Monthly Archives: October 2011

Open Source RNA-Seq Data Analysis Tools from Google Project Hosting

est2assembly  -  Assembly and annotation of transcriptomes for any species Activity: Medium  -  Updated: Earlier this year  -  Stars: 3 The est2assembly platform is the only platform for standardising transcriptome projects: go from raw trace files to an annotated GBrowse interface ...

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Guide to aligning RNA seq data

The purpose of this tutorial is to guide users from the raw FASTQ files produced by the sequencer to obtaining aligned short reads to human and non-human (pathogen) references in the sequence Alignment/Map (SAM) report format. In this tutorial we ...

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perEditor: Mapping personal functional data to personal genomes

The sequencing of personal genomes enabled analysis of variation in transcription factor (TF) binding, chromatin structure, and gene expression and indicated how they contribute to phenotypic variation. It is hypothesized that using the reference genome for mapping ChIP-seq or RNA-seq ...

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More Open Access RNA-Seq Analysis Software

GENE-counter is a complete Perl-based computational pipeline for analyzing RNA-Sequencing (RNA-Seq) data for differential gene expression. In addition to its use in studying transcriptomes of eukaryotic model organisms, GENE-counter is applicable for prokaryotes and non-model organisms without an available genome ...

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RNA-Seq at Neuroscience 2011

Neuroscience 2011 – Nov 12 – 16 – Washington, DC           Presentation Authors  Session Sat, Nov 12, 4:00 – 5:00 PM 70.08/JJ21 – RNA-seq of nucleus accumbens shell in five inbred strains of adolescent rats with ...

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RNA Assumes More Prominent Role

from Genetic Engineering News by Kathy Liszewski Advances Unravel Complexities, Shed Light on Therapeutic Targets, and Move Molecule to Fore RNA is beginning to take its place among the movers and shakers of biology. For decades, it was considered a ...

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How Many Reads are Enough?

There is no question that RNA-Seq has several major advantages over current hybridization-based approach such as microarrays. However, with the cost per sample of RNA-Seq still much higher than microarray, it would be beneficial if multiple samples could be multiplexed ...

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