unwanted bacteria<br />
File:DSC_8118.jpg<br />
File:DSC_8120.jpg<br />
File:DSC_8122.jpg<br />
File:DSC_8125.jpg<br />
File:DSC_8129.jpg<br />
File:DSC_8130.jpg<br />
File:DSC_8132.jpg<br />
File:DSC_8134.jpg<br />
File:DSC_8139.jpg<br />
File:DSC_8145.jpg<br />
File:DSC_8146.jpg<br />
File:DSC_8149.jpg<br />
File:DSC_8150.jpg<br />
File:DSC_8151.jpg<br />
File:DSC_8152.jpg<br />
File:IMG_5937_-Desktop_Resolution-.JPG<br />
File:DSC_8154.jpg<br />
File:DSC_8155.jpg<br />
File:DSC_8164.jpg<br />
File:DSC_8165.jpg<br />
File:DSC_8168.jpg<br />
File:IMG_5948_-Desktop_Resolution-.JPG<br />
File:DSC_8172.jpg<br />
File:DSC_8176.jpg<br />
File:IMG_5953_-Desktop_Resolution-.JPG<br />
<br />
</gallery><br />
<br />
===June 8th===<br />
'''Brief'''<br />
The plasmids that contained the pBAD and Lysis genes that were prepared were extracted from the bacteria cultures. The unwanted protein around the DNA was then removed. After that the DNA was cleansed of any remaining salt. The plasmids were then cut at certain points such that only the required gene could be extracted. These cut parts were prepared for gel electrophoresis.<br />
<br />
===Other Teams===<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
== Readings ==<br />
<br />
<br />
'''Art and Politics'''<br />
<br />
Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]<br />
<br />
Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]<br />
<br />
Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]<br />
<br />
Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life<br />
<br />
'''Art'''<br />
<br />
GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]<br />
<br />
Adam Zaretsky[http://www.emutagen.com/]<br />
<br />
Patricia Piccinini[http://www.patriciapiccinini.net/]<br />
<br />
Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]<br />
<br />
'''Science'''<br />
<br />
What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]<br />
<br />
Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]<br />
<br />
Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/<br />
<br />
DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]<br />
<br />
"'Ethics"'<br />
<br />
Playing God for Fun and Profit[http://radar.oreilly.com/2008/02/play-god-for-fun-and-profit-mo.html]<br />
<br />
<br />
<br />
'''Design & Technology'''<br />
<br />
Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]<br />
<br />
Designer Bacteria may have a future in Fashion[http://www.nytimes.com/2001/08/19/style/designer-bacteria-may-have-a-future-in-fashion.html]<br />
<br />
Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]<br />
<br />
Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]<br />
<br />
Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]<br />
<br />
Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]<br />
<br />
'''Synthetic Biology:<br />
'''<br />
<br />
Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]<br />
<br />
Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]<br />
<br />
Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]<br />
<br />
Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]<br />
<br />
The Synthetic Biology Comic[[http://www.nature.com/nature/comics/syntheticbiologycomic/]] The .pdf version is here:[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf]<br />
<br />
Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]<br />
<br />
Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]<br />
<br />
Ibio Seminars [http://www.ibioseminars.org/]<br />
<br />
Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]<br />
<br />
Primer on Synthetic Biology[http://openwetware.org/images/3/3d/SB_Primer_100707.pdf]<br />
<br />
[[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]<br />
Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]<br />
<br />
Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]<br />
<br />
BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]<br />
<br />
[http://diybio.org/wp-content/uploads/2009/04/CodeCon09_SynthBio_tutorial_handout/appendix3%20-%20GinkgoBioworks%20guide%20to%20engineering%20biology.pdf Ginko BioWorks Guide to Synthetic Biology]<br />
<br />
[http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast]<br />
<br />
[http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms]<br />
<br />
'''General Design Links'''<br />
<br />
http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/<br />
<br />
http://www.wallwisher.com/wall/iGemSrishti</div>Sem2490http://www.hackteria.org/wiki/index.php?title=Bacterial_Transformation_:_The_Process&diff=1058Bacterial Transformation : The Process2009-06-08T05:08:05Z<p>Sem2490: </p>
<hr />
<div>[[File:DSC_8120.jpg|200px|thumb|right|The four eppendorf tubes being cooled]]<br />
1. 4 eppendorf tube were taken and marked lysis, p-tet, positive and negative. <br />
<br />
[[File:DSC_8120.jpg|200px|thumb|right|The dry DNA being extracted]]<br />
<br />
2. The dry DNA from the DNA Distribution Kit was extracted by mixing each part with 15 micro ml of water using a micro-pipette.<br />
<br />
3. 2-3 micro ml of this plasmid solution was then added to 100 micro ml of DH 5-alpha E.Coli cells.<br />
<br />
