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Cellosaurus IGR-39 (CVCL_2076)

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Cell line name IGR-39
Synonyms IGR 39; IGR39; PM1; Institut Gustave Roussy-39
Accession CVCL_2076
Resource Identification Initiative To cite this cell line use: IGR-39 (RRID:CVCL_2076)
Comments Part of: Cancer Dependency Map project (DepMap) (includes Cancer Cell Line Encyclopedia - CCLE).
Population: Caucasian.
Doubling time: 34 hours (PubMed=25984343); ~30 hours (DSMZ).
Omics: Deep exome analysis.
Omics: Deep quantitative proteome analysis.
Omics: DNA methylation analysis.
Omics: shRNA library screening.
Omics: SNP array analysis.
Omics: Transcriptome analysis.
Derived from sampling site: Skin.
Sequence variations
  • Gene deletion; HGNC; 9588; PTEN; Zygosity=Homozygous (PubMed=23851445).
  • Mutation; HGNC; 1097; BRAF; Simple; p.Val600Glu (c.1799T>A); ClinVar=VCV000013961; Zygosity=Heterozygous (PubMed=23851445; DepMap).
  • Mutation; HGNC; 11730; TERT; Simple; c.1-124C>T (c.228C>T) (C228T); Zygosity=Unspecified; Note=In promoter (PubMed=31068700).
  • Mutation; HGNC; 11998; TP53; Simple; p.Cys229Tyrfs*10 (c.686_687delGT); ClinVar=VCV000863486; Zygosity=Unspecified (DepMap).
HLA typing Source: PubMed=15592718
Class I
HLA-BB*39:01:01,39:01:01
HLA-CC*07:02,07:02
Class II
HLA-DPDPB1*31:01,09:01
HLA-DQDQB1*06:02
HLA-DRDRB1*16:02
Genome ancestry Source: PubMed=30894373

Origin% genome
African1.8
Native American1.18
East Asian, North2.76
East Asian, South0
South Asian0
European, North58.99
European, South35.28
Disease Melanoma (NCIt: C3224)
Species of origin Homo sapiens (Human) (NCBI Taxonomy: 9606)
Hierarchy Children:
CVCL_B491 (IGR-39D )CVCL_RR33 (IGR-39rPLX4032_20muM )CVCL_RR34 (IGR-39rPLX4720_20muM )
CVCL_RR35 (IGR-39rVCR10 )
Originate from same individual CVCL_2075 ! IGR-37
Sex of cell Male
Age at sampling 26Y
Category Cancer cell line
STR profile Source(s): DSMZ

Markers:
AmelogeninX,Y
CSF1PO11,12
D2S133819,24
D3S135817,18
D5S81811,12
D7S82010,11
D8S117914,15
D13S31712
D16S53911
D18S5115
D19S43313
D21S1131.2,32.2
FGA22
Penta D9
Penta E12,16
TH019
TPOX8,11
vWA17,21

Run an STR similarity search on this cell line
Publications

PubMed=405430; DOI=10.1111/1523-1747.ep12496554
Foa C., Aubert C.
Cellular localization of tyrosinase in human malignant melanoma cell lines.
J. Invest. Dermatol. 68:369-378(1977)

PubMed=6929009; DOI=10.1093/jnci/64.5.1029
Aubert C., Rouge F., Galindo J.R.
Tumorigenicity of human malignant melanocytes in nude mice in relation to their differentiation in vitro.
J. Natl. Cancer Inst. 64:1029-1040(1980)

PubMed=6539703; DOI=10.1016/0277-5379(84)90015-4
Weinreb A., Travo P.
Discrimination between human melanoma cell lines by fluorescence anisotropy.
Eur. J. Cancer Clin. Oncol. 20:673-677(1984)

PubMed=2337917
Aquaron R., Dutoit C., Reynier M., Aubert C.
Calmodulin content and distribution in six human melanoma cell lines.
Cell. Mol. Biol. 36:85-92(1990)

PubMed=2344628; DOI=10.1016/S0309-1651(05)80010-4
Aubery M., Reynier M., Lopez M., Ogier-Denis E., Font J., Bardin F.
WGA binding to the surface of two autologous human melanoma cell lines: different expression of sialyl and N-acetylglucosaminyl residues.
Cell Biol. Int. Rep. 14:275-286(1990)

PubMed=11668190; DOI=10.1177/002215540104901105
Quentmeier H., Osborn M., Reinhardt J., Zaborski M., Drexler H.G.
Immunocytochemical analysis of cell lines derived from solid tumors.
J. Histochem. Cytochem. 49:1369-1378(2001)

PubMed=15592718; DOI=10.1007/s00262-004-0561-5
Rodriguez T., Mendez R., Roberts C.H., Ruiz-Cabello F., Dodi I.A., Lopez Nevot M.A., Paco L., Maleno I., Marsh S.G.E., Pawelec G., Garrido F.
High frequency of homozygosity of the HLA region in melanoma cell lines reveals a pattern compatible with extensive loss of heterozygosity.
Cancer Immunol. Immunother. 54:141-148(2005)

