Dunbrack PhD thesis
http://www.sciencedirect.com/science/article/pii/S0022283683711708?via=ihub Backbone-dependent Rotamer Library for Proteins Application to Side-chain Prediction — ScienceDirect
Maps of protein structure space reveal a fundamental relationship between protein structure and function
http://www.pnas.org/content/108/30/12301.abstract
Mapping functional transcription factor networks from gene expression data
NetProphet ref
Large-scale reconstruction of 3D structures of human chromosomes from chromosomal contact data
http://nar.oxfordjournals.org/content/early/2014/01/24/nar.gkt1411.full
Mol Biosyst. Author manuscript; available in PMC Jul 1, 2014. Published in final edited form as:
Mol Biosyst. Jan 2014; 10(1): 9–17.
doi: 10.1039/c3mb70225a
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3710751/
surprisingly, no positional effects on LOF mutations … significant proportion of truncation alleles give rise to functional products
“guilt by assoc works”
signif. number dom mut give rise to func products
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3759719/
Annotated somatic variants and interactive variant analysis results are available online atwww.ingenuity.com/acrg2012.
Eighty-eight primary HCC tumors and matched adjacent nontumor liver tissues were analyzed by whole-genome DNA sequencing to identify somatic mutations and HBV integration sites. The vast majority (92%,n = 81) of patients in this cohort were HBV carriers (i.e., HBsAg seropositive) suffering from chronic hepatitis B or cirrhosis. None of the patients were hepatitis C virus (HCV) positive
the data:
http://gigadb.org/dataset/100034
The original paper is here: http://www.ncbi.nlm.nih.gov/pubmed/23788652