fastq-tools

I am browsing [fastq-tools]. Have a look at it! http://homes.cs.washington.edu/~dcjones/fastq-tools/?utm_content=buffer7e4f0&utm_medium=social&utm_source=twitter.com&utm_campaign=buffer

Hadoop 101 for bioinformaticians: 1 hour crash course, code and slides | Pimm - Partial immortalization

I am browsing [Hadoop 101 for bioinformaticians: 1 hour crash course, code and slides | Pimm - Partial immortalization]. Have a look at it! http://pimm.wordpress.com/2014/11/29/hadoop-101-for-bioinformaticians-1-hour-crash-course-code-and-slides/

PLOS Genetics: Transcriptome Sequencing from Diverse Human Populations Reveals Differentiated Regulatory Architecture

http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1004549

Genome Biology | Cancer genomics: one cell at a time

http://genomebiology.com/2014/15/8/452/abstract

Genome Biology | Abstract | Deep sequencing of the X chromosome reveals the proliferation history of colorectal adenomas

http://genomebiology.com/2014/15/8/437/abstract

Phen-Gen: combining phenotype and genotype to analyze rare disorders : Nature Methods : Nature Publishing Group

http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.3046.html

WEB TOOL Sequence Coverage

http://seqcoverage.com/

RNASEQ | MBASED: allele-specific expression detection in cancer tissues and cell lines

http://genomebiology.com/2014/15/8/405

NGS resource

http://training.bioinformatics.ucdavis.edu/docs/2013/09/short-course-2013/

Micro RNA and Cancer

http://www.cell.com/trends/molecular-medicine/abstract/S1471-4914(14)00101-4

Why do we have blood types? | Mosaic

Carl Zimmer

http://mosaicscience.com/story/why-do-we-have-blood-types

Integrating mapping-, assembly- and haplotype-based approaches for calling variants in clinical sequencing applications : Nature Genetics : Nature Publishing Group

http://www.nature.com/ng/journal/vaop/ncurrent/full/ng.3036.html

TCPA: a resource for cancer functional proteomics data

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4076789/

Genome sequencing of normal cells reveals developmental lineages and mutational processes : Nature : Nature Publishing Group

http://www.nature.com/nature/journal/vaop/ncurrent/full/nature13448.html

Whole-genome sequence variation, population structure and demographic history of the Dutch population : Nature Genetics : Nature Publishing Group

http://www.nature.com/ng/journal/vaop/ncurrent/full/ng.3021.html

Genome Biology | Abstract | LUMPY: A probabilistic framework for structural variant discovery

http://genomebiology.com/2014/15/6/R84/abstract

IMPC | International Mouse Phenotyping Consortium

http://www.mousephenotype.org/

BMC Bioinformatics | Abstract | An integrative method to normalize RNA-Seq data

http://www.biomedcentral.com/1471-2105/15/188/abstract

BMC Genomics | Abstract | Methylation-capture and next-generation sequencing of free circulating DNA from human plasma

http://www.biomedcentral.com/1471-2164/15/476/abstract

BMC Biology | Abstract | RNA-seq: Impact of RNA degradation on transcript quantification

http://www.biomedcentral.com/1741-7007/12/42/abstract

6 Changes That'll Make a Big Difference With Your RNA-seq; Part 6 | Cofactor Genomics

http://cofactorgenomics.com/6-changes-thatll-make-big-difference-rna-seq-part-6/

Diversity and dynamics of the Drosophila transcriptome : Nature : Nature Publishing Group

http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12962.html?WT.ec_id=NATURE-20140320

PyClone: statistical inference of clonal population structure in cancer : Nature Methods : Nature Publishing Group

http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.2883.html

PARADIGM-SHIFT pathway based functional mutation identification in cancer

http://m.bioinformatics.oxfordjournals.org/content/28/18/i640

Functional annotation of noncoding sequence variants : Nature Methods : Nature Publishing Group

http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.2832.html

SplicePlot: a tool for visualizing alternative splicing -- splice_plot 1.0 documentation

http://montgomerylab.stanford.edu/spliceplot/

Genome Biology | Abstract | Using high-density DNA methylation arrays to profile copy number alterations

http://genomebiology.com/2014/15/2/R30/abstract

JAMA Network | From Genome-Wide Association Studies to Next-Generation Sequencing: Lessons From the Past and Planning for the Future

http://archneur.jamanetwork.com/article.aspx?articleid=1763963

RADIA: RNA and DNA Integrated Analysis for Somatic Mutation Detection

http://arxiv.org/abs/1402.0850

PLOS Genetics: Single Cell Genomics: Advances and Future Perspectives

http://www.plosgenetics.org/article/info:doi%2F10.1371%2Fjournal.pgen.1004126

From single-cell to cell-pool transcriptomes: Stochasticity in gene expression and RNA splicing

http://m.genome.cshlp.org/content/early/2014/01/30/gr.161034.113.abstract

A general framework for estimating the relative pathogenicity of human genetic variants : Nature Genetics : Nature Publishing Group

http://www.nature.com/ng/journal/vaop/ncurrent/full/ng.2892.html

BMC Bioinformatics | Abstract | Inferring clonal evolution of tumors from single nucleotide somatic mutations

http://www.biomedcentral.com/1471-2105/15/35/abstract

Identifying driver mutations in sequenced cancer genomes: computational approaches to enable precision medicine

http://genomemedicine.com/content/6/1/5

COHCAP: CpG Island Analysis for Illumina Methylation Array and Targeted BS-Seq Data - BioStar

http://www.biostars.org/p/92033/

Cell - Mapping Rare and Common Causal Alleles for Complex Human Diseases

http://www.cell.com/abstract/S0092-8674(11)01069-5?switch=standard

RNA-seq differential expression studies: more sequence or more replication?

http://m.bioinformatics.oxfordjournals.org/content/30/3/301.short?rss=1

Simultaneous identification and prioritization of variants in familial, de novo, and somatic genetic disorders with VariantMaster

http://m.genome.cshlp.org/content/early/2014/01/02/gr.163832.113?utm_source=twitterfeed&utm_medium=twitter

What is the True Computing Cost of RNAseq Analysis? - Titus Brown's Slides - Homologus

http://www.homolog.us/blogs/blog/2014/01/18/rnaseq-good-slides-titus-brown/

Learn R - DataCamp Beta

https://www.datacamp.com/

Somatic mitochondrial DNA mutations are associated with progression, metastasis and death in oral squamous cell carcinoma | bioRxiv

http://biorxiv.org/content/early/2014/01/24/002055

Human Genomics | Abstract | A survey of software for genome-wide discovery of differential splicing in RNA-Seq data

http://www.humgenomics.com/content/8/1/3/abstract

Faster BAM Sorting with SAMtools and RocksDB

http://devblog.dnanexus.com/faster-bam-sorting-with-samtools-and-rocksdb/

Cell - A Polymorphism in IRF4 Affects Human Pigmentation through a Tyrosinase-Dependent MITF/TFAP2A Pathway

http://www.cell.com/abstract/S0092-8674(13)01298-1