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Cellosaurus GM19239 (CVCL_9634)

[Text version]
Cell line name GM19239
Accession CVCL_9634
Resource Identification Initiative To cite this cell line use: GM19239 (RRID:CVCL_9634)
Comments Part of: ENCODE project common cell types; tier 3.
Part of: International Genome Sample Resource (1000 genomes project) cell lines.
Population: African; Yoruba in Ibadan, Nigeria (YRI).
Transformant: NCBI_TaxID; 10376; Epstein-Barr virus (EBV).
Omics: CNV analysis.
Omics: Deep proteome analysis.
Omics: DNA methylation analysis.
Omics: Genome sequenced.
Omics: H3K27ac ChIP-seq epigenome analysis.
Omics: H3K27me3 ChIP-seq epigenome analysis.
Omics: H3K4me1 ChIP-seq epigenome analysis.
Omics: H3K4me3 ChIP-seq epigenome analysis.
Omics: SNP array analysis.
Omics: Transcriptome analysis by microarray.
Omics: Transcriptome analysis by RNAseq.
Derived from site: In situ; Peripheral blood; UBERON=UBERON_0000178.
HLA typing Source: PubMed=27792722
Class I
Class II
Species of origin Homo sapiens (Human) (NCBI Taxonomy: 9606)
Sex of cell Male
Age at sampling Age unspecified
Category Transformed cell line
Web pages http://genome.ucsc.edu/ENCODE/protocols/cell/human/GM19239_Crawford_protocol.pdf

PubMed=17122850; DOI=10.1038/nature05329
Redon R., Ishikawa S., Fitch K.R., Feuk L., Perry G.H., Andrews T.D., Fiegler H., Shapero M.H., Carson A.R., Chen W.-W., Cho E.K., Dallaire S., Freeman J.L., Gonzalez J.R., Gratacos M., Huang J., Kalaitzopoulos D., Komura D., MacDonald J.R., Marshall C.R., Mei R., Montgomery L., Nishimura K., Okamura K., Shen F., Somerville M.J., Tchinda J., Valsesia A., Woodwark C., Yang F.-T., Zhang J.-J., Zerjal T., Zhang J., Armengol L., Conrad D.F., Estivill X., Tyler-Smith C., Carter N.P., Aburatani H., Lee C., Jones K.W., Scherer S.W., Hurles M.E.
Global variation in copy number in the human genome.
Nature 444:444-454(2006)

PubMed=19043577; DOI=10.1371/journal.pgen.1000287
Choy E., Yelensky R., Bonakdar S., Plenge R.M., Saxena R., De Jager P.L., Shaw S.Y., Wolfish C.S., Slavik J.M., Cotsapas C., Rivas M.A., Dermitzakis E.T., Cahir-McFarland E., Kieff E.D., Hafler D.A., Daly M.J., Altshuler D.M.
Genetic analysis of human traits in vitro: drug response and gene expression in lymphoblastoid cell lines.
PLoS Genet. 4:E1000287-E1000287(2008)

PubMed=19797678; DOI=10.1101/gr.097600.109
Nayak R.R., Kearns M., Spielman R.S., Cheung V.G.
Coexpression network based on natural variation in human gene expression reveals gene interactions and functions.
Genome Res. 19:1953-1962(2009)

PubMed=20220758; DOI=10.1038/nature08872
Pickrell J.K., Marioni J.C., Pai A.A., Degner J.F., Engelhardt B.E., Nkadori E., Veyrieras J.-B., Stephens M., Gilad Y., Pritchard J.K.
Understanding mechanisms underlying human gene expression variation with RNA sequencing.
Nature 464:768-772(2010)

PubMed=21397061; DOI=10.1016/j.ajhg.2011.02.004
Campbell C.D., Sampas N., Tsalenko A., Sudmant P.H., Kidd J.M., Malig M., Vu T.H., Vives L., Tsang P., Bruhn L., Eichler E.E.
Population-genetic properties of differentiated human copy-number polymorphisms.
Am. J. Hum. Genet. 88:317-332(2011)

PubMed=21418647; DOI=10.1186/gb-2011-12-3-r25
Morcos L., Ge B., Koka V., Lam K.C.L., Pokholok D.K., Gunderson K.L., Montpetit A., Verlaan D.J., Pastinen T.
Genome-wide assessment of imprinted expression in human cells.
Genome Biol. 12:R25.1-R25.14(2011)

