title: BioXpress: an integrated RNA-seq-derived gene expression database for pan-cancer analysis.
abstract: BioXpress is a gene expression and cancer association database in which the expression levels are mapped to genes using RNA-seq data obtained from The Cancer Genome Atlas, International Cancer Genome Consortium, Expression Atlas and publications. The BioXpress database includes expression data from 64 cancer types, 6361 patients and 17 469 genes with 9513 of the genes displaying differential expression between tumor and normal samples. In addition to data directly retrieved from RNA-seq data repositories, manual biocuration of publications supplements the available cancer association annotations in the database. All cancer types are mapped to Disease Ontology terms to facilitate a uniform pan-cancer analysis. The BioXpress database is easily searched using HUGO Gene Nomenclature Committee gene symbol, UniProtKB/RefSeq accession or, alternatively, can be queried by cancer type with specified significance filters. This interface along with availability of pre-computed downloadable files containing differentially expressed genes in multiple cancers enables straightforward retrieval and display of a broad set of cancer-related genes.
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Quan
authors.initials: Q
authors.lastname: Wan
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Hayley
authors.initials: H
authors.lastname: Dingerdissen
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Yu
authors.initials: Y
authors.lastname: Fan
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Naila
authors.initials: N
authors.lastname: Gulzar
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Yang
authors.initials: Y
authors.lastname: Pan
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Tsung-Jung
authors.initials: TJ
authors.lastname: Wu
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Cheng
authors.initials: C
authors.lastname: Yan
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA.
authors.forename: Haichen
authors.initials: H
authors.lastname: Zhang
authors.affiliation: Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA Department of Biochemistry and Molecular Medicine and McCormick Genomic and Proteomic Center, The George Washington University, Washington, DC 20037, USA mazumder@gwu.edu.
authors.forename: Raja
authors.initials: R
authors.lastname: Mazumder
mesh_terms: D030541:Databases, Genetic; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D009369:Neoplasms / Q000235:genetics / Q000378:metabolism; D012334:RNA, Neoplasm / Q000096:biosynthesis / Q000235:genetics
chemical_list: D012334:RNA, Neoplasm
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