4. The positive and negative marked tubes were also filled with control plasmids.<br />
<br />
5. The tubes were incubated in ice for 40 minutes, then given a heat shock for 30 seconds @ 42 degrees Celsius and then put in ice for 2-5 minutes.<br />
<br />
6. They were mixed with 330 micro ml LB (Luria Bertani).<br />
<br />
7. Left to grow for approximately an hour @ 37 degrees Celsius in the shaker.<br />
<br />
8. Centrifuged at room temperature for 3 minutes @ 8000 rpm. <br />
<br />
9. Discard 900 micro ml of the super-natured solution and dissolve pellets in remaining 100 micro ml. These were then spread on LB Agar plates containing 100 micro gram per ml Ampicillin.<br />
<br />
10.Plates were incubated at 37 degrees Celsius overnight.</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1057ArtScience IGEM team2009-06-08T04:48:26Z<p>Sem2490: /* June 5th */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
-bacteria that prevents corrosion <br />
<br />
-Time keeper or clock<br />
<br />
-Combustible bacteria<br />
<br />
-Related to weather - smell of rain<br />
<br />
-Bacteria that is resistant to Scientific Probing/Instruments<br />
<br />
-Mirror of bacteria<br />
<br />
-Buoyant bacteria<br />
<br />
-Interactive bacteria(painting)<br />
<br />
-Another creature made from bacteria<br />
<br />
-Bacteria and sound<br />
- Bacteria visualizations. (Both colour changes and 'choreographed' movement)<br />
<br />
-Neuro transmitters- bacteria as sensors for emotions<br />
<br />
-Glue<br />
<br />
-Bacteria that detects cravings<br />
<br />
-Magnetic bacteria<br />
<br />
-Self mutating Bacteria<br />
<br />
-Lie detector<br />
<br />
-Bacteria creates an identity<br />
<br />
-Bacteria becoming material on death<br />
<br />
-Constructing a 'Bacterial Ecology'<br />
<br />
-Bacteria that acts like oil<br />
- A lubricant<br />
- A liquid that can withstand high temperatures<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
=== '''May 15th''' ===<br />
<br />
-We discussed two Claire Pentacost Readings-[http://www.clairepentecost.org/beyond_face.htm Beyond Face ] and [http://www.clairepentecost.org/lab%20of%20symbolic_text.htm Critical Inventory of BioArt ]. <br />
-The gist of the Pentacost readings were that artists work with the symbolic and that the Artist's consent to work and learn in public is important.<br />
-We also discussed the political and cultural implications of Scientific Authority.<br />
-We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]<br />
-Most of the Ideas[see above] today, dealt with the use of bacteria as <br />
-a) A sensor or Reactor - (to Inputs,emotions,light..etc)<br />
-b) A Producer (of energy, proteins..etc)<br />
-c) A Material<br />
<br />
-Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?<br />
-Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?<br />
<br />
-Replace financial transactions with Bacteria<br />
<br />
=== '''May 16th''' ===<br />
<br />
Here's some creatures we created using techno-scientific jargon and aesthetics:<br />
<gallery><br />
File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names<br />
File:Upasana.jpg|Upasana's Ideas<br />
File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''<br />
File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph<br />
File:Page_1.jpg| Avni's ''actinodopaine''<br />
File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria<br />
File:2.jpg|Immuno Bacteria<br />
File:Sanya1.jpg|Plastico Collecticus<br />
File:bactiprint.jpg|Id bacteria-Akash<br />
File:bacteria.jpg|<br />
</gallery><br />
<br />
<br />
Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.<br />
<br />
-The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies . <br />
<br />
-One of the things enduring about the reading was her appeal to "love" our creations, not in a tech.no- phillic sense but in a more nurturing and caring way.<br />
<br />
=== '''May 17th''' ===<br />
<br />
'''Hybrid creatures from mythology:'''<br />
<gallery><br />
File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification<br />
File:aker.jpg| Double headed Lion- Egyptian Earth god<br />
File:Bastet-_goddess_of_fire.jpg| Bastet - Egyptian Goddess of Fire<br />
File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance<br />
File:Khepera-_beetle_god_of_rising_sun.jpg| Khepera - Egyptian Beetle God of Rising Sun<br />
File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War<br />
File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky<br />
File:Rainbow_snake-a_kangaroo's_head,_a_crocodile's_tail_and_a_python's_body,_all_decorated_with_water_lilies_and_waving_tendrils..jpg| Australian Rainbow Snake - Kangaroo's head, Crocodile's tail, Python's body<br />
File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse<br />
File:Futakuchi-onna.jpg|J.M.-Two mouthed woman<br />
File:Sanzuniao-Three_legged_bird.jpg| Chinese three legged bird<br />
File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened<br />
File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.<br />
File:be2.jpg| Nagas<br />
File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.<br />
File:Brahma.jpg| Lord Brahma the creator.<br />
File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.<br />