PubMed=22460905; DOI=10.1038/nature11003
Barretina J.G., Caponigro G., Stransky N., Venkatesan K., Margolin A.A., Kim S., Wilson C.J., Lehar J., Kryukov G.V., Sonkin D., Reddy A., Liu M., Murray L., Berger M.F., Monahan J.E., Morais P., Meltzer J., Korejwa A., Jane-Valbuena J., Mapa F.A., Thibault J., Bric-Furlong E., Raman P., Shipway A., Engels I.H., Cheng J., Yu G.-Y.K., Yu J.-J., Aspesi P. Jr., de Silva M., Jagtap K., Jones M.D., Wang L., Hatton C., Palescandolo E., Gupta S., Mahan S., Sougnez C., Onofrio R.C., Liefeld T., MacConaill L.E., Winckler W., Reich M., Li N.-X., Mesirov J.P., Gabriel S.B., Getz G., Ardlie K., Chan V., Myer V.E., Weber B.L., Porter J., Warmuth M., Finan P., Harris J.L., Meyerson M., Golub T.R., Morrissey M.P., Sellers W.R., Schlegel R., Garraway L.A.
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.
Nature 483:603-607(2012)

PubMed=23851445; DOI=10.1158/1541-7786.MCR-13-0006
Dahl C., Christensen C., Jonsson G., Lorentzen A., Skjodt M.L., Borg A., Pawelec G., Guldberg P.
Mutual exclusivity analysis of genetic and epigenetic drivers in melanoma identifies a link between p14 ARF and RARbeta signaling.
Mol. Cancer Res. 11:1166-1178(2013)

PubMed=25984343; DOI=10.1038/sdata.2014.35
Cowley G.S., Weir B.A., Vazquez F., Tamayo P., Scott J.A., Rusin S., East-Seletsky A., Ali L.D., Gerath W.F.J., Pantel S.E., Lizotte P.H., Jiang G.-Z., Hsiao J., Tsherniak A., Dwinell E., Aoyama S., Okamoto M., Harrington W., Gelfand E.T., Green T.M., Tomko M.J., Gopal S., Wong T.C., Li H.-B., Howell S., Stransky N., Liefeld T., Jang D., Bistline J., Meyers B.H., Armstrong S.A., Anderson K.C., Stegmaier K., Reich M., Pellman D., Boehm J.S., Mesirov J.P., Golub T.R., Root D.E., Hahn W.C.
Parallel genome-scale loss of function screens in 216 cancer cell lines for the identification of context-specific genetic dependencies.
Sci. Data 1:140035-140035(2014)

PubMed=30894373; DOI=10.1158/0008-5472.CAN-18-2747
Dutil J., Chen Z.-H., Monteiro A.N.A., Teer J.K., Eschrich S.A.
An interactive resource to probe genetic diversity and estimated ancestry in cancer cell lines.
Cancer Res. 79:1263-1273(2019)

PubMed=31068700; DOI=10.1038/s41586-019-1186-3
Ghandi M., Huang F.W., Jane-Valbuena J., Kryukov G.V., Lo C.C., McDonald E.R. III, Barretina J., Gelfand E.T., Bielski C.M., Li H., Hu K., Andreev-Drakhlin A.Y., Kim J., Hess J.M., Haas B.J., Aguet F., Weir B.A., Rothberg M.V., Paolella B.R., Lawrence M.S., Akbani R., Lu Y., Tiv H.L., Gokhale P.C., de Weck A., Mansour A.A., Oh C., Shih J., Hadi K., Rosen Y., Bistline J., Venkatesan K., Reddy A., Sonkin D., Liu M., Lehar J., Korn J.M., Porter D.A., Jones M.D., Golji J., Caponigro G., Taylor J.E., Dunning C.M., Creech A.L., Warren A.C., McFarland J.M., Zamanighomi M., Kauffmann A., Stransky N., Imielinski M., Maruvka Y.E., Cherniack A.D., Tsherniak A., Vazquez F., Jaffe J.D., Lane A.A., Weinstock D.M., Johannessen C.M., Morrissey M.P., Stegmeier F., Schlegel R., Hahn W.C., Getz G., Mills G.B., Boehm J.S., Golub T.R., Garraway L.A., Sellers W.R.
Next-generation characterization of the Cancer Cell Line Encyclopedia.
Nature 569:503-508(2019)

PubMed=31978347; DOI=10.1016/j.cell.2019.12.023
Nusinow D.P., Szpyt J., Ghandi M., Rose C.M., McDonald E.R. III, Kalocsay M., Jane-Valbuena J., Gelfand E.T., Schweppe D.K., Jedrychowski M., Golji J., Porter D.A., Rejtar T., Wang Y.K., Kryukov G.V., Stegmeier F., Erickson B.K., Garraway L.A., Sellers W.R., Gygi S.P.
Quantitative proteomics of the Cancer Cell Line Encyclopedia.
Cell 180:387-402.e16(2020)

Cross-references
Cell line collections DSMZ; ACC-239
Cell line databases/resources CLO; CLO_0006671
CLDB; cl2626
Cell_Model_Passport; SIDM01065
DepMap; ACH-000550
DSMZCellDive; ACC-239
ESTDAB; ESTDAB-037 - Discontinued
LINCS_LDP; LCL-1249
Biological sample resources BioSample; SAMN10988096
Chemistry resources PharmacoDB; IGR39_653_2019
Encyclopedic resources Wikidata; Q54897368
Gene expression databases GEO; GSM557940
GEO; GSM557942
GEO; GSM887159
GEO; GSM888231
GEO; GSM1669929
Polymorphism and mutation databases Cosmic; 886828
Cosmic; 2163786
IARC_TP53; 30078
Progenetix; CVCL_2076
Entry history
Entry creation04-Apr-2012
Last entry update23-Jun-2022
Version number30