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g:Profiler—a web server for functional interpretation of gene lists (2016 update)
TLDR
Functional enrichment analysis is a key step in interpreting gene lists, including transcription factor binding site predictions, Mendelian disease annotations, information about protein expression and complexes and gene mappings of human genetic polymorphisms. Expand
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g:Profiler—a web-based toolset for functional profiling of gene lists from large-scale experiments
g:Profiler (http://biit.cs.ut.ee/gprofiler/) is a public web server for characterising and manipulating gene lists resulting from mining high-throughput genomic data. g:Profiler has a simple,Expand
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g:Profiler—a web server for functional interpretation of gene lists (2011 update)
TLDR
Functional interpretation of candidate gene lists is an essential task in modern biomedical research. Expand
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Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap
TLDR
This protocol describes pathway enrichment analysis of gene lists from RNA-seq and other genomics experiments using g:Profiler, GSEA, Cytoscape and EnrichmentMap software. Expand
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Subgroup-specific structural variation across 1,000 medulloblastoma genomes
Medulloblastoma, the most common malignant paediatric brain tumour, is currently treated with nonspecific cytotoxic therapies including surgery, whole-brain radiation, and aggressive chemotherapy. AsExpand
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Comprehensive reanalysis of transcription factor knockout expression data in Saccharomyces cerevisiae reveals many new targets
Transcription factor (TF) perturbation experiments give valuable insights into gene regulation. Genome-scale evidence from microarray measurements may be used to identify regulatory interactionsExpand
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Divergent clonal selection dominates medulloblastoma at recurrence
The development of targeted anti-cancer therapies through the study of cancer genomes is intended to increase survival rates and decrease treatment-related toxicity. We treated a transposon–driven,Expand
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Mining for coexpression across hundreds of datasets using novel rank aggregation and visualization methods
We present a web resource MEM (Multi-Experiment Matrix) for gene expression similarity searches across many datasets. MEM features large collections of microarray datasets and utilizes rankExpand
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GraphWeb: mining heterogeneous biological networks for gene modules with functional significance
TLDR
We present GraphWeb, a public web server for biological network analysis and module discovery. Expand
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ActiveDriverDB: human disease mutations and genome variation in post-translational modification sites of proteins
TLDR
ActiveDriverDB is a comprehensive human proteo-genomics database that annotates disease mutations and population variants through the lens of PTMs. Expand
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