File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.<br />
File:kali.jpg| Kali<br />
File:krishna1baby.jpg| Lord Krishna<br />
File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.<br />
File:narasimha2.jpg| Narasimha is believed to possess the head of a lion and the body of a human. He is one of the avatars that lord Vishnu takes.<br />
File:Valkyrie.jpg|Valkyrie<br />
File:medusa.png|Medusa<br />
File:colossus.jpg|Colossus<br />
File:Leviathan.jpg|Leviathan<br />
File:mantacore.jpg|Mantacore<br />
File:hydra.jpg|Hydra<br />
File:lucifer.jpg|Lucifer<br />
File:Freyja.jpg|Freyja<br />
File:Heimdall.jpg|Heimdall<br />
File:centaur.jpg|Centaur<br />
<br />
<br />
</gallery><br />
<br />
*[[The May 17th Notebook]]<br />
<br />
=== '''May 19th''' ===<br />
<br />
We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis<br />
And looking at some of the microscopy equipment at NCBS.<br />
<br />
*[[Mukund's Brief Overview on Synthetic Biology Basics]]<br />
<br />
*[[Gel Electrophorosis]]<br />
<br />
*([[Talk:ArtScience_IGEM_team|Click here to discuss]])<br />
<br />
*[[Streaking and Spreading to obtain bacterial colonies]] <br />
<br />
*[[Imaging]]<br />
<br />
*[[Discussion over Lunch]]<br />
<br />
<br />
----<br />
'''Some images of our day at NCBS:'''<br />
<br />
<gallery><br />
<br />
File:DSC01409.JPG|Gel electrophoresis Apparatus<br />
File:DSC01410.JPG|The Voltmeter<br />
File:DSC01411.JPG|Gel Electrophoresis Tray<br />
File:DSC01418.JPG|Some lab equipment we were working with<br />
File:DSC01419.JPG|Using micropipettes<br />
File:DSC01420.JPG|One of the steps of Gel Electrophoresis<br />
File:DSC01422.JPG|Using the Comb Tray<br />
File:DSC01425.JPG|Fixing the comb in the comb tray<br />
<br />
File:DSC01426.JPG|The Gel Electrophoresis Apparatus-1<br />
File:DSC01427.JPG|The Gel Electrophoresis Apparatus-2<br />
<br />
File:DSC01428.JPG|Using the micropipettes<br />
File:DSC01429.JPG<br />
File:DSC01430.JPG<br />
File:DSC01431.JPG<br />
File:DSC01432.JPG<br />
File:DSC01433.JPG<br />
File:DSC01438.JPG<br />
File:DSC01443.JPG<br />
File:DSC01456.JPG<br />
File:DSC01457.JPG<br />
File:DSC01458.JPG<br />
File:DSC01459.JPG<br />
File:DSC01460.JPG<br />
File:DSC01463.JPG<br />
File:DSC01466.JPG<br />
File:DSC01468.JPG<br />
File:DSC01470.JPG|Mukund's Excercise- Demonstrating how DNA replicates-1<br />
File:DSC01471.JPG|Mukund's Excercise- Demonstrating how DNA replicates-2<br />
File:DSC01472.JPG|Mukund's Excercise- Demonstrating how DNA replicates-3<br />
File:DSC_7960.jpg<br />
File:DSC_7959.jpg<br />
File:DSC_7955.jpg<br />
File:DSC_7947.jpg<br />
File:DSC_7936.jpg<br />
File:DSC_7928.jpg<br />
File:A.jpg<br />
File:DSC_7963.jpg<br />
File:DSC_7976.jpg<br />
File:DSC_7977.jpg<br />
File:DSC_7980.jpg<br />
File:DSC_7985.jpg<br />
</gallery><br />
<br />
=== '''May 21st''' ===<br />
<br />
We put down all the information that we had about learnt about geosmin. We then put down the various paths we could take in order to produce the results we wanted. This exercise cleared certain doubts we had, but also raised a lot of questions.<br />
<br />
<gallery><br />
File:geosmin_synthesis.jpg|The Scientific Representation<br />
File:Rain_scenario_1.jpg<br />
File:RAin_scenario_2.jpg<br />
File:rain_scenario_3.jpg<br />
File:Bactothing2.png|The Artistic Representation<br />
</gallery><br />
<br />
[[First Prototype of the Bacteria]]<br />
<br />
=== ''May 22nd'' ===<br />
<br />
Today's Reading:<br />
<br />
[[File:Jenshauser.png]]<br />
<br />
<br />
<br />
Some basics of Gene Expression and production of Protiens and Enzymes by Gene's<br />
<br />
<br />
===May 25th===<br />
<br />
'''May 23rd-May 25th'''<br />
<br />
Presentation ideas- Bollywood sculpture?<br />
<gallery><br />
File:Nehasculpture.jpg<br />
File:krupakar_sc.jpg<br />
File:sandeep-machine.png|Its this big box. There is a projection of a window looking out into rain. All the paraphanalia can fit in the space below. fog machine?. The curtain goes all round.<br />
File:Installation_idea.jpg<br />
</gallery><br />
<br />
<br />
<br />
'''How to read a scientific Paper''' by Mukund<br />
<br />
Scan through the entire article quickly and find out what they are saying or trying to say<br />
Do not get lost in the references beyond 2 layers<br />
<br />
<br />
how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]<br />
<br />
<br />
'''Today's Reading:'''<br />
<br />
[http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]<br />
<br />
<br/><br />
<br />
===May 27th===<br />
http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1<br />
<br />
http://umassigem.blogspot.com/<br />
<br />
http://diybio.org/2009/03/20/extract-dna-from-strawberries/<br />
<br />
<br />
===May 28th===<br />
<br />
<br />
Chicken in a Kaledioscope<br />
<br />
<br />
<br />
=== May 29th ===<br />
<br />
<gallery><br />
<br />
File:TheArtScientistA.jpg|Neha's 'TheArtScientist'-Page 1<br />
<br />
File:The Art ScientistB.jpg|TheArtScientist-Page 2<br />
<br />
</gallery><br />
<br />
<br />
=== May 30th ===<br />
<br />
<br />
<br />
(all DNA pictures have been uploaded. Take your pick [[Special:ListFiles|here]]. (Not like you have a lot of options or anything..))<br />
