Category Archives: Transcription Modeling

Tuesday 07/30/13

Posted on July 30, 2013 by admin

9:30 A – 5:00 P, 9:00 P- 12:00 P STORM set up O/N Ph-wt Pc-cy7 Modeling Using renewal equations which say fano factor of time is eta^2 of transcript count variability (covN) should go like 1/kf for all N for … Continue reading →

Posted in Summaries, Transcription Modeling | Comments Off on Tuesday 07/30/13

notes from analytical exploration of effects of chain length on mRNA variability

Posted on July 30, 2013 by admin

The details of this approach are not valid, since we require reversability to use this form for the variance. excised text from review draft: % Using Sanchez Approach Since only one state in the gestation cycle is transcriptionally competent, all … Continue reading →

Posted in Transcription Modeling | Comments Off on notes from analytical exploration of effects of chain length on mRNA variability

CoV of a series chain

Posted on July 25, 2013 by admin

1 2, 2 3, 4, 3 4, 6, 6, 4 5, 8, 9, 8, 5 6,10, 12, 12, 10, 6 The first term just increases by 1 from the term diagonal above and right of it, the second term increases … Continue reading →

Posted in Transcription Modeling | Comments Off on CoV of a series chain

Finite state Markov model notes

Posted on April 6, 2013 by admin

simple switching model. Two systems, 1 and 2, each two states A and B. fi Ai <==> Bi bi Bi –> Bi + mRNA A1 <==> A2 [* f1 s12 0 b1 * 0 0 s2 0 * f2 0 … Continue reading →

Posted in Transcription Modeling | Tagged | Comments Off on Finite state Markov model notes

Transcription traffic jams

Posted on September 26, 2012 by admin

Selth et al Elongation Review: polII collisions yield backtracking, pol II collisions yield reactivation / push through of paused leaders.  Longer genes have more traffic jams (Swinburne 2008 G&D, see below). Saeki and Svejstrup 2009 Mol Cell Collisions can push … Continue reading →

Posted in Transcription Modeling | Tagged , | Comments Off on Transcription traffic jams

Friday 07/22/11

Posted on July 22, 2011 by admin

9:00A -12:30P mRNA counting (see post) numbers synthesis rates, decay modeling sent to ML Discuss merits of mathematical formulation of snail boundary bistability with Jacques. Proofs back for PNAS paper on gap-shadows. Fix yellow shade in fig 2D legend, review … Continue reading →

Posted in Summaries, Transcription Modeling | Tagged | Comments Off on Friday 07/22/11

Protected: mRNA snail numbers and models

Posted on July 22, 2011 by admin

There is no excerpt because this is a protected post.

Posted in snail patterning, Transcription Modeling | Tagged , , , , | Comments Off on Protected: mRNA snail numbers and models

Protected: Gal4 gradient LacZ response

Posted on July 1, 2011 by admin

There is no excerpt because this is a protected post.

Posted in Transcription Modeling | Tagged , , | Enter your password to view comments.

Protected: bcd 1x and 6x counting

Posted on June 20, 2011 by admin

There is no excerpt because this is a protected post.

Posted in Transcription Modeling | Tagged , , | Enter your password to view comments.

Protected: Analysis of 5-22 data b

Posted on June 16, 2011 by admin

There is no excerpt because this is a protected post.

Posted in AP patterning, Shadow Enhancers, Transcription Modeling | Tagged , , , , | Enter your password to view comments.