Genentech Colon Cancer Screen - EGA European Genome-Phenome Archive

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001000214	Whole genome sequencing of colon samples	Illumina HiSeq 2000	11
EGAD00001000215	RNA sequencing of colon tumor/normal sample pairs	Illumina HiSeq 2000	139
EGAD00001000216	Exome capture sequencing of colon tumor/normal pairs	Illumina HiSeq 2000	144
EGAD00010000272	Colon tumour samples	Illumina_2.5M	75
EGAD00010000274	Colon matched tumour samples	Illumina_2.5M	74

Publications	Citations
Recurrent R-spondin fusions in colon cancer. Seshagiri S, Stawiski EW, Durinck S, Modrusan Z, Storm EE, Conboy CB, Chaudhuri S, Guan Y, Janakiraman V, Jaiswal BS, Guillory J, Ha C, Dijkgraaf GJ, Stinson J, Gnad F, Huntley MA, Degenhardt JD, Haverty PM, Bourgon R, Wang W, Koeppen H, Gentleman R, Starr TK, Zhang Z, Largaespada DA, Wu TD, de Sauvage FJ. Nature 488: 2012 660-664	597
Human Colon Tumors Express a Dominant-Negative Form of SIGIRR That Promotes Inflammation and Colitis-Associated Colon Cancer in Mice. Zhao J, Bulek K, Gulen MF, Zepp JA, Karagkounis G, Martin BN, Zhou H, Yu M, Liu X, Huang E, Fox PL, Kalady MF, Markowitz SD, Li X. Gastroenterology 149: 2015 1860-1871.e8	24
Novel functional variants at the GWAS-implicated loci might confer risk to major depressive disorder, bipolar affective disorder and schizophrenia. Bryzgalov LO, Korbolina EE, Brusentsov II, Leberfarb EY, Bondar NP, Merkulova TI. BMC Neurosci 19: 2018 22	8
A Genome-Wide Study of Allele-Specific Expression in Colorectal Cancer. Liu Z, Dong X, Li Y. Front Genet 9: 2018 570	16
KH-Type Splicing Regulatory Protein Controls Colorectal Cancer Cell Growth and Modulates the Tumor Microenvironment. Caiazza F, Oficjalska K, Tosetto M, Phelan JJ, Noonan S, Martin P, Killick K, Breen L, O'Neill F, Nolan B, Furney S, Power R, Fennelly D, Craik CS, O'Sullivan J, Sheahan K, Doherty GA, Ryan EJ. Am J Pathol 189: 2019 1916-1932	6
Transposable element expression in tumors is associated with immune infiltration and increased antigenicity. Kong Y, Rose CM, Cass AA, Williams AG, Darwish M, Lianoglou S, Haverty PM, Tong AJ, Blanchette C, Albert ML, Mellman I, Bourgon R, Greally J, Jhunjhunwala S, Chen-Harris H. Nat Commun 10: 2019 5228	105
MSIsensor-ct: microsatellite instability detection using cfDNA sequencing data. Han X, Zhang S, Zhou DC, Wang D, He X, Yuan D, Li R, He J, Duan X, Wendl MC, Ding L, Niu B. Brief Bioinform 22: 2021 bbaa402	14
The gut microbial metabolite formate exacerbates colorectal cancer progression. Ternes D, Tsenkova M, Pozdeev VI, Meyers M, Koncina E, Atatri S, Schmitz M, Karta J, Schmoetten M, Heinken A, Rodriguez F, Delbrouck C, Gaigneaux A, Ginolhac A, Nguyen TTD, Grandmougin L, Frachet-Bour A, Martin-Gallausiaux C, Pacheco M, Neuberger-Castillo L, Miranda P, Zuegel N, Ferrand JY, Gantenbein M, Sauter T, Slade DJ, Thiele I, Meiser J, Haan S, Wilmes P, Letellier E. Nat Metab 4: 2022 458-475	67