Archive for the 'SciLit' Category

Uncovering Earth’s virome : Nature : Nature Research

October 21, 2016

Uncovering Earth’s virome
http://www.nature.com/nature/journal/v536/n7617/full/nature19094.html Meta analysis of 5Tb of extant #metagenomic sequences finds >125k partial viral genomes

David Paez-Espino, Emiley A. Eloe-Fadrosh, Georgios A. Pavlopoulos, Alex D. Thomas, Marcel Huntemann, Natalia Mikhailova, Edward Rubin, Natalia N. Ivanova & Nikos C. Kyrpides

Looking for a Signal in the Noise: Revisiting Obesity and the Microbiome

October 16, 2016

QT:{{"
Katherine Pollard led one study, and Rob Knight led the other
(Finucane et al., 2014; Walters et al., 2014).
"}}

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4999546/

Genome expansion via lineage splitting and genome reduction in the cicada endosymbiont Hodgkinia

October 16, 2016

http://www.pnas.org/content/112/33/10192.abstract

PLOS Computational Biology: PredictSNP2: A Unified Platform for Accurately Evaluating SNP Effects by Exploiting the Different Characteristics of Variants in Distinct Genomic Regions

October 9, 2016

PredictSNP2: A Unified Platform http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004962 Ensembles many scores for the impact of non-coding variants, including #FunSeq

Single Cell Analysis paper

October 8, 2016

16 Neuronal subtypes & [inter-regional] diversity revealed by [#singlecell]-nucleus RNAseq of…the brain
http://science.sciencemag.org/content/352/6293/1586.long

Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain.
Lake BB, Ai R, Kaeser GE, Salathia NS, Yung YC, Liu R, Wildberg A, Gao D, Fung HL, Chen S, Vijayaraghavan R, Wong J, Chen A, Sheng X, Kaper F, Shen R, Ronaghi M, Fan JB, Wang W, Chun J, Zhang K.
Science. 2016 Jun 24;352(6293):1586-90. doi: 10.1126/science.aaf1204.

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets — ScienceDi rect

October 4, 2016

Gray cites Parallel Genome-wide Expression Profiling of Indiv. Cells
w. nL Droplets http://www.sciencedirect.com/science/article/pii/S0092867415005498 … Drop-seq via barcodes #ngsus16

Multi-Input RNAi-Based Logic Circuit for Identification of Specific Cancer Cells | Science

October 4, 2016

Weiss cites RNAi-Based Logic Circuit for Identification of…Cancer Cells http://science.sciencemag.org/content/333/6047/1307 How to optimize via adding FFLs #NGSUS16

adding in FFL & FBL to get more selectivity

Integrated Systems Approach Identifies Genetic Nodes and Networks in Late-Onset Alzheimer’s Disease: Cell

October 1, 2016

Zhang, Bin, Chris Gaiteri, Liviu-Gabriel Bodea, Zhi Wang, Joshua McElwee, Alexei A. Podtelezhnikov, Chunsheng Zhang et al. "Integrated systems approach identifies genetic nodes and networks in late-onset Alzheimer’s disease." Cell 153, no. 3 (2013): 707-720.

Integrated systems approach identifies genetic…#networks in…Alzheimer’s http://www.Cell.com/cell/abstract/S0092-8674(13)00387-5 Determining causality from co-expression

Elucidating Molecular Motion through Structural and Dynamic Filters of Energy-Minimized Conformer Ensembles

September 30, 2016

Elucidating Molecular Motion (compatible w. #NMR relaxation times) through…Filters of Energy-Minimized…Ensembles
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3983377

PLOS ONE: Sizing the Problem of Improving Discovery and Access to NIH-Funded Data: A Preliminary Study

September 29, 2016

http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0132735