Tag Archives: RNA-Seq

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Disease Biomarker Query from RNA-Seq Data

Disease Biomarker Query from RNA-Seq Data

As a revolutionary way to unveil transcription, RNA-Seq technologies are challenging bioinformatics for its large data volumes and complexities. A large number of computational models have been proposed for differential expression (DE) analysis and normalization from different standing points. However, ...

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QuaCRS – An Integrated RNA-Seq Quality Control Pipeline

QuaCRS – An Integrated RNA-Seq Quality Control Pipeline

QuaCRS (Quality Control for RNA-Seq) is an integrated, simplified quality control (QC) system for RNA-seq data that allows easy execution of several open-source QC tools, aggregation of their output, and the ability to quickly identify quality issues by performing meta-analyses ...

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Most Read Blog Posts – October 2014

Most Read Blog Posts – October 2014

A Comparison of Next Generation Sequencing Technologies for Transcriptome Assembly 1,502 Views Analysis of the RNA content of the exosomes derived from blood serum and urine and its potential as biomarkers 1,471 Views Choosing a next-generation sequencing pipeline 1,284 Views ...

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piPipes – a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing

piPipes – a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing

PIWI-interacting RNAs (piRNAs), 23-36 nt small silencing RNAs, repress transposon expression in the metazoan germ line, thereby protecting the genome. Although high-throughput sequencing has made it possible to examine the genome and transcriptome at unprecedented resolution, extracting useful information from ...

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Enabling large-scale next-generation sequence assembly with Blacklight

Enabling large-scale next-generation sequence assembly with Blacklight

A variety of extremely challenging biological sequence analyses were conducted on the XSEDE large shared memory resource Blacklight, using current bioinformatics tools and encompassing a wide range of scientific applications. These include genomic sequence assembly, very large metagenomic sequence assembly, ...

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Post-doc Postions Available – Texas State University

Post-doc Postions Available – Texas State University

One or two postdoctoral positions are available immediately in Oncinfo Lab, Department of Computer Science at Texas State University. Position description The successful candidates will contribute to development and application of cutting edge computational methods to analyze RNA-seq and other ...

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Meet the Winner of Appistry’s Pipeline Challenge

Meet the Winner of Appistry’s Pipeline Challenge

Today Appistry announced the winner of its inaugural Pipeline Challenge. The winner is a project team led by Dr. Benjamin Darbro, director of the Shivanand R. Patil Cytogenetics and Molecular Laboratory at the University of Iowa Hospital and Clinics. Dr. Darbro won ...

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