<br />
'''Extracting DNA from Banana:'''<br />
<br />
<br />
'''What you need'''<br />
# 3 glass or clear plastic cups<br />
# A cup of water<br />
# A banana<br />
# A spoon<br />
# An eyedropper<br />
# A strainer<br />
# A funnel<br />
# A toothpick<br />
# A tablespoon of salt<br />
# 3 Tablespoons of liquid detergent containing Sodium Laurel Sulphate (look at back of the bottle)<br />
# A third of a cup of rubbing alcohol<br />
<br />
'''What you need to do'''<br />
# Put the rubbing alcohol in the freezer to chill it.<br />
# Mash the banana up with the spoon.<br />
# Strain the pulp through the funnel into one of the empty glasses (You might need some water to help it through.)<br />
# In another glass stir the detergent and salt together.<br />
# Mix the banana pulp and the salty detergent together for about a minute. Try to avoid bubbles.<br />
# When it settles, gently pour the alcohol down the side of the cup over the back end of the spoon. The alcohol should form a layer over the mixture.<br />
# Soon, you'll see tiny white strands of millions DNA gathering between the two layers.<br />
# Pick them out with the toothpick. They should be white, whiter than the rest of the banana pulp. Admire!<br />
<br />
<br />
<br />
<br />
<br />
<br />
<br />
'''Exracting DNA from Saliva:'''<br />
<br />
'''Images of our DNA we extracted from saliva:'''<br />
<gallery><br />
<br />
File:NehasDNA.JPG|Neha's DNA<br />
File:KrupakarsDNA.JPG|Krupakar's DNA<br />
File:DhruvsDNA.JPG|Dhruv's DNA<br />
File:SandeepsDNA.JPG|Sandeep's DNA<br />
<br />
</gallery><br />
<br />
<br />
===May 31st===<br />
<br />
Some interesting articles I came across.<br />
<br />
http://www.thenewatlantis.com/publications/the-promise-and-perils-of-synthetic-biology<br />
<br />
http://www.nature.com/msb/journal/v2/n1/full/msb4100104.html - I haven't read this one properly yet!! But the topic seems interesting and relevant...<br />
<br />
An interesting work i found while surfing-<br />
http://www.edgarlissel.de/data/mnemosyne_II_01e.html<br />
the photosensitive stripes are made of bacteria<br />
<br />
===June 3rd===<br />
'''''Registry of Parts Exercise'''''<br />
<br />
Sanya: Bacteria that indicates rise in and regulates body temperature.[[Media:Light.jpg]]<br />
<br />
[[Upasana]]<br />
<br />
[[Neha's Bacterial Jewellery]]<br />
<br />
===June 5th===<br />
<br />
[[Bacterial Transformation : The Process]]<br />
<br />
<gallery><br />
File:DSC_8065.jpg<br />
File:DSC_8072.jpg<br />
File:DSC_8074.jpg<br />
File:DSC_8082.jpg<br />
File:DSC_8084.jpg<br />
File:IMG_5913_-Desktop_Resolution-.JPG<br />
File:IMG_5881_-Desktop_Resolution-.JPG<br />
File:DSC_8088.jpg<br />
File:IMG 5897 -Desktop Resolution-.JPG<br />
File:DSC_8104.jpg<br />
File:DSC_8113.jpg<br />
File:IMG_5912_-Desktop_Resolution-.JPG<br />
File:DSC_8116.jpg<br />
File:IMG_5915_-Desktop_Resolution-.JPG|UV light killing unwanted bacteria<br />
File:DSC_8118.jpg<br />
File:DSC_8120.jpg<br />
File:DSC_8122.jpg<br />
File:DSC_8125.jpg<br />
File:DSC_8129.jpg<br />
File:DSC_8130.jpg<br />
File:DSC_8132.jpg<br />
File:DSC_8134.jpg<br />
File:DSC_8139.jpg<br />
File:DSC_8145.jpg<br />
File:DSC_8146.jpg<br />
File:DSC_8149.jpg<br />
File:DSC_8150.jpg<br />
File:DSC_8151.jpg<br />
File:DSC_8152.jpg<br />
File:IMG_5937_-Desktop_Resolution-.JPG<br />
File:DSC_8154.jpg<br />
File:DSC_8155.jpg<br />
File:DSC_8164.jpg<br />
File:DSC_8165.jpg<br />
File:DSC_8168.jpg<br />
File:IMG_5948_-Desktop_Resolution-.JPG<br />
File:DSC_8172.jpg<br />
File:DSC_8176.jpg<br />
File:IMG_5953_-Desktop_Resolution-.JPG<br />
<br />
</gallery><br />
<br />
===Other Teams===<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
== Readings ==<br />
<br />
<br />
'''Art and Politics'''<br />
<br />
Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]<br />
<br />
Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]<br />
<br />
Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]<br />
<br />
Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life<br />
<br />
'''Art'''<br />
<br />
GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]<br />
<br />
Adam Zaretsky[http://www.emutagen.com/]<br />
<br />
Patricia Piccinini[http://www.patriciapiccinini.net/]<br />
<br />
Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]<br />
<br />
'''Science'''<br />
<br />
What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]<br />
<br />
Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]<br />
<br />
Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/<br />
<br />
DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]<br />
<br />
"'Ethics"'<br />
<br />
Playing God for Fun and Profit[http://radar.oreilly.com/2008/02/play-god-for-fun-and-profit-mo.html]<br />
<br />
<br />
<br />
'''Design & Technology'''<br />
<br />
Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]<br />
<br />
Designer Bacteria may have a future in Fashion[http://www.nytimes.com/2001/08/19/style/designer-bacteria-may-have-a-future-in-fashion.html]<br />
<br />
Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]<br />
<br />
Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]<br />
<br />
Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]<br />
<br />
Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]<br />
<br />
'''Synthetic Biology:<br />
'''<br />
<br />
Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]<br />
<br />
Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]<br />
<br />
Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]<br />
<br />
Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]<br />
<br />
The Synthetic Biology Comic[[http://www.nature.com/nature/comics/syntheticbiologycomic/]] The .pdf version is here:[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf]<br />
<br />
Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]<br />
<br />
Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]<br />
<br />
Ibio Seminars [http://www.ibioseminars.org/]<br />
<br />
Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]<br />
<br />
Primer on Synthetic Biology[http://openwetware.org/images/3/3d/SB_Primer_100707.pdf]<br />
<br />
[[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]<br />
Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]<br />
<br />
Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]<br />
<br />
BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]<br />
<br />
[http://diybio.org/wp-content/uploads/2009/04/CodeCon09_SynthBio_tutorial_handout/appendix3%20-%20GinkgoBioworks%20guide%20to%20engineering%20biology.pdf Ginko BioWorks Guide to Synthetic Biology]<br />
<br />
[http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast]<br />
<br />
[http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms]<br />
<br />
'''General Design Links'''<br />
<br />
http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/<br />
<br />
http://www.wallwisher.com/wall/iGemSrishti</div>Sem2490http://www.hackteria.org/wiki/index.php?title=ArtScience_IGEM_team&diff=1056ArtScience IGEM team2009-06-08T04:41:43Z<p>Sem2490: /* June 5th */</p>
<hr />
<div>[[File:Igemsrishtilogo.png]]<br />
<br />
<br />
== People ==<br />
<br />
<br />
[[User:navadrian.cinthus|Akash Hirosh]]<br />
<br />
[[User:iamnosuperman|Dhruv Nawani]]<br />
<br />
[[Nikhil Patil]]<br />
<br />
[[Upasana Simha]]<br />
<br />
[[User:Sem2490|Sandeep Mathew]]<br />
<br />
[[Sanya Rai Gupta]]<br />
<br />
[[Avni Sethi]]<br />
<br />
[[User:NehaBhat|Neha Bhat]]<br />
<br />
[[User:Gautamf472|Gautam Vishwanath]]<br />
<br />
[[Krupakar Dhinakaran]]<br />
<br />
==Ideas==<br />
<br />
[[File:Whiteboard.jpg|820px|none|Click for a closer look]] <br />
<br />
-bacteria that prevents corrosion <br />
<br />
-Time keeper or clock<br />
<br />
-Combustible bacteria<br />
<br />
-Related to weather - smell of rain<br />
<br />
-Bacteria that is resistant to Scientific Probing/Instruments<br />
<br />
-Mirror of bacteria<br />
<br />
-Buoyant bacteria<br />
<br />
-Interactive bacteria(painting)<br />
<br />
-Another creature made from bacteria<br />
<br />
-Bacteria and sound<br />
- Bacteria visualizations. (Both colour changes and 'choreographed' movement)<br />
<br />
-Neuro transmitters- bacteria as sensors for emotions<br />
<br />
-Glue<br />
<br />
-Bacteria that detects cravings<br />
<br />
-Magnetic bacteria<br />
<br />
-Self mutating Bacteria<br />
<br />
-Lie detector<br />
<br />
-Bacteria creates an identity<br />
<br />
-Bacteria becoming material on death<br />
<br />
-Constructing a 'Bacterial Ecology'<br />
<br />
-Bacteria that acts like oil<br />
- A lubricant<br />
- A liquid that can withstand high temperatures<br />
<br />
* Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure.<br />
<br />
*Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.<br />
<br />
== Workshop ==<br />
<br />
=== '''May 15th''' ===<br />
<br />
-We discussed two Claire Pentacost Readings-[http://www.clairepentecost.org/beyond_face.htm Beyond Face ] and [http://www.clairepentecost.org/lab%20of%20symbolic_text.htm Critical Inventory of BioArt ]. <br />
-The gist of the Pentacost readings were that artists work with the symbolic and that the Artist's consent to work and learn in public is important.<br />
-We also discussed the political and cultural implications of Scientific Authority.<br />
-We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]<br />
-Most of the Ideas[see above] today, dealt with the use of bacteria as <br />
-a) A sensor or Reactor - (to Inputs,emotions,light..etc)<br />
-b) A Producer (of energy, proteins..etc)<br />
-c) A Material<br />
<br />
-Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?<br />
-Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?<br />
<br />
-Replace financial transactions with Bacteria<br />
<br />
=== '''May 16th''' ===<br />
<br />
Here's some creatures we created using techno-scientific jargon and aesthetics:<br />
<gallery><br />
File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names<br />
File:Upasana.jpg|Upasana's Ideas<br />
File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''<br />
File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph<br />
File:Page_1.jpg| Avni's ''actinodopaine''<br />
File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria<br />
File:2.jpg|Immuno Bacteria<br />
File:Sanya1.jpg|Plastico Collecticus<br />