PubMed=22797897; DOI=10.1073/pnas.1205199109
Iskow R.C., Gokcumen O., Abyzov A., Malukiewicz J., Zhu Q.-H., Sukumar A.T., Pai A.A., Mills R.E., Habegger L., Cusanovich D.A., Rubel M.A., Perry G.H., Gerstein M.B., Stone A.C., Gilad Y., Lee C.
Regulatory element copy number differences shape primate expression profiles.
Proc. Natl. Acad. Sci. U.S.A. 109:12656-12661(2012)

PubMed=23325432; DOI=10.1101/gr.147942.112
Varley K.E., Gertz J., Bowling K.M., Parker S.L., Reddy T.E., Pauli-Behn F., Cross M.K., Williams B.A., Stamatoyannopoulos J.A., Crawford G.E., Absher D.M., Wold B.J., Myers R.M.
Dynamic DNA methylation across diverse human cell lines and tissues.
Genome Res. 23:555-567(2013)

PubMed=23676674; DOI=10.1038/nature12223
Wu L.-F., Candille S.I., Choi Y., Xie D., Jiang L.-H., Li-Pook-Than J., Tang H., Snyder M.P.
Variation and genetic control of protein abundance in humans.
Nature 499:79-82(2013)

PubMed=24136359; DOI=10.1126/science.1242429
McVicker G., van de Geijn B., Degner J.F., Cain C.E., Banovich N.E., Raj A., Lewellen N., Myrthil M., Gilad Y., Pritchard J.K.
Identification of genetic variants that affect histone modifications in human cells.
Science 342:747-749(2013)

PubMed=25468404; DOI=10.1186/s13059-014-0547-3
Zhou X., Cain C.E., Myrthil M., Lewellen N., Michelini K., Davenport E.R., Stephens M., Pritchard J.K., Gilad Y.
Epigenetic modifications are associated with inter-species gene expression variation in primates.
Genome Biol. 15:547.1-547.19(2014)

PubMed=26621101; DOI=10.1016/j.jmoldx.2015.08.005
Pratt V.M., Everts R.E., Aggarwal P., Beyer B.N., Broeckel U., Epstein-Baak R., Hujsak P., Kornreich R., Liao J., Lorier R., Scott S.A., Smith C.-Y.H., Toji L.H., Turner A., Kalman L.V.
Characterization of 137 genomic DNA reference materials for 28 pharmacogenetic genes: a GeT-RM collaborative project.
J. Mol. Diagn. 18:109-123(2016)

PubMed=27792722; DOI=10.1371/journal.pcbi.1005151
Dilthey A.T., Gourraud P.-A., Mentzer A.J., Cereb N., Iqbal Z., McVean G.A.T.
High-accuracy HLA type inference from whole-genome sequencing data using population reference graphs.
PLoS Comput. Biol. 12:e1005151.1-e1005151.16(2016)

PubMed=29474986; DOI=10.1016/j.jmoldx.2018.01.011
Pratt V.M., Del Tredici A.L., Hachad H., Ji Y., Kalman L.V., Scott S.A., Weck K.E.
Recommendations for clinical CYP2C19 genotyping allele selection: a report of the Association for Molecular Pathology.
J. Mol. Diagn. 20:269-276(2018)

Cell line collections (Providers) Coriell; GM19239
Cell line databases/resources CLO; CLO_0027144
Biological sample resources 4DN; 4DNSRKH549U5
IGSR; NA19239
Encyclopedic resources Wikidata; Q54850324
Experimental variables resources EFO; EFO_0002789
Gene expression databases GEO; GSM112757
GEO; GSM188771
GEO; GSM273514
GEO; GSM291939
GEO; GSM315201
GEO; GSM485378
GEO; GSM485414
GEO; GSM489288
GEO; GSM489289
GEO; GSM489301
GEO; GSM489302
GEO; GSM649315
GEO; GSM651188
GEO; GSM651189
GEO; GSM816659
GEO; GSM1164212
GEO; GSM1164222
GEO; GSM1164232
GEO; GSM1164242
GEO; GSM1164252
GEO; GSM1720166
Entry history
Entry creation06-Jun-2012
Last entry update30-Jan-2024
Version number26