Multi-omics enrichment analysis using the GeneTrail2 web service

Mutations in the SIX1/2 Pathway and the DROSHA/DGCR8 miRNA Microprocessor Complex Underlie High-Risk Blastemal Type Wilms Tumors

(2015) Jenny Wegert et al.   CANCER CELL

The ubiquitin ligase human TRIM71 regulates let-7 microRNA biogenesis via modulation of Lin28B protein

(2014) Seo Hyun Lee et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

RAMONA: a Web application for gene set analysis on multilevel omics data

(2014) S. Sass et al.   BIOINFORMATICS

Lin28 sustains early renal progenitors and induces Wilms tumor

(2014) A. Urbach et al.   GENES & DEVELOPMENT

Normalization of RNA-seq data using factor analysis of control genes or samples

(2014) Davide Risso et al.   NATURE BIOTECHNOLOGY

BiNA: A Visual Analytics Tool for Biological Network Data

(2014) Andreas Gerasch et al.   PLoS One

OMICtools: an informative directory for multi-omic data analysis

(2014) V. J. Henry et al.   Database-The Journal of Biological Databases and Curation

NetworkTrail--a web service for identifying and visualizing deregulated subnetworks

(2013) D. Stockel et al.   BIOINFORMATICS

The miR-17/92 cluster: a comprehensive update on its genomics, genetics, functions and increasingly important and numerous roles in health and disease

(2013) E Mogilyansky et al.   CELL DEATH AND DIFFERENTIATION

The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud

(2013) Katherine Wolstencroft et al.   NUCLEIC ACIDS RESEARCH

Rigorous assessment of gene set enrichment tests

(2012) Haroon Naeem et al.   BIOINFORMATICS

EnrichNet: network-based gene set enrichment analysis

(2012) Enrico Glaab et al.   BIOINFORMATICS

miRTrail - a comprehensive webserver for analyzing gene and miRNA patterns to enhance the understanding of regulatory mechanisms in diseases

(2012) Cedric Laczny et al.   BMC BIOINFORMATICS

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

Wnt Signaling in Cancer

(2012) P. Polakis   Cold Spring Harbor Perspectives in Biology

Trim71 cooperates with microRNAs to repress Cdkn1a expression and promote embryonic stem cell proliferation

(2012) Hao-Ming Chang et al.   Nature Communications

Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges

(2012) Purvesh Khatri et al.   PLoS Computational Biology

From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems

(2011) L. Geistlinger et al.   BIOINFORMATICS

Gene set enrichment analysis: performance evaluation and usage guidelines

(2011) J.-H. Hung et al.   BRIEFINGS IN BIOINFORMATICS

Lin28A and Lin28B Inhibit let-7 MicroRNA Biogenesis by Distinct Mechanisms

(2011) Elena Piskounova et al.   CELL

A Systematic Screen for Micro-RNAs Regulating the Canonical Wnt Pathway

(2011) Roman Anton et al.   PLoS One

GO-Bayes: Gene Ontology-based overrepresentation analysis using a Bayesian approach

(2010) Song Zhang et al.   BIOINFORMATICS

Genevar: a database and Java application for the analysis and visualization of SNP-gene associations in eQTL studies

(2010) T.-P. Yang et al.   BIOINFORMATICS

Tackling the widespread and critical impact of batch effects in high-throughput data

(2010) Jeffrey T. Leek et al.   NATURE REVIEWS GENETICS

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

(2010) Jeremy Goecks et al.   GENOME BIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

A general modular framework for gene set enrichment analysis

(2009) Marit Ackermann et al.   BMC BIOINFORMATICS

Subsets of Very Low Risk Wilms Tumor Show Distinctive Gene Expression, Histologic, and Clinical Features

(2009) S. T. Sredni et al.   CLINICAL CANCER RESEARCH

Canonical WNT signalling determines lineage specificity in Wilms tumour

(2009) R Fukuzawa et al.   ONCOGENE

GSEA-SNP: applying gene set enrichment analysis to SNP data from genome-wide association studies

(2008) Marit Holden et al.   BIOINFORMATICS

Connecting microRNA Genes to the Core Transcriptional Regulatory Circuitry of Embryonic Stem Cells

(2008) Alexander Marson et al.   CELL

Tcf3 is an integral component of the core regulatory circuitry of embryonic stem cells

(2008) M. F. Cole et al.   GENES & DEVELOPMENT

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH