Dec 2012 Bioinformatics SIG Meeting

• Naive Bayes Classifier
• Support Vector Machine
• next meeting march 6 2013 - big data
• the harp and fiddle in bethesda

Hari Schroff

• Selective plane illumination microscopy for high-speed, long term studies of C. elegans embryogenesis
• fluorescence radiance energy transfer
• super resolution microscopy
• atlas of development
• human brain, 25k genes, movie cataloging how the human brain forms
• worm brain 302 neurons, 5k synapses, 20k genes
• 4d- dynamic atlas of neuro development
• google worm atlas
• we have lineages, following patern of division

1. selectively mark neurons, turn on just a few at a time
2. identify neurons
3. take raw data, curate, annotate, form into atlas

• 30-50 um
• widefield, epifluorescence - volumetric luminescence bleaches out of focus, causes damage
• confocal microscope - reject out of focus light - intrinsically slow, wasteful of probe, can't do high speeds, photobeaching artifacts
• best solution - light sheet illumination
• detection of fluorescence happens perpendicular to excitation
• following subcellular processes migrate

discovering when functional decisions are made

• high speed low photo damage, zebrafish primordium, mouse egg sperm,
• anisotropic resolution, could flip axes? tomography
• mipav.cit.nih.gov
• wormguides.org
• tube that is writing on itself in 3 dimensions

Richa Agarwala

• alignment of short read data
• short read - sub-sequence, small sequence 100 bases long, paired = two ends "mates" oriented a certain way