Vijai

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NIH to Fund Genomics Studies Linking HLA and KIR Regions with Diseases

Genetics

A success story for Warburg's Lens

I've been travelling a lot of late, which I'll blog about on its own in a bit (including a 'best of the best' coffee machines post), but I heard a …

“Undemocracy”: inequalities in science

AAAS login provides access to <i>Science</i> for AAAS members, and access to other journals in the <i>Science</i> family to users who have purchased individual …

Science

Nicholas Wade and race: building a scientific façade

<i>“…for he has no right to give names to objects which he cannot define.” –Charles Darwin</i><p>Do “races” exist as meaningful biological categories? Physical …

Promoters and Enhancers in the Human Genome

A recent issue of <i>Nature</i> featured two articles from the FANTOM5 project, an effort to systematically study gene expression and regulation by …

qqman: an R package for creating Q-Q and manhattan plots from GWAS results

Three years ago I wrote a blog post on how to create manhattan plots in R. After hundreds of comments pointing out bugs and other issues, I've …

Buggy Python Code: The 10 Most Common Mistakes That Python Developers Make

About Python<p>Python is an interpreted, object-oriented, high-level programming language with dynamic semantics. Its high-level built in data …

Python Programming

The Five Best Libraries For Building Data Visualizations

By Luke Dormehl7 minute Read<p>An explosion in the number of available data sources and data-processing tools means that more people than ever are …

Future Continuous - BoG14 TL/DR Summary

Future Continuous<p>It is fun to have fun, but you have to know how (The Cat in the Hat).<br>Yaniv Erlich's blog Ask me anything Submit a post<p>BoG14 TL/DR …

Estimating number of transcripts from RNA-Seq measurements (and why I believe in paywall)

I was recently reading the latest ENCODE paper published in PNAS when a sentence in the caption of Figure 2 caught my attention:<p>Although very few …

Risk Score Predicts Arthritis Progression

Action Points<p>A risk score encompassing clinical characteristics, serologic findings, and imaging tests could be used to predict which patients with …

The Indian band Ska Vengers pulls no punches in a new song blasting a political frontrunner

Remember the ska tune "A Message to You, Rudy" by the British band The Specials? Now an Indian band called the Ska Vengers is making waves with a cover of the song that wades deeply into politics.<p>They call their version "Modi, A Message to You." The song is squarely aimed at Narendra Modi, the …

Assessing the impact of human genome annotation choice on RNA-seq expression estimates

Abstract<p>Background<p>Genome annotation is a crucial component of RNA-seq data analysis. Much effort has been devoted to producing an accurate and …

Genetics

Developing a predictive biomarker for PARP inhibition

Today’s Science Friday post looks at the identification of a potential new biomarker and possible strategies for expanding use of…

HaploMerger: reconstructing allelic relationships for polymorphic diploid genome assemblies.

2012 Aug;22(8):1581-8. doi: 10.1101/gr.133652.111. Epub 2012 May 3.<p>1State Key Laboratory of Biocontrol, Guangdong Key Laboratory of Pharmaceutical …

Next-Generation Sequencing

A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages

Altmetric: 15<p>Citations: 77<p>More detail<p>Article |<p>Open<p>Ying Yu<br>• , James C. Fuscoe<br>• , Chen Zhao<br>• , Chao Guo<br>• , Meiwen Jia<br>• , Tao Qing<br>• , Desmond I. Bannon<br>• , Lee …

Need occasional access to Windows on your Mac? Install it from a USB key …

If you need occasional access to Windows and don’t want to install it from a DVD, a how-to guide by Sam Power may have the perfect solution. It talks you through exactly how to create a Bootcamp-compatible USB key installer for either Windows 7 or 8 compatible.<p>A 4GB USB key is sufficient, and the …

footprintDB: a database of transcription factors with annotated cis elements and binding interfaces | Bioinformatics | Oxford Academic

Direct inference of protein-DNA interactions using compressed sensing methods<p>Basic local alignment search tool<p>Protein binding microarrays (PBMs) for …

Sample size calculation based on exact test for assessing differential expression analysis in RNA-seq data. - PubMed

BACKGROUND:<p>Sample size calculation is an important issue in the experimental design of biomedical research. For RNA-seq experiments, the sample size …

Neurology

Using expression profiling data to identify human microRNA targets

<b>Using expression profiling data to identify human microRNA targets</b><p><b>Jim C. Huang1,6, Tomas Babak2,6, Timothy W. Corson2,3, Gordon Chua4, Sofia Khan2,3,</b> …

Introducing the New Human Genome Assembly: GRCh38

This month marks a major event in the realm of human genome research: the release of a new assembly of the genome, GRCh38. It has been over four …

Status quo of annotation of human disease variants

Abstract<p>Background<p>The ever on-going technical developments in Next Generation Sequencing have led to an increase in detected disease related …

NGS Conferences

Here is a list of Genomics / Next-Gen sequencing conferences in 2018. NextGenSeek hopes to list all conferences/courses related to Next-Gen …

If you haven’t heard of CRISPR, you must attend this webinar! CRISPR (clustered regularly interspersed short tandem repeats) is revolutionizing the …

Genetics

Statistical Learning

PLEASE NOTE: This is an archived course and you will not be able to earn a Statement of Accomplishment. If you would like to earn a Statement of …

Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems

2<p>GBrowse and GFF are 1-based exclusively.<p>ADD REPLY • link written 4.5 years ago by scott • <b>50</b><p>2<p>I'm not sure your description of an insertion in 1-based …

Web Development