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| | <object data="https://static.igem.org/mediawiki/2017/5/52/T--IIT_Delhi--NoteApril.pdf" type="application/pdf" width="100%" height="900px"> | | <object data="https://static.igem.org/mediawiki/2017/5/52/T--IIT_Delhi--NoteApril.pdf" type="application/pdf" width="100%" height="900px"> |
| | <p>It appears you don't have a PDF plugin for this browser. | | <p>It appears you don't have a PDF plugin for this browser. |
| − | No biggie... you can <a href="https://static.igem.org/mediawiki/ 2016/ e/ ec/T-- Imperial_College-- LabBook.pdf">click here to | + | No probs... you can <a href="https://static.igem.org/mediawiki/ 2017/ 5/ 52/T-- IIT_Delhi-- NoteApril.pdf">click here to |
| | download the PDF file.</a></p> | | download the PDF file.</a></p> |
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| − | <h2 class="boogaloo_font1 " style="overflow:scroll; ">
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| − | 01/05<br>
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| − | First lab visit of the team and instructions on how to handle the instruments and
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| − | safety guidelines were presented<br>
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| − | 02/05<br>
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| − | <ol>
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| − | <li> Practicing inoculation, streaking and spreading of bacterial cultures of a biobrick used
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| − | in previous year
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| − | <li> LA plates and LB media preparation</ol><br>
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| − | 03/05<br>
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| − | <ol>
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| − | <li> Practicing plasmid isolation and transformation with the part inoculated yesterday
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| − | <li> Inoculation of following parts from iGEM kit plate:-
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| − | <ul>
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| − | <li> RBS + GFP + T(without deg tag)
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| − | <li> RBS + TetR + T
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| − | <li>SYFP2
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| − | <li> J23119 promoter
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| − | <li> J23107 promoter</ul><br>
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| − | <li> Plasmid isolation of :-<br>
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| − | <ul>
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| − | <li> RBS + GFP + T(without deg tag)
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| − | <li> RBS + TetR + T
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| − | <li> SYFP2
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| − | <li> J23119 promoter
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| − | <li> J23107 promoter</ul><br>
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| − | <li> Transformation of plasmids mentioned previously following iGEM protocol</ol><br>
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| − | 04/05<br>
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| − | <ol>
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| − | <li> Discussion on toggles switches and oscillators in relation to iGEM IITD project - 2016.
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| − | More detailed discussion on light activated self-repression and its effect on oscillator
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| − | frequency.
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| − | <li> Discussion on IITD 2015 project
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| − | <li> Discussion on some iGEM projects of other countries.
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| − | <li> Received the colonies transformed yesterday</ol><br>
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| − | 06/05<br>
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| − | Further discussion on the research papers and different aspects of project<br>
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| − | 09/05<br>
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| − | Formation of a marketing and human practices team and discussion on marketing
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| − | strategies used last year.<br>
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| − | 11/05<br>
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| − | <ol>
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| − | <li>Video and content for crowd-funding initiative
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| − | <li>Mails and calls to potential sponsors</ol><br>
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| − | 13/05<br>
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| − | <ol><li>Discussion on gene regulation in prokaryotes and eukaryotes with special emphasis on
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| − | prokaryotes.
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| − | <li> Discussion on how we can modify the Lac system by keeping its switching on properties
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| − | intact and replacing the gene part with, suppose, insulin such that presence Lactose
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| − | molecules trigger the activation of insulin gene.
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| − | <li> Discussion on the different class of promoters.</ol><br>
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| − | 15/05<br>
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| − | <ol>
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| − | <li> Discussion on PCR
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| − | <li> Sample PCR product formed and ran on gel.</ol><br>
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| − | 17/05
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| − | 1. Logic Gates:
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| − | a) AND GATE:
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| − |
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| − | discussion on simple AND gate
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| − | AND gate with modified tRNA (Discussion on tRNA that would read TAG as Serine)
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| − | b) OR GATE
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| − | c) NOR GATE
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| − | d) XOR GATE: Using combination of different gates i.e. OR , AND , NOR, NAND, NOT and
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| − | further discussion on other ways of XOR gate formation.
