Author Archives: admin

Monday 01/27/14

Posted on January 27, 2014 by admin

9:45a – 11:55p Meetings Group meeting, Jeff presents (see protected notes) Journal club (see notes) Meeting with Ajaz, get antibody Meeting with Brian B, discuss figure put chromatin loop image last as speculative difference for main figure, combine replicates in … Continue reading →

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Journal Club 01/27/14

Posted on January 27, 2014 by admin

Doory Ultrafast endocytosis at mouse hippocampal synapses Nature 504, 2013 Background lab previously published correlative EM Combine optogentics and high-pressure freezing ‘flash and freeze’, to study synapse. 40 nm EM sections methods of exocytosis full fusion (vesicle fuses and releases) … Continue reading →

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Protected: group meeting 01/27/14

Posted on January 27, 2014 by admin

There is no excerpt because this is a protected post.

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Sunday 01/26/14

Posted on January 26, 2014 by admin

10:20a – 10:00p Literature reading Polycomb Potentiates Meis2 Activation in Midbrain by Mediating Interaction of the Promoter with a Tissue-Specific Enhancer read Cavalli’s summary Ring1 activator and repressor. Article makes it sound to me like Ring1 is an activator. Just … Continue reading →

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Saturday 01/25/13

Posted on January 25, 2014 by admin

10:30a – 5:30p, 7:00p – 8:00p remotey 9:30p – 11:45p Chromatin Project Data analysis / code development: ChromatinCropper Integrating 3D images working on 3D image masks. Fixed up Stats2DScatter currently hard-coded in z-range is -300 300 corrected x4. Our calibration … Continue reading →

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Thursday 01/23/14

Posted on January 23, 2014 by admin

9:45a – 12:15a STORM analysis analyze bead data for BXC double stains analyze bead data for PhM Psc Finish O/N run of G05 quick look at ANTC data (just image based drift correction available at present) fewer localizations despite bright … Continue reading →

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Wednesday 01/22/14

Posted on January 22, 2014 by admin

9:30a – 11:50p Chromatin project Planning write up summary of yesterday’s meeting with XZ (see post) work on improving metrics for comparison of chromatin regions (see post) writing up plans for new ChromatinCropper to implement revised analysis (see post) plans … Continue reading →

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Chromatin Project, short-term goals

Posted on January 22, 2014 by admin

Issues with current data analysis In trying to get of order 100 loci per chromatin domain I’ve take a bunch of partially imaged edge of focus domains or other less well defined images (e.g. near edge of field of view). … Continue reading →

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Protected: Library2 Data Summaries

Posted on January 22, 2014 by admin

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RT smears troubleshooting

Posted on January 22, 2014 by admin

A quick look at my history of RT success to ID what started going wrong? Observations not much smearing in early samples. Incorporation rate increases with total amount of mRNA added. Using beads to concentrate mRNA increases production. Using pure … Continue reading →

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