Crosshub enables multi-way analysis of RNA-Seq, miRNA-Seq and methylome data of The Cancer Genome Atlas (TCGA) project:
1. differential expression analysis (genes, alternative transcripts and miRNA)
2. regulatory miRNA prediction (TargetScan, DIANA microT, mirSVR, PicTar, miRTarBase + co-expression)
3. regulatory TF prediction (ENCODE ChIP-Seq + co-expression)
4. methylation profiling analysis
5. RNA-Seq vs. clinical (TNM, stage, follow-up) correlation analysis

Generates Excel summaries.

For details, see the manual or article G.S. Krasnov et al. NAR 2016, Pubmed ID: 26773058

Project Samples

miRNA-Seq analysis results Methylation profiling and ENCODE chromatin state of CpG site regions Methylation profiling and correlations with expression Gene - transcription factor expression correlations. ENCODE ChIP-Seq gene-TF binding events are described miRNA-vs-genes expression profiling. TargetScan, DIANA microT, mirSVR, miRTarBase, PicTar predictions are provided Hypermethylation score - expression LogFC scatterplot

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Bio-Informatics

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2015-01-12
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