[440 @GencodeGenes] #Pseudogenes transcribed in breast…carcinoma show subtype-specific expression & ceRNA potential http://www.biomedcentral.com/1471-2164/16/113
Posts Tagged ‘from’
Single cell Genome + Transcriptome Sequencing
July 28, 2015G&T-seq: parallel…#singlecell genomes & transcriptomes by @CGATist
lab & others http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.3370.html low cov. matched data on 130+ cells
https://twitter.com/CGATist/status/604271101678587904
G&T-seq: parallel sequencing of single-cell genomes and transcriptomes
Iain C Macaulay,
Wilfried Haerty,
Parveen Kumar,
Yang I Li,
Tim Xiaoming Hu,
Mabel J Teng,
Mubeen Goolam,
Nathalie Saurat,
Paul Coupland,
Lesley M Shirley,
Miriam Smith,
Niels Van der Aa,
Ruby Banerjee,
Peter D Ellis,
Michael A Quail,
Harold P Swerdlow,
Magdalena Zernicka-Goetz,
Frederick J Livesey,
Chris P Ponting
& Thierry Voet
Nature Methods 12, 519–522 (2015) doi:10.1038/nmeth.3370Received 18 November 2014 Accepted 27 March 2015 Published online 27 April 2015
H1B visa statistics
July 23, 2015Oqtans: the RNA-seq workbench in the cloud for complete and reproducible quantitative transcriptome analysis. – PubMed – NCBI
July 21, 2015http://Oqtans.org: RNAseq…in the cloud by @gxr http://bioinformatics.oxfordjournals.org/content/30/9/1300.long Distributing a tool in many ways: AMI, GIT, Galaxy workflow, &c
Nice illustration how to distribute a tool in many forms —
AMI, GIT, Galaxy workflow + more.
* Sreedharan et al. Oqtans: the RNA-seq workbench in the cloud for
complete and reproducible quantitative transcriptome analysis.
The authors describe an open source transcriptome analysis software
package, Oqtans. The package contains a variety of existing analysis
tools (from short-read alignment, transcript quantification and
expression analysis) assembled into a comprehensive workflow. The
package can be either run locally or as a virtual machine in the cloud
using the AWS. One innovative feature is the availability of comparing
the efficiency of the integrated tools on the same data set. Oqtans is
a highly modular software package that can be easily extended. It also
offers the possibility to create customized workflows based on the
integrated tools available.
pQTLs
July 21, 2015Impact of regulatory variation from RNA to protein
http://www.sciencemag.org/content/347/6222/664.abstract pQTLs for prot levels less related to #eQTLs & rQTLs than expected
How genetics affect phenotypic variation
http://www.sciencemag.org/content/347/6222/664.abstract
Moore’s law is not that easy to follow anymore
July 16, 2015‘A game changer’: The Hackensack-Seton Hall School of Medicine and Research Facility | NJBIZ
July 11, 2015Lessons from modENCODE
July 11, 2015Cost of Reproducibility
July 6, 2015Cost of #Reproducibility http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.1002165 Estimated at almost $30B for life science research, based on 50% of studies not replicating
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