Team:Austin UTexas/Notebook

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Notebook

Week 1 (May 27 - June 2)

Wet lab: Collectively completed ~40 transformations, ran 3 burden assay plates (exp007, 008, 009)
People: Noor, Jordan, Diya, Shireen

Dry Lab: Python script written to create a record of transformation DNA sequences for later comparison (reference file generation)

People: Ginny, Angela

Week 2 (June 3 - 9)

Wet Lab: Completed ~62 transformations total, ran 7 burden assay plates (exp007-013)
People: Noor, Jordan, Diya, Ginny, Angela, Shireen


Dry Lab: Wrapping up reference file for all biobrick DNA sequences, wiki graphics are being made, starting interactive simulation of burden<
People: Ginny, Angela

Week 3 (June 10 - 16)

Wet Lab: Transformations, burden assays
People: Noor, Jordan, Diya, Shireen

Dry Lab: Looked at data for burden analysis
People: Noor, Jordan, Diya, Ginny, Angela, Shireen


Exp017

Week 4 (June 17 - 23)

Wet Lab: Completed ~77 transformations total, ran 4 burden assay plates
People: Noor, Jordan, Diya, Shireen

Dry Lab: Previous burden assay experiments were analyzed in RStudio
People: Noor, Jordan, Diya, Ginny, Angela, Shireen

Week 5 (June 24 - 30)

Wet Lab: Transformations, burden assays
People: Noor, Jordan, Diya, Shireen

Dry Lab: Burden analysis
People: Noor, Jordan, Diya, Ginny, Angela, Shireen

Week 6 (July 1 - 7)

Wet Lab: Decided to update transformation plan and have a goal of 1000 transformations total, ~100 from commonly used parts and ~900 from the 2018 kit plate.
People: Noor, Jordan, Diya, Shireen

Dry Lab: Planned University of Texas at Arlington, Texas Tech, and Rice University meet up and voice chat, tested out a few parts in breseq (sequence analysis program) with reference file, refined burden scripts for analyzing data
People: Ginny, Angela

Week 7 (July 8 - 14)

Wet Lab: Completed ~80 transformations, ran 2 burden assay plates
People: Noor, Jordan, Diya, Shireen

Dry Lab: Created a script to programmatically run breseq
People: Ginny, Angela

Exp023

bla. bla.

Week 8 (July 15 - 21)

Wet Lab: Completed ~15 transformations, ran 4 burden assay plates
People: Noor, Jordan, Diya, Shireen, Alex, Michelle, Raul

Dry Lab: Gathered distribution of DNA parts by type and sub-part number
People: Ginny, Angela

Week 9 (July 22 - 28)

Wet Lab: Made new batch of competent cells for transformations because of contamination of old cells, transformations, ran 2 burden assays
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Alex, Michelle, Raul

Dry Lab: Worked on sequence analysis, simulation script, and burden analysis
People: Ginny, Angela

Week 10 (July 29 - August 4)

Wet Lab: Completed ~30 transformations
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Mina, Raul

Dry Lab: Fixing burden analysis --> refined quantitative interpretation of burden, figured out how to calculate percentage of each type of burden
People: Ginny, Angela


Exp028

Week 11 (August 5 - 11)

Wet Lab: 8 burden assays done
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Mina, Alex, Raul

Dry Lab: Wiki, burden analysis
People: Noor, Jordan, Diya, Ginny, Angela, Shireen

Week 12 (August 12 - 18)

Wet Lab: Burden assays
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Mina, Alex, Raul

Dry Lab: Made graphs, worked on statistical correction of data, wiki
People: Noor, Jordan, Diya, Ginny, Angela, Shireen

Week 13 (August 19 - 25)

Wet Lab: Redid some burden assays
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Mina, Alex, Raul

Dry Lab: Collaboration write up, got data from Texas Tech University about calibration strains, wiki
People: Noor, Jordan, Diya, Ginny, Angela, Shireen

Week 14 (August 26 - September 1)

Wet Lab: Burden assay of interesting parts
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Mina, Raul

Dry Lab: Wiki
People: Noor, Jordan, Diya, Ginny, Shireen, Alex, Mina

Week 15 (September 1 - 7)

Wet Lab: Burden assays
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Mina, Raul

Dry Lab: Wiki, burden analysis
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Michelle, Alex, Raul, Mina

Week 16 (Septmeber 7 - 13)

Wet Lab: Redid some burden assays
People: Jordan, Diya, Raul

Dry Lab: Wiki, statistics
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Alex, Raul, Mina

Week 17 (Septmeber 14 - 20)

Wet Lab: Redid some burden assays
People: Jordan, Diya, Raul

Dry Lab: Statistics, wiki, burden analysis
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Alex, Raul, Mina

Week 18 (Septmeber 21 - 27)

Wet Lab: N/A

Dry Lab: Statistics, wiki
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Michelle, Alex, Raul, Mina

Week 19 (Septmeber 28 - October 3)

Wet Lab: N/A

Dry Lab: Wiki, collaborations
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Alex, Raul, Mina

Week 20 (October 4 - October 10)

Wet Lab: N/A

Dry Lab: Wiki, getting data from collaborations
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Alex, Raul, Mina

Week 21 (October 11 - October 17)

Wet Lab: N/A

Dry Lab: Wiki, getting data from collaborations
People: Noor, Jordan, Diya, Ginny, Angela, Shireen, Michelle, Alex, Raul, Mina