MeSH ORA framework: R/Bioconductor packages to support MeSH over-representation analysis
Published 2015 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
MeSH ORA framework: R/Bioconductor packages to support MeSH over-representation analysis
Authors
Keywords
MeSH, Over-representation analysis, Enrichment analysis, Annotation
Journal
BMC BIOINFORMATICS
Volume 16, Issue 1, Pages -
Publisher
Springer Nature
Online
2015-02-17
DOI
10.1186/s12859-015-0453-z
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- InterProScan 5: genome-scale protein function classification
- (2014) P. Jones et al. BIOINFORMATICS
- Statistical hypothesis testing of factor loading in principal component analysis and its application to metabolite set enrichment analysis
- (2014) Hiroyuki Yamamoto et al. BMC BIOINFORMATICS
- Annotation Enrichment Analysis: An Alternative Method for Evaluating the Functional Properties of Gene Sets
- (2014) Kimberly Glass et al. Scientific Reports
- FIDEA: a server for the functional interpretation of differential expression analysis
- (2013) Daniel D’Andrea et al. NUCLEIC ACIDS RESEARCH
- Caloric restriction-associated remodeling of rat white adipose tissue: effects on the growth hormone/insulin-like growth factor-1 axis, sterol regulatory element binding protein-1, and macrophage infiltration
- (2012) Yoshikazu Chujo et al. AGE
- Metab2MeSH: annotating compounds with medical subject headings
- (2012) Maureen A. Sartor et al. BIOINFORMATICS
- GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data
- (2012) Jianxing Feng et al. BIOINFORMATICS
- EnrichNet: network-based gene set enrichment analysis
- (2012) Enrico Glaab et al. BIOINFORMATICS
- The UCSC Genome Browser database: extensions and updates 2013
- (2012) Laurence R. Meyer et al. NUCLEIC ACIDS RESEARCH
- Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges
- (2012) Purvesh Khatri et al. PLoS Computational Biology
- A powerful and flexible approach to the analysis of RNA sequence count data
- (2011) Yi-Hui Zhou et al. BIOINFORMATICS
- Molecular signatures database (MSigDB) 3.0
- (2011) A. Liberzon et al. BIOINFORMATICS
- RAPSearch: a fast protein similarity search tool for short reads
- (2011) Yuzhen Ye et al. BMC BIOINFORMATICS
- Differential expression in RNA-seq: A matter of depth
- (2011) S. Tarazona et al. GENOME RESEARCH
- Disease Ontology: a backbone for disease semantic integration
- (2011) L. M. Schriml et al. NUCLEIC ACIDS RESEARCH
- Genome-Scale Identification of Resistance Functions in Pseudomonas aeruginosa Using Tn-seq
- (2011) L. A. Gallagher et al. mBio
- GeneMesh: a web-based microarray analysis tool for relating differentially expressed genes to MeSH terms
- (2010) Saurin D Jani et al. BMC BIOINFORMATICS
- baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data
- (2010) Thomas J Hardcastle et al. BMC BIOINFORMATICS
- Independent filtering increases detection power for high-throughput experiments
- (2010) R. Bourgon et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Gene set enrichment analysis made simple
- (2010) Rafael A Irizarry et al. STATISTICAL METHODS IN MEDICAL RESEARCH
- A Genome-Wide Association Study Identifies Susceptibility Variants for Type 2 Diabetes in Han Chinese
- (2010) Fuu-Jen Tsai et al. PLoS Genetics
- Gene ontology analysis for RNA-seq: accounting for selection bias
- (2010) Matthew D Young et al. GENOME BIOLOGY
- Differential expression analysis for sequence count data
- (2010) Simon Anders et al. GENOME BIOLOGY
- Testing significance relative to a fold-change threshold is a TREAT
- (2009) D. J. McCarthy et al. BIOINFORMATICS
- DEGseq: an R package for identifying differentially expressed genes from RNA-seq data
- (2009) Likun Wang et al. BIOINFORMATICS
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt
- (2009) Steffen Durinck et al. Nature Protocols
- Gendoo: Functional profiling of gene and disease features using MeSH vocabulary
- (2009) Takeru Nakazato et al. NUCLEIC ACIDS RESEARCH
- The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases
- (2009) Ron Caspi et al. NUCLEIC ACIDS RESEARCH
- RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays
- (2008) J. C. Marioni et al. GENOME RESEARCH
- Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
- (2008) Da Wei Huang et al. NUCLEIC ACIDS RESEARCH
- Reactome knowledgebase of human biological pathways and processes
- (2008) L. Matthews et al. NUCLEIC ACIDS RESEARCH
- The impact of next-generation sequencing technology on genetics
- (2008) Elaine R. Mardis TRENDS IN GENETICS
Publish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn MoreAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started