Assembly-based inference of Bcell receptor repertoires from..RNAseq w/
V’DJer https://academic.OUP.com/bioinformatics/article/32/24/3729/2525640/Assembly-based-inference-of-B-cell-receptor Less diversity assoc w/ long survival
Archive for the 'SciLit' Category
Assembly-based inference of B-cell receptor repertoires from short read RNA sequencing data with V’DJer | Bioinformatics | Oxford Academic
September 30, 2017Investigating the case of human nose shape and climate adaptation
September 25, 2017The case of human nose shape & climate adaptation
http://journals.PLoS.org/plosgenetics/article?id=10.1371/journal.pgen.1006616 Comparing its Qst-Fst statistic w/ that for height & skin color
QT:{{”
“To address the question of whether local adaptation to climate is responsible for nose shape divergence across populations, we use Qst–Fst comparisons to show that nares width and alar base width are more differentiated across populations than expected under genetic drift alone. To test whether this differentiation is due to climate adaptation, we compared the spatial distribution of these variables with the global distribution of temperature, absolute humidity, and relative humidity. We find that width of the nares is correlated with temperature and absolute humidity, but not with relative humidity. We conclude that some aspects of nose shape may indeed have been driven by local adaptation to climate. However, we think that this is a simplified explanation of a very complex evolutionary history, which possibly also involved other non-neutral forces such as sexual selection.”
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Network propagation: a universal amplifier of genetic associations : Nature Reviews Genetics : Nature Research
September 11, 2017#Network propagation [by Markov walks, heat flow, diffusion, &c]: a universal amplifier of genetic associations
http://www.Nature.com/nrg/journal/v18/n9/abs/nrg.2017.38.html
Lenore Cowen,
Trey Ideker,
Benjamin J. Raphael
& Roded Sharan
http://www.nature.com/nrg/journal/v18/n9/abs/nrg.2017.38.html?foxtrotcallback=true
Protein Structural Memory Influences Ligand Binding Mode(s) and Unbinding Rates – Journal of Chemical Theory and Computation (ACS Publications)
September 4, 2017Structural Memory Influences Ligand-Binding Mode http://pubs.ACS.org/doi/abs/10.1021/acs.jctc.5b01052 Rearrangement of #solvation layer is ~100x slower than unbinding
J Chem Theory Comput. 2016 Mar 8;12(3):1393-9. doi:
10.1021/acs.jctc.5b01052. Epub 2016 Feb 3.
Xu M, Caflisch A, Hamm P.
Whole-genome landscapes of major melanoma subtypes : Nature : Nature Research
September 4, 2017Hayward, Nicholas K., et al. "Whole-genome landscapes of major melanoma subtypes." Nature 545.7653 (2017): 175-180.
Whole-genome landscapes of…#melanoma subtypes http://www.Nature.com/nature/journal/vaop/ncurrent/full/nature22071.html Sun-exposed cutaneous w. many C>T SNVs v acral/mucosal w. many SVs
Genome sequence-independent identification of RNA editing sites : Nature Methods : Nature Research
August 27, 2017http://www.nature.com/nmeth/journal/v12/n4/full/nmeth.3314.html
Genome seq–independent Identification of #RNAediting http://www.Nature.com/nmeth/journal/v12/n4/full/nmeth.3314.html Accurate sites from uncorrelated SNV pair, spanned by reads
Reconstruction and signal propagation analysis of the Syk signaling network in breast cancer cells
August 14, 2017Naldi, A. et al. Reconstruction and signal propagation analysis of the Syk signaling network in breast cancer cells. PLOS Computational Biology 13, e1005432 (2017).
Reconstruction & signal propagation analysis of the Syk signaling #network http://journals.PLoS.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005432 Inferring potential targets of the kinase
Digital Health: Tracking Physiomes and Activity Using Wearable Biosensors Reveals Useful Health-Related Information
August 8, 2017http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.2001402
#mHealth: Tracking Physiomes & Activity w/ Wearable Biosensors, by @SnyderShot et al http://journals.PLoS.org/plosbiology/article?id=10.1371/journal.pbio.2001402 >250K/day data pts on 43 people
Evaluation Of Chromatin Accessibility In Prefrontal Cortex Of Schizophrenia Cases And Controls | bioRxiv
July 31, 2017Eval of Chromatin Accessibility [via #ATACSeq] in DLPFC of SCZ Cases/Ctrls, by @JulienBryois et al.
http://www.BiorXiv.org/content/early/2017/05/25/141986 List of cQTLs
Whole-Genome Sequencing and Social-Network Analysis of a Tuberculosis Outbreak — NEJM
July 22, 2017WGS & Social-#Network Analysis of a TB Outbreak http://www.NEJM.org/doi/full/10.1056/NEJMoa1003176 Nice tech combo but not sure transmission & phylogeny are consistent
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