User:Karmella Haynes/Notebook/Polycomb project/2010/12/16

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12/16/10
--> Plan: follow single colonies over time, count cells over time; include in B-gal data figure --> Note: tomorrow, chromatin preps for 128-8.3 and 129-4 fx cells
 * Postpone Pc-TF histone peptide pull-down; switch priority to follow-up on senescence
 * &#x2713; Culture: Thaw 126-3, 154-2, 132-8, FTRx for growth assays
 * &#x2713; Growth assay optimization: plate 126-1 (PS1) in 6-well plates; make 1:10 back-up
 * &#x2713; ChIP: chromatin IP overnight

Growth assay > Do growth assay by tracking single colonies over time > Optimize assay using KAH126-1 > Plates > Wells: 1,2. ~2x10^5 (5x dilution of 1x10^6 suspension from confluent flask) 3,4. ~1.0x10^5 5,6. ~5.0x10^4 7,8. ~2.5x10^4 9,10. ~1.26x10^4 11,12. ~6.25x10^3
 * 1) - dox
 * 2) - dox
 * 3) + 1.0 ug/mL dox
 * 4) + 1.0 ug/mL dox

> Will pick best dilution range for future assays

ChIP > Lack of DNA IP might be problem due to non-saturating amounts of beads; lots of the over-expressed Pc-TF protein may not be bound. > Myc/IgG-bead IP: Use 30 uL beads/ 500 mL chromatin (used only 10 uL before) > H3K27me3/IgG IP: Use 5 uL ab/ 500 mL chromatin (used only 2 uL on 11/30/10) > Samples (all form. x-linked chromatin) 1/2. 126-1: + 30 μL αmyc-beads (3400); + 30 μL mouse IgG-beads (3420) 3/4. 130-4: " 5/6. 132-8: " 7/8. FTRx: + 5 μL αH3K27me3 (07-449); + 5 μL rabbit IgG (sc-2027) > Rotate at 4°C/ overnight (will add beads to 7/8 tomorrow morning)


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