Author Archives: admin

Wed 07/29/15

9:10 am – 8:00 pm, To do confocal imaging design primers re-read and submit review Done confocal imaging (no staining) submitted review (done) feedback for Hao on essay (sent) Embryo staining no signal with 37C hybe to try next: 10% … Continue reading

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Protected: Ph-Polymerization colocalization control

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Posted in Chromatin | Comments Off on Protected: Ph-Polymerization colocalization control

troubleshooting hb stains

Purpose to start MERFISH experiments in Drosophila embryos Plan: use Biosearch probes to optimize RNA labeling using DNA probes currently using 20mers directly labeled. These aren’t working. Images from Shawn Little’s paper (Gregor lab) My RNA hb stains zoom out … Continue reading

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Tuesday 07/28/15

9:30 am – 7:30 pm, 9:30 pm – 11:45 pm Ph polymerization reviews back writing reply goal to respond this week to do Ph-Flag / Ph co-localization data DNA FISH long range contact frequency (hold off) Live imaging of chromatin … Continue reading

Posted in Summaries | Comments Off on Tuesday 07/28/15

Monday 07/27/15

9:20 am – 10:00 pm Reading I’m looking for new insights to improve our genome wide prediction of PREs Schuttengruber et al Cell Reports 2014 on PRE evolution Zheng et al 2012 develop computational predictor this uses ChIP data to … Continue reading

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Sunday 07/26/15

3:30 pm – 6:30 pm embryo stains rinse embryos in pre-hybe/ was buffer, 1 hr rinse embryos in PBT stain a subset with WGA mount this subset for confocal imaging in Prolong Diamond Chromatin project discussion on project progress with … Continue reading

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Friday 07/24/15

9:15 am – 7:15 pm PRE mapping Ringrose 2003 predicted PREs http://www.techfak.uni-bielefeld.de/~marc/pre/hit_list.html Ringrose 2003 is dm1. Need to lift over to dm3 before we can map. lift over, plotted correlation. serious computer crash (windows froze while unpacking .gz file), matlab … Continue reading

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Thursday 07/23/15

12:30 pm – 7:00 pm (sick) RNAi experiments Primer issues diagnosing problems with primers for qPCR writing code for primer mapping organizing a better data structure to keep track of all the RNAi targets, their qPCR primer sets, their RNAi … Continue reading

Posted in Summaries | Comments Off on Thursday 07/23/15

Wednesday 07/22/15

9:30 am – 8:45 pm Psc deletion picked up psc deletion cells from Sonny, along with media (also gifted a second aliquot of the Pc-antibody), now frozen. also gifted ~200 mL of media ready mixed. cells were last plated 7/12 … Continue reading

Posted in Summaries | Comments Off on Wednesday 07/22/15

Tuesday 07/21/15

10:15 am – 8:00 pm RNAi experiments Quantifying knockdown efficiencies by qPCR cDNA PPPES (Pc, Ph-p, ph-d, Esc, Scm) rep 1 PPPES (Pc, Ph-p, ph-d, Esc, Scm) rep 2 Pc v1 Pc v2 Pc, Esc, Scm, Esc Suz12 Scm SCE … Continue reading

Posted in Summaries | Comments Off on Tuesday 07/21/15