title: Association of chromosome 19 to lung cancer genotypes and phenotypes.
abstract: The Chromosome 19 Consortium, a part of the Chromosome-Centric Human Proteome Project (C-HPP, http://www.C-HPP.org ), is tasked with the understanding chromosome 19 functions at the gene and protein levels, as well as their roles in lung oncogenesis. Comparative genomic hybridization (CGH) studies revealed chromosome aberration in lung cancer subtypes, including ADC, SCC, LCC, and SCLC. The most common abnormality is 19p loss and 19q gain. Sixty-four aberrant genes identified in previous genomic studies and their encoded protein functions were further validated in the neXtProt database ( http://www.nextprot.org/ ). Among those, the loss of tumor suppressor genes STK11, MUM1, KISS1R (19p13.3), and BRG1 (19p13.13) is associated with lung oncogenesis or remote metastasis. Gene aberrations include translocation t(15, 19) (q13, p13.1) fusion oncogene BRD4-NUT, DNA repair genes (ERCC1, ERCC2, XRCC1), TGFβ1 pathway activation genes (TGFB1, LTBP4), Dyrk1B, and potential oncogenesis protector genes such as NFkB pathway inhibition genes (NFKBIB, PPP1R13L) and EGLN2. In conclusion, neXtProt is an effective resource for the validation of gene aberrations identified in genomic studies. It promises to enhance our understanding of lung cancer oncogenesis.
authors.affiliation: Zhongshan Hospital, Shanghai Institute of Clinical Bioinformatics, Fudan University, Shanghai, China, Xiangdong.wang@clintransmed.com.
authors.forename: Xiangdong
authors.initials: X
authors.lastname: Wang
authors.forename: Yong
authors.initials: Y
authors.lastname: Zhang
authors.forename: Carol L
authors.initials: CL
authors.lastname: Nilsson
authors.forename: Frode S
authors.initials: FS
authors.lastname: Berven
authors.forename: Per E
authors.initials: PE
authors.lastname: Andrén
authors.forename: Elisabet
authors.initials: E
authors.lastname: Carlsohn
authors.forename: Peter
authors.initials: P
authors.lastname: Horvatovich
authors.forename: Johan
authors.initials: J
authors.lastname: Malm
authors.forename: Manuel
authors.initials: M
authors.lastname: Fuentes
authors.forename: Ákos
authors.initials: Á
authors.lastname: Végvári
authors.forename: Charlotte
authors.initials: C
authors.lastname: Welinder
authors.forename: Thomas E
authors.initials: TE
authors.lastname: Fehniger
authors.forename: Melinda
authors.initials: M
authors.lastname: Rezeli
authors.forename: Goutham
authors.initials: G
authors.lastname: Edula
authors.forename: Sophia
authors.initials: S
authors.lastname: Hober
authors.forename: Toshihide
authors.initials: T
authors.lastname: Nishimura
authors.forename: György
authors.initials: G
authors.lastname: Marko-Varga
mesh_terms: D000818:Animals; D063646:Carcinogenesis / Q000235:genetics; D002869:Chromosome Aberrations; D002888:Chromosomes, Human, Pair 19 / Q000235:genetics*; D020022:Genetic Predisposition to Disease / Q000235:genetics*; D005838:Genotype; D006801:Humans; D008175:Lung Neoplasms / Q000235:genetics*; D010641:Phenotype