linkstream2 microblog

Gene expr. elucidates functional impact of…risk for SCZ
http://www.nature.com/neuro/journal/vaop/ncurrent/full/nn.4399.html CMC resource contains >2.1M #eQTLs involving ~1.6M SNPs

NATURE NEUROSCIENCE | ARTICLE

Gene expression elucidates functional impact of polygenic risk for schizophrenia

Menachem Fromer,
Panos Roussos,
Solveig K Sieberts,
Jessica S Johnson,
David H Kavanagh,
Thanneer M Perumal,
Douglas M Ruderfer,
….
Eric E Schadt,
Keisuke Hirai,
Kathryn Roeder,
Kristen J Brennand,
Nicholas Katsanis,
Enrico Domenici,
Bernie Devlin
& Pamela Sklar

Protein-structure-guided discovery of functional mutations across 19 #cancer types http://www.nature.com/ng/journal/v48/n8/abs/ng.3586.html Cancer3D relates SNVs to drugs

http://www.nature.com/ng/journal/v48/n8/abs/ng.3586.html

Scored…PPI #network to catalyze genomic interpretation http://www.Nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.4083.html >500k links from lit. mining; up weights small-scale expt

TWEETS

https://storify.com/markgerstein/favorite-tweets-from-bd2k-all-hands-meeting-16-bd2

TAGGED ITEMS

https://linkstream2.gerstein.info/tag/i0bd2k16

PRIVATE SLIDE PICS

http://archive.gersteinlab.org/meetings/s/2016/12.03/i0bd2k16–bd2k_ahm-posters/

PredictSNP…Consensus Classifier for Prediction of Disease-Related
Mutations http://journals.PLOS.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003440 Demo of various #ensemble approaches

# The meeting
https://meetings.cshl.edu/meetings.aspx?meet=DATA&year=16

# The panel

My lecture
http://lectures.gersteinlab.org/summary/Education-in-Bio-DataScience–20161028-i0bds16/

List of Curricular Topics for Bioinformatics http://goo.gl/303KXr An invitation for crowd-sourced comments to the talk

Panel Slides
https://docs.google.com/presentation/d/1mhcXpr_BhxvCx4Ki4jR4hLRNzm524JMW76H8zL31Yt4/edit?usp=sharing

Cached copy of above gdocs
http://archive.gersteinlab.org/public-docs/2016/11.01/cached-copy-of-biodata16-i0bds16-gdocs/

Earlier versions of the crowd-source edit:
http://cbb752b16.gersteinlab.org/assignments/homework0
Also:
http://blog.gerstein.info/2015/11/list-of-study-topics-prerequisites-for.html

# Related educational resources (unfortunately, Yale-centric):

The Yale CBB program & its focus on Data Science
http://cbb.yale.edu
http://cbb.yale.edu/graduate-program/optional-focus-biomedical-data-science

CBB752 – Biomedical Data Science: Mining & Modeling
http://www.gersteinlab.org/courses/452/

My ’14 list of US Bioinformatics Programs:
http://blog.gerstein.info/2015/05/updated-again-listing-of-us-programs-in.html https://twitter.com/markgerstein/status/600763647095341056

Hackathon slides:
https://docs.google.com/presentation/d/123NLmlYAUrJf2M709kPyDJl3N5wIcOO8W-EGJVxZKN4/edit?usp=sharing

Article on online curriculum:
http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003662

Masters of Data Science
http://www.slideshare.net/ttimbers/ubc-mds-education-slides

Favorite Tweets
https://storify.com/markgerstein/favorite-tweets-from-biological-data-science-16-bi

Tagged from meeting
https://linkstream2.gerstein.info/tag/i0bds16/

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

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

TWEETS

https://storify.com/markgerstein/tweets-from-plos-comp-bio-editors-meeting-i0plos16.html (includes NextGen meeting too)

TAGGED ITEMS

https://linkstream2.gerstein.info/tag/i0ng16
https://linkstream2.gerstein.info/tag/i0cgds

TOP LINK

http://www.nextgenerationsequencingusa-congress.com/venue/2016-venue/

MY LECTURES

http://lectures.gersteinlab.org/summary/Evaluating-exome-variants-using-structures-n-allelic-activity–20161004-i0ng16/
http://lectures.gersteinlab.org/summary/Bullets-for-NHGRI-workshop-M-Gerstein–20160929-i0cgds/

=###=> LAST WEEK NOTES (bundled with this) <=###=

https://linkstream2.gerstein.info/2016/09/24/notes-from-meetings-last-week-the-plos-comp-bio-summit-the-icgcpcawg-meeting-i0pcawg16i0plos16/

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