SPIRE – a modular pipeline for eQTL analysis of RNA-Seq data

October 11, 2016 Leave a comment 4,041 Views

The interpretation of genome-wide association study is difficult, as it is hard to understand how polymorphisms can affect gene regulation, in particular for trans-regulatory elements located far from their controlling gene. Using RNA or protein expression data as phenotypes, it ...

Vision from next generation sequencing – Multi-dimensional genome-wide analysis for producing gene regulatory networks

February 12, 2015 Leave a comment 13,162 Views

Genomics and genetics have invaded all aspects of biology and medicine, opening uncharted territory for scientific exploration. The definition of “gene” itself has become ambiguous, and the central dogma is continuously being revised and expanded. Computational biology and computational medicine ...

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Tag Archives: eQTL

SPIRE – a modular pipeline for eQTL analysis of RNA-Seq data

Vision from next generation sequencing – Multi-dimensional genome-wide analysis for producing gene regulatory networks

RNA-Seq data suggests that exitron splicing represents an additional cancer-driving mechanism beyond genetic alterations

SPEAQeasy – a scalable pipeline for expression analysis and quantification for R/bioconductor-powered RNA-seq analyses

ac4C-seq – quantitative nucleotide resolution profiling of RNA cytidine acetylation

Trips-Viz: an environment for the analysis of public and user-generated ribosome profiling data

IsoSeek – unbiased and UMI-informed sequencing of cell-free miRNAs at single-nucleotide resolution

Cell-level metadata are indispensable for documenting single-cell RNA sequencing datasets

Strategies for detecting and identifying biological signals amidst the variation commonly found in RNA sequencing data