Author Archives: admin

Monday 04/01/13

Posted on April 1, 2013 by admin

10:00 A – 7:00P, 9:00P-10:00P General hp psc1200 printer not printing color correctly. lab meeting (notes) journal club (notes) Review writing Insight 1: enhancer switching between obstructed and unobstructed case is the bursting model with different tx rates from ‘off’ … Continue reading →

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oligopaint probe making planning

Posted on April 1, 2013 by admin

emPCR ready libraries: AbdA AbdB Ubx en-locus 100kb Black 100kb Yellow 100kb Green 100kb Synthesis schemes: Teritaries + Nicking PCR using extended primers = Forward primer (21bp) + Secondary binding site (32 bp) Nick off R primer Denaturing PAGE Gel … Continue reading →

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journal club: single sperm sequencing

Posted on April 1, 2013 by admin

Probing Meiotic recombination and aneuploidy single sperm cells (Xie lab) haplotyping homologous recombination, major source of genetic diversity determine haplogenotype of each cell. Sequence diploid, not sure which SNPs are on which homologous copy (i.e. which are linked) HAP map … Continue reading →

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Protected: lab meeting 04/01/13

Posted on April 1, 2013 by admin

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Sunday 03/31/13

Posted on March 31, 2013 by admin

10:30 A – 8:00 P Review writing fixing bugs in implementation of synergy analytical framework. Got Feller V2 from library. Verified that approximations in t are limits approached by convergence to equilibrium. So the steady state values production rate/decay rate … Continue reading →

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Saturday 03/30/13

Posted on March 30, 2013 by admin

11:15 A – 8:15 P, 9:30 P-11:55 P Review working on explanation of individual site contributions to cooperativity: Jiang 1993 Lebrecht et al 2005 make Bcd rescue embryos lacking the Bcd interaction domain required for cooperativity in vitro. They observe … Continue reading →

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Friday 03/29/13

Posted on March 29, 2013 by admin

9:30 A – 8:10 P, 9:00 P – 12:10 A Install cryo-attachment be sure to retract arm and center FC mount prior to mounting be sure there is space between the arm and the chamber so the arm can move … Continue reading →

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Thursday 03/28/13

Posted on March 28, 2013 by admin

10:00 A – 7:00 P, 8:30 P – 11:30 P Review writing Durrett’s Essentials of Stochastic Processes has a 2nd edition now which is available online: Springer, and Durrett’s page Re-organzing introduction: Simple-models form simple orgnaisms challenges of multicellular organisms … Continue reading →

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TJ Ha seminar

Posted on March 28, 2013 by admin

some short notes: DNA bending: requires 30 KT to bend 100bp circle. But lots of structures (e.g. nucleosomes) bend DNA on this scale. Looping time has a very weak length dependence. Weak dependence is not surface induced (watch individual DNA … Continue reading →

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Wednesday 03/27/13

Posted on March 27, 2013 by admin

10:00 A – 7:00 P, 9:30 P – 12:20 A STORM Break down O/N STORM run on STORM3 of fab7-405-cy5 STORM2 has issues Iris for columnating optics is too small for 512×512 view Focus lock can’t get minimal signal TIRF … Continue reading →

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