Splicify – a proteogenomic pipeline to detect differentially expressed protein isoforms based on integrating RNA-Seq and Mass Spec data

August 1, 2017 Leave a comment 2,683 Views

Proteogenomics, i.e. comprehensive integration of genomics and proteomics data, is a powerful approach identifying novel protein biomarkers. This is especially the case for proteins that differ structurally between disease and control conditions. As tumor development is associated with aberrant splicing, ...

Integration of mass spectrometry and RNA-Seq data to confirm human ab initio predicted genes and lncRNAs

October 28, 2014 Leave a comment 4,379 Views

Tandem mass spectrometry (MS/MS) has been used to improve genome annotation in various organisms. The classical approach is to construct comprehensive theoretical peptide database with six frame translation model from the whole open reading frame (ORF) of a genome, and ...

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Tag Archives: Tandem mass spectrometry

Splicify – a proteogenomic pipeline to detect differentially expressed protein isoforms based on integrating RNA-Seq and Mass Spec data

Integration of mass spectrometry and RNA-Seq data to confirm human ab initio predicted genes and lncRNAs

RNA sequencing reveals microRNA-like RNAs in fungi

Comparison of RNA-Seq data alignment and qene expression quantification tools for clinical breast cancer research

GSEPD – a Bioconductor package for RNA-seq gene set enrichment and projection display

1CellBio Announces Custom Targeted Bead Program to Accelerate Next Phase in Single-Cell Analysis

LIONESS – estimating sample-specific regulatory networks

RNA-Seq enables discovery of ‘kingpin’ stem cells, greater understanding of cancerous tumours

TSEE – an elastic embedding method to visualize the dynamic gene expression patterns of time series single-cell RNA sequencing data

Seeking Postdoc – Knowledge of de novo genome assembly, transcriptomics analysis (RNA-seq and others), coding in Python, Perl, and/or R