http://www.nature.com/nrm/journal/v15/n11/full/nrm3884.html
NATURE REVIEWS MOLECULAR CELL BIOLOGY | ANALYSIS
William H. Hudson
& Eric A. Ortlund
Nature Reviews Molecular Cell Biology 15, 749–760 (2014) doi:10.1038/nrm3884
Archive for the 'SciLit' Category
The structure, function and evolution of proteins that bind DNA and RNA : Nature Reviews Molecular Cell Biology : Nature Publishing Group
June 10, 2015Evolution and Functional Impact of Rare Coding Variation from Deep Sequencing of Human Exomes
June 10, 2015Func. Impact of Rare…Variation from Deep Sequencing…Exomes http://www.sciencemag.org/content/337/6090/64.abstract Relation to Protein Structural features (eg a-helices)
Science 6 July 2012:
Vol. 337 no. 6090 pp. 64-69
DOI: 10.1126/science.1219240
Evolution and Functional Impact of Rare Coding Variation from Deep Sequencing of Human Exomes
Jacob A. Tennessen1,*,
Abigail W. Bigham2,*,†,
Timothy D. O’Connor1,*,
Wenqing Fu1,
Eimear E. Kenny3,
Simon Gravel3,
Sean McGee1,
Ron Do4,5,
Xiaoming Liu6,
Goo Jun7,
Hyun Min Kang7,
Daniel Jordan8,
Suzanne M. Leal9,
Stacey Gabriel4,
Mark J. Rieder1,
Goncalo Abecasis7,
David Altshuler4,
Deborah A. Nickerson1,
Eric Boerwinkle6,10,
Shamil Sunyaev4,8,
Carlos D. Bustamante3,
Michael J. Bamshad1,2,‡,
Joshua M. Akey1,‡,
Broad GO,
Seattle GO,
on behalf of the NHLBI Exome Sequencing Project
Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters : Nature Biotechnology : Nature Publishing Group
June 10, 2015Segal cites: Measurements of 1000s of…designed promoters
http://www.nature.com/nbt/journal/v30/n6/full/nbt.2205.html Num. binding sites correlated w/ expr., for 1st few #ICSG2015
Unraveling determinants of transcription factor binding outside the core binding site
June 8, 2015Segal cites: Determinants of TF binding outside the core binding site http://genome.cshlp.org/content/early/2015/06/05/gr.185033.114.abstract Large-scale measurement of affinity #ICSG2015
Structural insights into mis-regulation of protein kinase A in human tumors
June 8, 2015Hendrickson cites: Structural insights into mis-regulation of PKA in…tumorshttp://www.pnas.org/content/112/5/1374 SNV stops reg. domain binding #ICSG2015
In other case showed recurring DnaJ–PKA fusion didn’t have coding effect but non-coding effect on promotor
vol. 112 no. 5
1374–1379, doi: 10.1073/pnas.1424206112
Structural insights into mis-regulation of protein kinase A in human tumors
Jonah Cheunga,1,
Christopher Gintera,
Michael Cassidya,
Matthew C. Franklina,
Michael J. Rudolpha,
Nicolas Robineb,
Robert B. Darnellb,c,d, and
Wayne A. Hendricksona,e,1
PLOS Computational Biology: Exploring the Evolution of Novel Enzyme Functions within Structurally Defined Protein Superfamilies
June 7, 2015Evolution of…Enzyme Functions w/in Structural…Superfamilies http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002403 Most changes involve substrates rather than chemistry
develops functional change matrix…
based on 276 fams
High hopes
June 1, 2015High hopes http://www.sciencemag.org/content/345/6192/18.summary Resurgence interest in the medical benefits of #psychedelics. Is it possible to get them without the high?
Similarity network fusion for aggregating data types on a genomic scale : Nature Methods : Nature Publishing Group
June 1, 2015Similarity #network fusion for aggregating data types http://www.nature.com/nmeth/journal/v11/n3/full/nmeth.2810.html Combines mRNA, miRNA & gene fusions to classify cancer subtypes
http://compbio.cs.toronto.edu/SNF/SNF
Found this review
May 31, 2015Nice graph of seq. machine output v time
http://www.cell.com/molecular-cell/abstract/S1097-2765(15)00340-8
linkstream2 microblog 