File:bactiprint.jpg|Id bacteria-Akash<br />
File:bacteria.jpg|<br />
</gallery><br />
<br />
<br />
Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.<br />
<br />
-The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies . <br />
<br />
-One of the things enduring about the reading was her appeal to "love" our creations, not in a tech.no- phillic sense but in a more nurturing and caring way.<br />
<br />
=== '''May 17th''' ===<br />
<br />
'''Hybrid creatures from mythology:'''<br />
<gallery><br />
File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification<br />
File:aker.jpg| Double headed Lion- Egyptian Earth god<br />
File:Bastet-_goddess_of_fire.jpg| Bastet - Egyptian Goddess of Fire<br />
File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance<br />
File:Khepera-_beetle_god_of_rising_sun.jpg| Khepera - Egyptian Beetle God of Rising Sun<br />
File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War<br />
File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky<br />
File:Rainbow_snake-a_kangaroo's_head,_a_crocodile's_tail_and_a_python's_body,_all_decorated_with_water_lilies_and_waving_tendrils..jpg| Australian Rainbow Snake - Kangaroo's head, Crocodile's tail, Python's body<br />
File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse<br />
File:Futakuchi-onna.jpg|J.M.-Two mouthed woman<br />
File:Sanzuniao-Three_legged_bird.jpg| Chinese three legged bird<br />
File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened<br />
File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.<br />
File:be2.jpg| Nagas<br />
File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.<br />
File:Brahma.jpg| Lord Brahma the creator.<br />
File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.<br />
File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.<br />
File:kali.jpg| Kali<br />
File:krishna1baby.jpg| Lord Krishna<br />
File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.<br />
File:narasimha2.jpg| Narasimha is believed to possess the head of a lion and the body of a human. He is one of the avatars that lord Vishnu takes.<br />
File:Valkyrie.jpg|Valkyrie<br />
File:medusa.png|Medusa<br />
File:colossus.jpg|Colossus<br />
File:Leviathan.jpg|Leviathan<br />
File:mantacore.jpg|Mantacore<br />
File:hydra.jpg|Hydra<br />
File:lucifer.jpg|Lucifer<br />
File:Freyja.jpg|Freyja<br />
File:Heimdall.jpg|Heimdall<br />
File:centaur.jpg|Centaur<br />
<br />
<br />
</gallery><br />
<br />
*[[The May 17th Notebook]]<br />
<br />
=== '''May 19th''' ===<br />
<br />
We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis<br />
And looking at some of the microscopy equipment at NCBS.<br />
<br />
*[[Mukund's Brief Overview on Synthetic Biology Basics]]<br />
<br />
*[[Gel Electrophorosis]]<br />
<br />
*([[Talk:ArtScience_IGEM_team|Click here to discuss]])<br />
<br />
*[[Streaking and Spreading to obtain bacterial colonies]] <br />
<br />
*[[Imaging]]<br />
<br />
*[[Discussion over Lunch]]<br />
<br />
<br />
----<br />
'''Some images of our day at NCBS:'''<br />
<br />
<gallery><br />
<br />
File:DSC01409.JPG|Gel electrophoresis Apparatus<br />
File:DSC01410.JPG|The Voltmeter<br />
File:DSC01411.JPG|Gel Electrophoresis Tray<br />
File:DSC01418.JPG|Some lab equipment we were working with<br />
File:DSC01419.JPG|Using micropipettes<br />
File:DSC01420.JPG|One of the steps of Gel Electrophoresis<br />
File:DSC01422.JPG|Using the Comb Tray<br />
File:DSC01425.JPG|Fixing the comb in the comb tray<br />
<br />
File:DSC01426.JPG|The Gel Electrophoresis Apparatus-1<br />
File:DSC01427.JPG|The Gel Electrophoresis Apparatus-2<br />
<br />
File:DSC01428.JPG|Using the micropipettes<br />
File:DSC01429.JPG<br />
File:DSC01430.JPG<br />
File:DSC01431.JPG<br />
File:DSC01432.JPG<br />
File:DSC01433.JPG<br />
File:DSC01438.JPG<br />
File:DSC01443.JPG<br />
File:DSC01456.JPG<br />
File:DSC01457.JPG<br />
File:DSC01458.JPG<br />
File:DSC01459.JPG<br />
File:DSC01460.JPG<br />
File:DSC01463.JPG<br />
File:DSC01466.JPG<br />
File:DSC01468.JPG<br />
File:DSC01470.JPG|Mukund's Excercise- Demonstrating how DNA replicates-1<br />
File:DSC01471.JPG|Mukund's Excercise- Demonstrating how DNA replicates-2<br />
File:DSC01472.JPG|Mukund's Excercise- Demonstrating how DNA replicates-3<br />
File:DSC_7960.jpg<br />
File:DSC_7959.jpg<br />
File:DSC_7955.jpg<br />
File:DSC_7947.jpg<br />
File:DSC_7936.jpg<br />
File:DSC_7928.jpg<br />
File:A.jpg<br />
File:DSC_7963.jpg<br />
File:DSC_7976.jpg<br />
File:DSC_7977.jpg<br />
File:DSC_7980.jpg<br />
File:DSC_7985.jpg<br />
</gallery><br />
<br />
=== '''May 21st''' ===<br />
<br />
We put down all the information that we had about learnt about geosmin. We then put down the various paths we could take in order to produce the results we wanted. This exercise cleared certain doubts we had, but also raised a lot of questions.<br />
<br />
<gallery><br />
File:geosmin_synthesis.jpg|The Scientific Representation<br />
File:Rain_scenario_1.jpg<br />
File:RAin_scenario_2.jpg<br />
File:rain_scenario_3.jpg<br />
File:Bactothing2.png|The Artistic Representation<br />
</gallery><br />
<br />
[[First Prototype of the Bacteria]]<br />
<br />
=== ''May 22nd'' ===<br />
<br />