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| − | 2. Steady state: Rate of accumulation=0
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| − | 3. Discussion on different equations for rate of change of protein and rate of change of RNA
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| − | (First and second order reactions) by discussing the journey from promoter to mRNA to
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| − | protein to nothingness.
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| − | 4. Enzyme Kinetics
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| − | S+E === ES ----> P+E
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| − | Differential equations of rate of change of ES and P discussed with equations of conservation
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| − | of mass for the same.
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| − | Graphical analysis of ES/E0 vs S/S0 with discussion on quasi steady state.
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| − | Graphical discussion on Concentration vs Time of the reaction.
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| − | 5. Michaelis menten equation
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| − | 6. Discussion on Degradation Tag and how it works in a bacterium where translation and
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| − | transcription happen in the same compartment and there are no stop codons.
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| − | 7. Discussion on Cancer Cell about how it was thought to find a cure of cancer using
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| − | these logic gates with inputs as miRNA(regulate genes) and output as apoptosis.
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| − | 8. Example of virus that can be used as vectors for human cells. e.g. Vaccinia virus
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| − | 18/05
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| − | Discussion on ways to generate different signal responses in bacterial gene regulatory
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| − | circuits
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| − | 22/05
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| − | Discussion on :-
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| − | 1) Chemotactic response in bacteria
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| − | 2) Temporal and spatial response in chemotaxis
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| − | 3) Mechanism of chemotaxis in bacteria flagellum
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| − | 4) Electrical model of chemotaxis
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| − | 5) Adaptation time of chemotaxis
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| − | 6) Finding electrical analogue of the biological system by varying frequency of the electrical circuit
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| − | made
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| − | 7) Finding optimal frequency
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| − | 8) Biological Robustness and causes of it in a biological system
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| − | 9) System controls, bistability, modularity, buffering, bow-tie framework, decoupling
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| − | 10) Robustness in signal transduction pathways and insect's segmental development
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| − | 11) Robustness trade-offs
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| − | 24/05
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| − | Discussion on :-
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| − | 1) Design principles of biochemical oscillators
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| − | 2) Time delay's relevance in oscillation
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| − | 3) Introduction of time delay with Intermediates
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| − | 4) Limit cycles, conservative cycles and circadian rhythms
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| − | 5) Time delay by positive feedback
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| − | 6) Different classes of feedback
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| − | 7) Linear and hyperbolic response
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| − | 8) Goldbeter Kosher Function
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| − | 9) Sniffers
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| − | 10) Toggle Switch
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| − |
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| − | 11) Mutual inhibition and mutual activation
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| − | 26/05
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| − | Discussion on :-
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| − | 1) A brief review of Sniffers, Buzzers and Toggle switch
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| − | 2) Negative feedback oscillations
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| − | 3) Positive feedback oscillations
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| − | 4) Neutral feedback oscillations
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| − | 5) Sub-critical and Super-critical hop bit
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| − | 6) Study of mitosis
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| − | 27/05
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| − | Prepared lab supplies like LA, LB etc. to be used in the lab
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| − | 29/05
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| − | 1) Preparation of LuxI and PLux double digest using restriction enzymes EcoRI and PstI
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| − | 2) Preparation of buffer and electrophoresis gel
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| − | 3) Loading ladder, control and digest in the wells in gel
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| − | 4) Electrophoresis and subsequent observation of gel to ensure digestion of plasmids
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| − | 31/05
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| − | Discussion on:-
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| − | 1) Plasmid isolation
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| − | 2) Lysis solutions and their composition
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| − | 3) Function of each component in the solutions
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| − | </div></h2>
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| − | </div>
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| − | </div>
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| | <h2 class="boogaloo_font "><span style="font-size:30px;cursor:pointer" onclick="openNav1()">May</span></h2> | | <h2 class="boogaloo_font "><span style="font-size:30px;cursor:pointer" onclick="openNav1()">May</span></h2> |
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