linkstream2 microblog

500 whole-genome cancer sequences

http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12477.html

this should partially explain the high insertion rate in worm: http://mbe.oxfordjournals.org/content/26/6/1199.full

QT:”
Of the new mutations observed in MA lines, more than half were short indel mutations, with fewer deletions than insertions (Denver, Morris, Lynch, and Thomas 2004). This finding on indels contrasts with previous work with C. elegans pseudogenes in which deletions are more common than insertions (Robertson 2000; Witherspoon and Robertson 2003) but is consistent with findings in C. elegansmicrosatellite mutation data (Frisse 1999; Denver, Morris, Kewalramani, et al. 2004; Seyfert et al. 2008).
“

http://www.nature.com/nmeth/journal/v10/n8/full/nmeth.2557.html

Mattick & Dinger
The extent of functionality in the human genome
http://www.thehugojournal.com/content/7/1/2/

http://www.annualreviews.org/doi/abs/10.1146/annurev.biophys.37.032807.125924

#Regression Methods for Decoding cis-Regulatory Logic, incl. interaction terms & non-linear sigmoidal relationships
http://www.ploscollections.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1000269

Lister… Ecker

MT @BiomedRevon: Global #epigenomic reconfiguration during mammalian #brain development http://bit.ly/16lbboa cortex methylation over time

A “map showing how methylation changes in the frontal cortex over time. During the first two years of life… a wave of methylation alters the DNA in genes ”

http://www.sciencemag.org/content/early/2013/07/05/science.1237905

http://www.ploscompbiol.org/article/info%253Adoi%252F10.1371%252Fjournal.pcbi.1000770

An Information-Theoretic Machine Learning Approach to Expression QTL Analysis Tao Huang, Yu-Dong Cai
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0067899

The Exomes of the NCI-60 Panel: A Genomic Resource for Cancer Biology and Systems Pharmacology
Cancer Res July 15, 2013 73:4372-4382; Published OnlineFirst July 15, 2013; http://cancerres.aacrjournals.org/content/73/14/4372.long