IGEM:Stanford/2009/Notebook/Personal Notebook/2009/08/11

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 * style="background-color: #EEE"|[[Image:igem-logo-150px.png|150px]] Suzie's iGEM Project
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 * style="background-color: #F2F2F2" align="center"|  |Main project page


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Daily Work
Goals
 * Revise diagram breakdowns for Jerome
 * Revise vBOL symbols
 * Either research Th-17 to NO pathway or work on wiki

Project / Accomplishments
 * Looks like transformations worked!!!! Yay! (1.1b and 2.1a)
 * Mini-preps of SoxR/S cultures and pcr on 1.1b and 2.1a
 * Need to sequence 1.2a
 * Made revised constructions for Device 1
 * [[Media:Construction_largeR.doc| Device1 Diagram- Revision1 ]]
 * New schematics for Diagrams (see right)
 * vBOL symbols revised
 * [[Media:vBOL_Revisions1.pdf |PDF of new vBOL symbols]]

Problems
 * Simple schematic for Device 2....

Alternative Solutions

Events

 * Meeting w/ Jerome for the presentation
 * Show Naive CD4+ cells leading to T-cells?
 * Testing line w/ filtering T-cells
 * Numbers
 * Rough percentage of amounts of T-cells (normal, non-recognizing, self-recognizing...)
 * Why don't some self-recognizing t-cells undergo apoptosis?
 * Circuit diagram
 * Make text bigger, animation,...
 * Take out IDO and dendritic cells?
 * Shorter descriptions
 * More visual support and animation
 * Specifically on slides describing why we need device 2
 * Device 2 parts breakdown- need separate promoter
 * Visual- pyramid w/ age group and
 * Immunology section- still too complicated
 * More pictures
 * Start w/ what the immune system "is" as a definition? Very general
 * Stay away from capital letters
 * Differentiate acquired and innate immune responses- mention vaccines!
 * Talk more about acquired w/ animation (fun can be good)
 * What is an antigen? What is an antibody?
 * Scheme is nice- could be more simple
 * Take away Tc cells
 * Selective filtering- make a factory line and assembly line
 * Define autoimmune diseases w/ respect to Self-recognizing t-cells
 * Start w/ epidemiology then immune response, then back to IBD w/ respect to the immune system
 * Mention system therapy vs. cure
 * Showing the cause of inflammation itself.... b-bells, t-cells, and plasma cells (igE?)-
 * Show transportation- lymph, vs blood, vs epithelial crossing
 * Where are Naïve CD4+ cells? Needs to be in the place of activity!!!
 * email Ariana or Professor Steinman


 * Meeting w/ Christine for Stanford News at 2pm
 * Interviews, vidoes, and revised article
 * Looks good!


 * FAB at 4:00
 * Trp looks better, but not perfect yet...
 * More modeling help needed?
 * IBD Overview
 * Be upfront of assumptions and parameters
 * We assume it is t-cell ratios for inflammation
 * Questions to answer
 * Where are Naive CD4+ cells?
 * What is the "cause" of IBD?
 * Why don't medicines target t-cells?
 * Also,
 * Future- how can we biosynthesize 5MT?

Comments

 * Questions to be answered….
 * Genetic component of the disease?
 * Mouse model of IBD to test linear relationship of Th-17 and Treg cells
 * Suicide device?
 * Do people take RA for treatment?
 * The acid form of Vitamin A, all-trans retinoic acid or ATRA, has been made into Tretinoin, which
 * Do people take Il-6 for treatment?
 * Other uses?
 * Where are Naïve CD4+ cells? Needs to be in the place of activity!!!
 * vBOL, are there names for the individual pictures

Weekly Goals

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