@Article{yu2012,
	title = {clusterProfiler: an R package for comparing biological themes among gene clusters},
	volume = {16},
	issn = {1536-2310},
	number ={5},
	url = {http://online.liebertpub.com/doi/abs/10.1089/omi.2011.0118},
	doi = {10.1089/omi.2011.0118},
	journal = {OMICS: A Journal of Integrative Biology},
	author = {Guangchuang Yu and Le-Gen Wang and Yanyan Han and Qing-Yu He},
	year = {2012},
	month = may,
	note = {},
	keywords = {clusterProfiler, Gene Ontology, KEGG, Enrichment analysis, R package, Cluster comparison},
	pages = {284-287}
}

@article{yu2011,
	title = {Functional similarity analysis of human virus-encoded {miRNAs}},
	volume = {1},
	issn = {2043-9113},
	url = {http://www.jclinbioinformatics.com/content/1/1/15},
	doi = {10.1186/2043-9113-1-15},
	number = {1},
	journal = {Journal of Clinical Bioinformatics},
	author = {Yu, Guangchuang and He, {Qing-Yu}},
	month = may,
	year = {2011},
	pages = {15}
}

@article{yu_new_2011,
	title = {A new method for measuring functional similarity of {microRNAs}},
	volume = {1},
	issn = {2182-0287},
	url = {http://www.jiomics.com/index.php/jio/article/view/21},
	doi = {10.5584/jiomics.v1i1.21},
	number = {1},
	journal = {Journal of Integrated {OMICS}},
	author = {Yu, Guangchuang and Xiao, {Chuan-Le} and Bo, Xiaochen and Lu, {Chun-Hua} and Qin, Yide and Zhan, Sheng and He, {Qing-Yu}},
	month = feb,
	year = {2011},
	keywords = {Clustering, Gene, {microRNA;}, Ontology;, Semantic, Similarity;},
	pages = {49--54}
}

@Article{yu2010,
	title = {GOSemSim: an R package for measuring semantic similarity among GO terms and gene products},
	volume = {26},
	issn = {1367-4803},
	number= {7},
	url = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/26/7/976},
	doi = {10.1093/bioinformatics/btq064},
	journal = {Bioinformatics},
	author = {Guangchuang Yu and Fei Li and Yide Qin and Xiaochen Bo and Yibo Wu and Shengqi Wang},
	month = April,
	year = {2010},
	note = {PMID: 20179076},
	keywords = {Gene Ontology, Semantic Similarity, Bioconductor},
	pages = {976-978}
}

@Article{schmidt2008,
	title = {The Humoral Immune System Has a Key Prognostic Impact in Node-Negative Breast Cancer},
	volume = {68},
	url = {http://cancerres.aacrjournals.org/content/68/13/5405.abstract},
	doi = {10.1158/0008-5472.CAN-07-5206},
	number = {13},
	journal = {Cancer Research},
	author = {Schmidt, Marcus and B?hm, Daniel and von T?rne, Christian and Steiner, Eric and Puhl, Alexander and Pilch, Henryk and Lehr, {Hans-Anton} and Hengstler, Jan G. and K?lbl, Heinz and Gehrmann, Mathias},
	month = jul,
	year = {2008},
	pages = {5405 --5413}
}

@article{boyle2004,
	title = {{GO::TermFinder--open} source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes},
	volume = {20},
	issn = {1367-4803},
	shorttitle = {{GO}},
	url = {http://www.ncbi.nlm.nih.gov/pubmed/15297299},
	doi = {10.1093/bioinformatics/bth456},
	number = {18},
	journal = {Bioinformatics (Oxford, England)},
	author = {Boyle, Elizabeth I and Weng, Shuai and Gollub, Jeremy and Jin, Heng and Botstein, David and Cherry, J Michael and Sherlock, Gavin},
	month = dec,
	year = {2004},
	note = {PMID: 15297299},
	keywords = {Abstracting and Indexing as Topic, Database Management Systems, Databases, Protein, Gene Expression Profiling, Information Storage and Retrieval, Natural Language Processing, Oligonucleotide Array Sequence Analysis, Programming Languages, Software, {User-Computer} Interface, Vocabulary, Controlled},
	pages = {3710--3715}
}

@article{luo_pathview,
	title = {Pathview: an {R/Bioconductor} package for pathway-based data integration and visualization},
	volume = {29},
	issn = {1367-4803, 1460-2059},
	url = {http://bioinformatics.oxfordjournals.org/content/29/14/1830},
	doi = {10.1093/bioinformatics/btt285},
	shorttitle = {Pathview},
	language = {en},
	issue = {14},
	pages = {1830-1831},
	journaltitle = {Bioinformatics},
	shortjournal = {Bioinformatics},
	author = {Luo, Weijun and Brouwer, Cory},
	urldate = {2013-10-21},
	date = {2013-07-15},
	note = {{PMID:} 23740750},
}