Posts Tagged ‘from_jclub’

Papers for Journal Club

Thursday, June 7th, 2018

Alternative evolutionary histories in the sequence space of an ancient protein Great viz of different potential but not necessarily realized evolutionary trajectories. Quite relevant for molecular #evolution & #pseudogenes

Paper for Journal Club Tomorrow

Tuesday, May 22nd, 2018

Susceptibility of brain atrophy to TRIB3 in #Alzheimer’s disease, evidence from functional prioritization in imaging genetics Nice connection of developing phenotypes from #imaging, combined w. simple polygenic scores from genotypes

A Bayesian Framework to Account for Complex Non-Genetic Factors in Gene Expression Levels Greatly Increases Power in eQTL Studies

Saturday, January 6th, 2018

A Bayesian Framework to Account for Complex Non-Genetic Factors in Gene Expression Levels Greatly Increases Power in #eQTL Studies Early discussion & development of PEER factors

Assembly-based inference of B-cell receptor repertoires from short read RNA sequencing data with V’DJer | Bioinformatics | Oxford Academic

Sunday, October 1st, 2017

Assembly-based inference of Bcell receptor repertoires from..RNAseq w/
V’DJer Less diversity assoc w/ long survival

Network propagation: a universal amplifier of genetic associations : Nature Reviews Genetics : Nature Research

Monday, September 11th, 2017

#Network propagation [by Markov walks, heat flow, diffusion, &c]: a universal amplifier of genetic associations

Lenore Cowen,
Trey Ideker,
Benjamin J. Raphael
& Roded Sharan

Whole-genome landscapes of major melanoma subtypes : Nature : Nature Research

Tuesday, September 5th, 2017

Hayward, Nicholas K., et al. "Whole-genome landscapes of major melanoma subtypes." Nature 545.7653 (2017): 175-180.

Whole-genome landscapes of…#melanoma subtypes Sun-exposed cutaneous w. many C>T SNVs v acral/mucosal w. many SVs

Evaluation Of Chromatin Accessibility In Prefrontal Cortex Of Schizophrenia Cases And Controls | bioRxiv

Tuesday, August 1st, 2017

Eval of Chromatin Accessibility [via #ATACSeq] in DLPFC of SCZ Cases/Ctrls, by @JulienBryois et al. List of cQTLs

Whole-Genome Sequencing and Social-Network Analysis of a Tuberculosis Outbreak — NEJM

Sunday, July 23rd, 2017

WGS & Social-#Network Analysis of a TB Outbreak Nice tech combo but not sure transmission & phylogeny are consistent

Zika virus evolution and spread in the Americas : Nature : Nature Research

Monday, June 26th, 2017

#Zika virus evolution & spread in the Americas, by @sabeti_lab #Phylogeny reconstruction of 110 new + 64 known seqs.

A Big Bang model of human colorectal tumor growth : Nature Genetics : Nature Research

Wednesday, June 7th, 2017

Big Bang model of…tumor growth, v. slow #evolution under selection #Cancer is born w/ key mutations all there

Andrea Sottoriva,
Haeyoun Kang,
Zhicheng Ma,
Trevor A Graham,
Matthew P Salomon,
Junsong Zhao,
Paul Marjoram,
Kimberly Siegmund,
Michael F Press,
Darryl Shibata
& Christina Curtis

Nature Genetics 47, 209–216 (2015) doi:10.1038/ng.3214