8:30a-5:00p
Goals for today
- RNA clean up of pilot Lib2 templates.
- comparison of SuperscriptII and SuperscriptIII RT yields
- plate scale in vitro transcription?
- Align multi-day stain
- get comments on review
Coding
- writing script to aid finding cell matches from Mosaics
- viewSteveMosaic not handling dual presentation of 4x and 100x correctly?
Plate
- missing reactions
RNA cleanup
- run clean up of both NEB high yield and Promega samples (zymo RNA-100 protocol)
- Promega (run with 1/2 total DNA template and 2x volume) gives 1/4 to 1/10 as much RNA
- Table of RNA concentrations
| Sample ID | ng/ul | A260 | A280 | 260/280 | 260/230 |
|---|---|---|---|---|---|
| G8 | 879.01 | 21.975 | 11.577 | 1.90 | 2.13 |
| G6 | 523.82 | 13.095 | 6.596 | 1.99 | 1.79 |
| G5 | 849.51 | 21.238 | 10.185 | 2.09 | 2.19 |
| G4 | 937.26 | 23.431 | 11.165 | 2.10 | 2.36 |
| G3 | 856.09 | 21.402 | 10.594 | 2.02 | 2.24 |
| G2 | 800.94 | 20.023 | 9.539 | 2.10 | 2.33 |
| G2p | 90.33 | 2.258 | 1.062 | 2.13 | 2.03 |
| G3p | 92.96 | 2.324 | 1.144 | 2.03 | 2.47 |
| G4p | 145.06 | 3.627 | 1.751 | 2.07 | 2.47 |
| G5p | 225.45 | 5.636 | 2.659 | 2.12 | 2.53 |
| G6p | 222.29 | 5.557 | 3.072 | 1.81 | 1.24 |
| G8p | 48.25 | 1.206 | 0.585 | 2.06 | 0.46 |
RT reactions
- see post