QT:{{”
Tabula Muris is a compendium of single cell transcriptome data from the model organism Mus musculus, containing nearly 100,000 cells from 20 organs and tissues. The data allow for direct and controlled comparison of gene expression in cell types shared between tissues, such as immune cells from distinct anatomical locations. They also allow for a comparison of two distinct technical approaches: “}}
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
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/
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.
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
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
AACR 2015
http://www.aacr.org/Meetings/Pages/MeetingDetail.aspx?EventItemID=25#.VT8JXa1Viko http://linkstream2.gerstein.info/tag/i0pcawg15/
ISEV/ERCC Education Day – ISEV – International Society for
Extracellular Vesicles
http://www.isevmeeting.org/isevercc-education-day.html
http://linkstream2.gerstein.info/tag/i0isev/
2015 Bio-IT World Conference & Expo
http://www.bio-itworldexpo.com/
http://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
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
Useful helpers for #teaching #bioinformatics: Biostars forum https://www.biostars.org & Rosalind assignment evaluator http://rosalind.info/about
http://blog.pacificbiosciences.com/2014/02/data-release-54x-long-read-coverage-for.html
QT:{{”
We are pleased to make publicly available a new shotgun sequence dataset of long PacBio® reads from a human DNA sample. We previously released sequence data using Single Molecule, Real-Time (SMRT®) Sequencing of ~10x coverage of this sample, sufficient for
reference-based detection of structural variation. Today we expand on that release with additional data that increases the total sequencing coverage to ~54x. This long-read data has enabled the generation of the first de novohuman genome assembly from PacBio-only sequence reads. Download the 54x long-read coverage dataset.
The dataset was generated from sequencing a well-studied human cell line (CHM1htert), which is being utilized as part of a National Institutes of Health project to sequence and assemble an alternate reference genome (the “platinum genome”). This NIH project is being led by Rick Wilson from Washington University at St. Louis and Evan Eichler from the University of Washington in collaboration with investigators from the National Center for Biotechnology Information. “}}