Today's Reading:<br />
<br />
[[File:Jenshauser.png]]<br />
<br />
<br />
<br />
Some basics of Gene Expression and production of Protiens and Enzymes by Gene's<br />
<br />
<br />
===May 25th===<br />
<br />
'''May 23rd-May 25th'''<br />
<br />
Presentation ideas- Bollywood sculpture?<br />
<gallery><br />
File:Nehasculpture.jpg<br />
File:krupakar_sc.jpg<br />
File:sandeep-machine.png|Its this big box. There is a projection of a window looking out into rain. All the paraphanalia can fit in the space below. fog machine?. The curtain goes all round.<br />
File:Installation_idea.jpg<br />
</gallery><br />
<br />
<br />
<br />
'''How to read a scientific Paper''' by Mukund<br />
<br />
Scan through the entire article quickly and find out what they are saying or trying to say<br />
Do not get lost in the references beyond 2 layers<br />
<br />
<br />
how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]<br />
<br />
<br />
'''Today's Reading:'''<br />
<br />
[http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]<br />
<br />
<br/><br />
<br />
===May 27th===<br />
http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1<br />
<br />
http://umassigem.blogspot.com/<br />
<br />
http://diybio.org/2009/03/20/extract-dna-from-strawberries/<br />
<br />
<br />
===May 28th===<br />
<br />
<br />
Chicken in a Kaledioscope<br />
<br />
<br />
<br />
=== May 29th ===<br />
<br />
<gallery><br />
<br />
File:TheArtScientistA.jpg|Neha's 'TheArtScientist'-Page 1<br />
<br />
File:The Art ScientistB.jpg|TheArtScientist-Page 2<br />
<br />
</gallery><br />
<br />
<br />
=== May 30th ===<br />
<br />
<br />
<br />
(all DNA pictures have been uploaded. Take your pick [[Special:ListFiles|here]]. (Not like you have a lot of options or anything..))<br />
<br />
'''Extracting DNA from Banana:'''<br />
<br />
<br />
'''What you need'''<br />
# 3 glass or clear plastic cups<br />
# A cup of water<br />
# A banana<br />
# A spoon<br />
# An eyedropper<br />
# A strainer<br />
# A funnel<br />
# A toothpick<br />
# A tablespoon of salt<br />
# 3 Tablespoons of liquid detergent containing Sodium Laurel Sulphate (look at back of the bottle)<br />
# A third of a cup of rubbing alcohol<br />
<br />
'''What you need to do'''<br />
# Put the rubbing alcohol in the freezer to chill it.<br />
# Mash the banana up with the spoon.<br />
# Strain the pulp through the funnel into one of the empty glasses (You might need some water to help it through.)<br />
# In another glass stir the detergent and salt together.<br />
# Mix the banana pulp and the salty detergent together for about a minute. Try to avoid bubbles.<br />
# When it settles, gently pour the alcohol down the side of the cup over the back end of the spoon. The alcohol should form a layer over the mixture.<br />
# Soon, you'll see tiny white strands of millions DNA gathering between the two layers.<br />
# Pick them out with the toothpick. They should be white, whiter than the rest of the banana pulp. Admire!<br />
<br />
<br />
<br />
<br />
<br />
<br />
<br />
'''Exracting DNA from Saliva:'''<br />
<br />
'''Images of our DNA we extracted from saliva:'''<br />
<gallery><br />
<br />
File:NehasDNA.JPG|Neha's DNA<br />
File:KrupakarsDNA.JPG|Krupakar's DNA<br />
File:DhruvsDNA.JPG|Dhruv's DNA<br />
File:SandeepsDNA.JPG|Sandeep's DNA<br />
<br />
</gallery><br />
<br />
<br />
===May 31st===<br />
<br />
Some interesting articles I came across.<br />
<br />
http://www.thenewatlantis.com/publications/the-promise-and-perils-of-synthetic-biology<br />
<br />
http://www.nature.com/msb/journal/v2/n1/full/msb4100104.html - I haven't read this one properly yet!! But the topic seems interesting and relevant...<br />
<br />
An interesting work i found while surfing-<br />
http://www.edgarlissel.de/data/mnemosyne_II_01e.html<br />
the photosensitive stripes are made of bacteria<br />
<br />
===June 3rd===<br />
'''''Registry of Parts Exercise'''''<br />
<br />
Sanya: Bacteria that indicates rise in and regulates body temperature.[[Media:Light.jpg]]<br />
<br />
[[Upasana]]<br />
<br />
[[Neha's Bacterial Jewellery]]<br />
<br />
===June 5th===<br />
<br />
[[Bacterial Transformation : The Process]]<br />
<br />
<gallery><br />
File:DSC_8065.jpg<br />
File:DSC_8072.jpg<br />
File:DSC_8074.jpg<br />
File:DSC_8082.jpg<br />
File:DSC_8084.jpg<br />
File:IMG_5913_-Desktop_Resolution-.JPG<br />
File:IMG_5881_-Desktop_Resolution-.JPG<br />
File:DSC_8088.jpg<br />
File:IMG 5897 -Desktop Resolution-.JPG<br />
File:DSC_8104.jpg<br />
File:DSC_8113.jpg<br />
File:IMG_5912_-Desktop_Resolution-.JPG<br />
File:DSC_8116.jpg<br />
File:IMG_5915_-Desktop_Resolution-.JPG<br />
File:DSC_8118.jpg<br />
File:DSC_8120.jpg<br />
File:DSC_8122.jpg<br />
File:DSC_8125.jpg<br />
File:DSC_8129.jpg<br />
File:DSC_8130.jpg<br />
File:DSC_8132.jpg<br />
File:DSC_8134.jpg<br />
File:DSC_8139.jpg<br />
File:DSC_8145.jpg<br />
File:DSC_8146.jpg<br />
File:DSC_8149.jpg<br />
File:DSC_8150.jpg<br />
File:DSC_8151.jpg<br />
File:DSC_8152.jpg<br />
File:IMG_5937_-Desktop_Resolution-.JPG<br />
File:DSC_8154.jpg<br />
File:DSC_8155.jpg<br />
File:DSC_8164.jpg<br />
File:DSC_8165.jpg<br />
File:DSC_8168.jpg<br />
File:IMG_5948_-Desktop_Resolution-.JPG<br />
