Alternative evolutionary histories in the sequence space of an ancient protein https://www.Nature.com/articles/nature23902 Great viz of different potential but not necessarily realized evolutionary trajectories. Quite relevant for molecular #evolution & #pseudogenes
Archive for the 'SciLit' Category
Papers for Journal Club
June 7, 2018Potential role for microglia in Alzheimer’s
June 2, 2018Alzheimer’s may be caused by haywire immune system eating brain connections Study targets new mechanism in fight against cognitive decline
Computationally-designed synthetic protein assemblies that evolve like viruses | Nature Research Microbiology Community
May 22, 2018Evolution of a designed protein assembly encapsulating its own RNA genome https://www.Nature.com/articles/nature25157 The opposite, in a sense, of #BioInspired. Computational design of man-made virus capsid
ALSO:
Computationally-designed synthetic protein assemblies that evolve like viruses | Nature Research Microbiology Community
Paper for Journal Club Tomorrow
May 22, 2018Susceptibility of brain atrophy to TRIB3 in #Alzheimer’s disease, evidence from functional prioritization in imaging genetics
http://www.PNAS.org/content/115/12/3162.long Nice connection of developing phenotypes from #imaging, combined w. simple polygenic scores from genotypes
Genome-Scale Signatures of Gene Interaction from Compound Screens Predict Clinical Efficacy of Targeted Cancer Therapies – ScienceDirect
April 28, 2018Genome-Scale Signatures of Gene Interaction from #CompoundScreens Predict…Efficacy of Targeted Cancer Therapies
https://www.ScienceDirect.com/science/article/pii/S2405471218300097 How to find drug combos: Find expression response profiles associated w/ a drug target. A synergistic drug might change profiles similarly
Cryo-EM structure of substrate-bound human telomerase holoenzyme | Nature
April 28, 2018#CryoEM structure of substrate-bound human telomerase holoenzyme https://www.Nature.com/articles/s41586-018-0062-x Quote: “2 flexibly RNA-tethered lobes: the catalytic core (w/ #TERT & conserved motifs of telomerase RNA) & an H/ACA RNP”
systematic comparison of dnase-seq & atac-seq
April 21, 2018Reproducible inference of TF footprints in #ATACseq & DNase-seq…via protocol-specific bias modeling
https://www.BiorXiv.org/content/early/2018/03/19/284364 Systematic comparison of the 2 assay HT @gamzeandgursoy
Mapping the mouse Allelome reveals tissue-specific regulation of allelic expression | eLife
April 21, 2018Mapping the mouse Allelome reveals tissue-specific regulation of allelic expression https://eLifeSciences.org/articles/25125 More noncoding than coding #allelic activity. Also, finding windows of allelic activity for chromatin
Daniel Andergassen,
Christoph P Dotter,
Daniel Wenzel,
Verena Sigl,
Philipp C Bammer,
Markus Muckenhuber,
Daniela Mayer,
Tomasz M Kulinski,
Hans-Christian Theussl,
Josef M Penninger,
Christoph Bock,
Denise P Barlow ,
Florian M Pauler ,
Quanah J Hudson
Research Center for Molecular Medicine of the Austrian Academy of Sciences, Austria;
Institute of Molecular Biotechnology of the Austrian Academy of Sciences, Austria;
Institute of Molecular Pathology, Austria
Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data | Nature Genetics
March 18, 2018Fast, scalable prediction of deleterious #noncoding variants from functional & population genomic data
https://www.Nature.com/articles/ng.3810 LINSIGHT, by @ASiepel et al., combines DNAse & conservation information
Yi-Fei Huang, Brad Gulko & Adam Siepel
Nature Genetics 49, 618–624 (2017)
doi:10.1038/ng.3810
Published online:
13 March 2017
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