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 4,212 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 5,969 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

STRIDE – a topic-model-based method to deconvolve spatial transcriptomics using scRNA-seq

Researchers find heart failure arises from mutations in numerous distinct genes

Transcriptome diversity in human tissues mapped with emerging long-read RNA sequencing technology

Significance analysis for clustering with single-cell RNA-sequencing data

BacDrop – droplet-based single-cell RNA-seq reveals heterogeneity in bacterial populations and in response to antibiotic perturbation

Gruffi – an algorithm for improved delineation of developmental trajectories in organoids and resemblance to in vivo data.

Combi-seq – multiplexed transcriptome-based profiling of drug combinations using deterministic barcoding in single-cell droplets