Posts Tagged ‘bioinformatics’

gwas catalog

March 31, 2018

nih GWAS catalog has moved to ebi
http://www.ebi.ac.uk/gwas/

Evogeneao: The Tree of Life

December 2, 2017

Evogeneao: The Tree of Life
https://www.evogeneao.com/explore/tree-of-life-explorer Nice web tool. Particularly good for interactively #visualizing human #evolution relative to that of other species

NAR Breakthrough Article: denovo-db: a compendium of human de novo variants

April 3, 2017

.@denovodb: a compendium of [initially ~33K] human de novo variants w. phenotype, freely downloadable as a TSV table
https://academic.OUP.com/nar/article-lookup/doi/10.1093/nar/gkw865

QT:{{”
As of July 2016, denovo-db contained 40 different studies and 32,991 de novo variants from 23,098 trios. Database features include basic variant information (chromosome location, change, type); detailed annotation at the transcript and protein levels; severity scores; frequency; validation status; and, most importantly, the phenotype of the individual with the variant.
“}}

denovo-db.gs.washington.edu/denovo-db/
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5210614/

Human Developmental Biology Resource (HDBR)

October 21, 2016

The MRC-Wellcome Trust Human Developmental Biology Resource (HDBR) HDBR EXPRESSION – An online resource for studying prenatal human brain development
http://www.hdbr.org/expression/

AlgoRun, a Docker-based packaging system for platform-agnostic implemented algorithms

March 19, 2016

http://dx.doi.org/10.1093/bioinformatics/btw120

http://AlgoRun.org, #Docker-based packaging [w/ web GUI & workflow mgt] for platform-agnostic implement[ations]
http://Bioinformatics.Oxfordjournals.org/content/early/2016/03/02/bioinformatics.btw120

Hosny, A. et al. AlgoRun, a Docker-based packaging system for platform-agnostic implemented algorithms. Bioinformatics Advance Access, Mar 2, 2016.

Useful NIH Funding Data on Bioinformatics Education

September 6, 2015

BD2K funded programs so far…
https://datascience.nih.gov/bd2k/funded-programs/enhancing-training/institutional-grants

NIGMS Comp Bio & Bioinfo funded predoctoral programs
http://www.nigms.nih.gov/Training/InstPredoc/Pages/PredocInst-Bioinformatics.aspx

THE NLM funded Biomedical Informatics training programs
https://www.nlm.nih.gov/ep/GrantTrainInstitute.html#5

Core services: Reward bioinformaticians

May 9, 2015

QT:{{"The research system does not recognize bioinformaticians for doing what the scientific community needs most. “People realize the importance, but currently there are no real solutions,” says Xiaole Liu, a bioinformatician at the Dana-Farber Cancer Institute in Boston, Massachusetts, and at Tongji University in Shanghai, China. This is why it can take more than six months to fill positions at a core, why many of biology’s brightest are leaving science for technology companies, and why conventional biologists wait nine months to get help to dissect their data.
"}}

Reward bioinformaticians [for collaboration] http://www.nature.com/news/core-services-reward-bioinformaticians-1.17251 Despite #bigdata boom, biomedical analysis could be made more appealing

Summarizing 4 conferences last week: AACR ’15, ISEV ’15, BioIT ’15 & ICEBEM 2015

April 28, 2015

AACR 2015
http://www.aacr.org/Meetings/Pages/MeetingDetail.aspx?EventItemID=25#.VT8JXa1Viko https://linkstream2.gerstein.info/tag/i0pcawg15/

ISEV/ERCC Education Day – ISEV – International Society for
Extracellular Vesicles
http://www.isevmeeting.org/isevercc-education-day.html
https://linkstream2.gerstein.info/tag/i0isev/

2015 Bio-IT World Conference & Expo
http://www.bio-itworldexpo.com/
https://linkstream2.gerstein.info/tag/i0bioit15/
http://lectures.gersteinlab.org/summary/Progressive-summarization-large-scale-data-interpret-cancer–20150423-i0bioIT15/

8th International Conference on Ethics in Biology, Engineering & Medicine (ICEBEM 2015)
http://www.downstate.edu/orthopaedics/bioethics/
http://lectures.gersteinlab.org/summary/Soc-n-Tech-Soln-to-Privacy-in-Personal-Genomics–20150424-i0icebem15/

Tweets for all of them
https://storify.com/markgerstein/favorite-tweets-from-bioit-15-aacr-15-and-isev-15-16

Dan David Foundation to award three prizes of $1 million to six world renowned laureates

February 13, 2015

6 individuals will share…Dan David prizes worth $1M
http://www.jpost.com/Israel-News/Dan-David-Foundation-to-award-three-prizes-of-1-million-to-six-world-renowned-laureates-390602 … #Bioinformatics Prize to C Chothia, D Haussler & M Waterman

Also, Jimmy Wales of Wikipedia fame will get a prize for the Present Information Revolution

ROSALIND | About

February 8, 2015

Useful helpers for #teaching #bioinformatics: Biostars forum https://www.biostars.org & Rosalind assignment evaluator http://rosalind.info/about