File:DSC_8172.jpg<br />
File:DSC_8176.jpg<br />
File:IMG_5953_-Desktop_Resolution-.JPG<br />
<br />
</gallery><br />
<br />
===Other Teams===<br />
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.<br />
<br />
http://igem.uwaterloo.ca/The_UW_iGEM_Team<br />
<br />
== Readings ==<br />
<br />
<br />
'''Art and Politics'''<br />
<br />
Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]<br />
<br />
Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]<br />
<br />
Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]<br />
<br />
Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life<br />
<br />
'''Art'''<br />
<br />
GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]<br />
<br />
Adam Zaretsky[http://www.emutagen.com/]<br />
<br />
Patricia Piccinini[http://www.patriciapiccinini.net/]<br />
<br />
Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]<br />
<br />
'''Science'''<br />
<br />
What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]<br />
<br />
Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]<br />
<br />
Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/<br />
<br />
DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]<br />
<br />
"'Ethics"'<br />
<br />
Playing God for Fun and Profit[http://radar.oreilly.com/2008/02/play-god-for-fun-and-profit-mo.html]<br />
<br />
<br />
<br />
'''Design & Technology'''<br />
<br />
Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]<br />
<br />
Designer Bacteria may have a future in Fashion[http://www.nytimes.com/2001/08/19/style/designer-bacteria-may-have-a-future-in-fashion.html]<br />
<br />
Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]<br />
<br />
Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]<br />
<br />
Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]<br />
<br />
Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]<br />
<br />
'''Synthetic Biology:<br />
'''<br />
<br />
Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]<br />
<br />
Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]<br />
<br />
Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]<br />
<br />
Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]<br />
<br />
The Synthetic Biology Comic[[http://www.nature.com/nature/comics/syntheticbiologycomic/]] The .pdf version is here:[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf]<br />
<br />
Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]<br />
<br />
Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]<br />
<br />
Ibio Seminars [http://www.ibioseminars.org/]<br />
<br />
Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]<br />
<br />
Primer on Synthetic Biology[http://openwetware.org/images/3/3d/SB_Primer_100707.pdf]<br />
<br />
[[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]<br />
Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]<br />
<br />
Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]<br />
<br />
BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]<br />
<br />
[http://diybio.org/wp-content/uploads/2009/04/CodeCon09_SynthBio_tutorial_handout/appendix3%20-%20GinkgoBioworks%20guide%20to%20engineering%20biology.pdf Ginko BioWorks Guide to Synthetic Biology]<br />
<br />
[http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast]<br />
<br />
[http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms]<br />
<br />
'''General Design Links'''<br />
<br />
http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/<br />
<br />
http://www.wallwisher.com/wall/iGemSrishti</div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:Chicken_4.JPG&diff=1050File:Chicken 4.JPG2009-06-07T18:26:41Z<p>Sem2490: </p>
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<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:Chicken_3.JPG&diff=1049File:Chicken 3.JPG2009-06-07T18:26:12Z<p>Sem2490: </p>
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<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:Chicken_2.JPG&diff=1048File:Chicken 2.JPG2009-06-07T18:25:53Z<p>Sem2490: </p>
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<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:Chicken_1.JPG&diff=1047File:Chicken 1.JPG2009-06-07T18:25:32Z<p>Sem2490: </p>
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<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:IMG_5953_-Desktop_Resolution-.JPG&diff=1046File:IMG 5953 -Desktop Resolution-.JPG2009-06-07T18:23:15Z<p>Sem2490: </p>
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<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:IMG_5948_-Desktop_Resolution-.JPG&diff=1045File:IMG 5948 -Desktop Resolution-.JPG2009-06-07T18:22:46Z<p>Sem2490: </p>
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<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:IMG_5937_-Desktop_Resolution-.JPG&diff=1044File:IMG 5937 -Desktop Resolution-.JPG2009-06-07T18:22:18Z<p>Sem2490: </p>
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<div></div>Sem2490http://www.hackteria.org/wiki/index.php?title=File:IMG_5915_-Desktop_Resolution-.JPG&diff=1043File:IMG 5915 -Desktop Resolution-.JPG2009-06-07T18:21:36Z<p>Sem2490: </p>
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