Splicing is a prim. link betw…variation & disease by @JKPritch, @Y_Gilad &co http://science.sciencemag.org/content/352/6285/600.long many chrom-QTLs effect protein levels
Archive for the 'SciLit' Category
Predicting peptide binding sites on protein surfaces by clustering chemical interactions – Yan – 2014 – Journal of Computational Chemistry – Wiley Online Library
July 4, 2016Predicting peptide binding sites on protein surfaces by ACCLUSTER http://onlinelibrary.wiley.com/doi/10.1002/jcc.23771/abstract #Chemical interactions out perform pure #packing
Single-Cell Co-expression Analysis Reveals Distinct Functional Modules, Co-regulation Mechanisms and Clinical Outcomes
July 2, 2016#SingleCell Coexpression…Reveals Distinct Func. Modules [v clustering bulk RNAseq]… & Clinical Outcomes [in GBM]
http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004892
QT:{{”
We found that the co-expressed genes observed in single cells and bulk tumors have little overlap and show distinct characteristics. The co-expressed genes identified in bulk tumors tend to have similar biological functions, and are enriched for intrachromosomal
interactions with synchronized promoter activity. In contrast, single-cell co-expressed genes are enriched for known protein-protein interactions, and are regulated through interchromosomal interactions. “}}
Integrative analyses reveal a long noncoding RNA-mediated sponge regulatory network in prostate cancer : Nature Communications : Nature Publishing Group
July 2, 2016lncRNA-mediated sponge regulatory network in prostate cancer http://www.nature.com/ncomms/2016/160315/ncomms10982/full/ncomms10982.html Few explicitly noted #pseudogenes besides PTENP1
Kinome-wide Decoding of Network-Attacking Mutations Rewiring Cancer Signaling: Cell
July 2, 2016Kinome-wide Decoding of #Network-Attacking Mutations Rewiring Cancer http://www.cell.com/cell/abstract/S0092-8674(15)01108-3 Mapping NAMs onto well-known signaling pathways
PLOS Computational Biology: The Evolutionary Origins of Hierarchy
June 29, 2016Evolutionary Origins of Hierarchy
http://journals.plos.org/ploscompbiol/article?id=10.1371%2Fjournal.pcbi.1004829 Simulations explain how connection cost drives formation in sparse #networks
RNA splicing is a primary link between genetic variation and disease | Science
June 21, 2016http://science.sciencemag.org/content/352/6285/600.long
Yang I. Li1,
Bryce van de Geijn2,
Anil Raj1,
David A. Knowles3,4,
Allegra A. Petti5,
David Golan1,
Yoav Gilad2,*,
Jonathan K. Pritchard1,6,7,*
GERV: a statistical method for generative evaluation of regulatory variants for transcription factor binding
June 21, 2016http://bioinformatics.oxfordjournals.org/content/early/2015/11/05/bioinformatics.btv565
GERV: a statistical method for generative evaluation of regulatory variants for transcription factor binding
Haoyang Zeng
Tatsunori Hashimoto
Daniel D. Kang
David K. Gifford
linkstream2 microblog 