Monthly Archives: February 2013

Thursday 02/28/13

Posted on February 28, 2013 by admin

10:20 A -6:45P, 8:15P – 11:55P (workout 8:30-10:20A) Probe Making (1P-6P @ Longwood) emPCR for 100kb yellow, green and black regions (at Wu lab) see new protocol 35-50 ng/uL yield (11 uL total volume) Notebook Looking in to version managing … Continue reading →

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Large Scale PCR for probe synthesis

Posted on February 28, 2013 by admin

Part 1 – PCR amplification Notes: We recommend setting up 10 ml of PCR master mix and aliquoting it into a 96-well plate, 100 µl per well. This protocol is scaled for a starting amount of 10 ml; simply scale … Continue reading →

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Emulsion PCR

Posted on February 28, 2013 by admin

For initial amplification from Oligo-Library. Setup Components Glass vials kept at -20C. magnetic stir plates at 4C/in cold room (capable of 1000 rpm) emulsion oil mix (can make in 50mL volume and store at 4C): 80 uL ABIL EM90 (request … Continue reading →

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Filtering interval data

Posted on February 27, 2013 by admin

Allowing small gaps. Some very brief changes in chromatin type may not be real: Need to allow gaps – small misclasifications rrrrrrrrrrr kk rrrrrrrrrrrrrrrrr bbb rrrrrrrrrrr should still be scored as a long red region. The kk/bbb might be background, … Continue reading →

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Wednesday 02/27/13

Posted on February 27, 2013 by admin

9:00 A – 10:00 P Embryo collection Flipped Esc cage — good looking overnight collection Probe design schematic of probes design and send to Brian new probe sequences for Custom Array order. working on new probe sets for colors project … Continue reading →

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Protected: probe design

Posted on February 27, 2013 by admin

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Tuesday 03/26/13

Posted on February 26, 2013 by admin

10:00 A – 6:30P, 7:50P – 10:20P Embryo work Flip collection cages ~10:00 A No hatching from Mat apha tub x Rad21, Scm, Pc(3), Psc(1) shRNAs. all these embryos appear unfertilized. Frequently moderate deformaties to egg shape, substantial variation in … Continue reading →

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Monday 03/25/13

Posted on February 25, 2013 by admin

9:45 A – 7:30P, 8:45P-12:30A Embryo collection Flip ESC embryos Flip all other embryos (w/o yeast, just as a holding pattern). check vitality — Psc1 has a 5 of 100s hatched, others have 0 hatched yet. Will give them another … Continue reading →

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Protected: lab meeting 02/25/13

Posted on February 25, 2013 by admin

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Sunday 03/24/13

Posted on February 24, 2013 by admin

11:30A – 5:00P, 6:30P – 8:15P Coding Overhauling all file loading for STORMrenderBeta Single Bin files Loaded through open menu (or toolbar) Multiple Bin files, manual select Prompts user to find a chromatic warp file Allows warp dimension to be … Continue reading →

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