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Cellosaurus IGR-39 (CVCL_2076)

[Text version]
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=ACC-239).
Omics: Genomics; DNA methylation analysis.
Omics: Genomics; Whole exome sequencing.
Omics: Phenotyping; shRNA library screening.
Omics: Proteomics; Quantitative.
Omics: Transcriptomics; Microarray.
Omics: Variations; SNP array analysis.
Derived from site: In situ; Skin; UBERON=UBERON_0002097.
Sequence variations
  • Gene deletion; HGNC; HGNC:9588; PTEN; Zygosity=Homozygous (PubMed=23851445).
  • Mutation; HGNC; HGNC:1097; BRAF; Simple; p.Val600Glu (c.1799T>A); ClinVar=VCV000013961; Zygosity=Heterozygous (PubMed=23851445; DepMap=ACH-000550).
  • Mutation; HGNC; HGNC:11730; TERT; Simple; c.1-124C>T (c.228C>T) (C228T); Zygosity=Unspecified; Note=In promoter (PubMed=31068700).
  • Mutation; HGNC; HGNC:11998; TP53; Simple; p.Cys229Tyrfs*10 (c.686_687delGT); ClinVar=VCV000863486; Zygosity=Unspecified (DepMap=ACH-000550).
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=ACC-239

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
Colette Foa, Christian Aubert;
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
Christian Aubert, Francoise Rouge, Jean-Remy Galindo;
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
Arye Weinreb, Pierre Travo;
Discrimination between human melanoma cell lines by fluorescence anisotropy.
Eur. J. Cancer Clin. Oncol. 20:673-677(1984)

PubMed=2337917
Robert Aquaron, Catherine Dutoit, Max Reynier, Christian Aubert;
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
Michele Aubery, Max Reynier, Marc Lopez, Eric Ogier-Denis, Jacqueline Font, Florence Bardin;
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
Hilmar Quentmeier, Mary Osborn, Julia Reinhardt, Margarete Zaborski, Hans Gunther Drexler;
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; PMCID=PMC11032966
Teresa Rodriguez, Rosa Mendez, Chrissy H. Roberts, Francisco Ruiz-Cabello Osuna, I. Anthony Dodi, Miguel Angel Lopez-Nevot, Laura Paco, Isabel Maleno, Steven G.E. Marsh, Graham Pawelec, Federico Garrido;
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=21584902; DOI=10.1002/gcc.20890
Alexander Swoboda, Doris Rasin-Streden, Oliver Schanab, Ichiro Okamoto, Hubert Pehamberger, Peter Petzelbauer, Mario Mikula;
Identification of genetic disparity between primary and metastatic melanoma in human patients.
Genes Chromosomes Cancer 50:680-688(2011)

PubMed=22460905; DOI=10.1038/nature11003; PMCID=PMC3320027
Jordi Ginesta Barretina, Giordano Caponigro, Nicolas Stransky, Kavitha Venkatesan, Adam A. Margolin, Sungjoon Kim, Christopher J. Wilson, Joseph Lehar, Gregory V. Kryukov, Dmitriy Sonkin, Anupama Reddy ...Show all 61 authors... , Manway Liu, Lauren Murray, Michael F. Berger, John E. Monahan, Paula Morais, Jodi Meltzer, Adam Korejwa, Judit Jane-Valbuena, Felipa A. Mapa, Joseph Thibault, Eva Bric-Furlong, Pichai Raman, Aaron Shipway, Ingo H. Engels, Jill Cheng, Guo-Ying K. Yu, Jian-Jun Yu, Peter Aspesi Jr., Melanie de Silva, Kalpana Jagtap, Michael D. Jones, Li Wang, Charles Hatton, Emanuele Palescandolo, Supriya Gupta, Scott Mahan, Carrie Sougnez, Robert C. Onofrio, Ted Liefeld, Laura E. MacConaill, Wendy Winckler, Michael Reich, Nan-Xin Li, Jill P. Mesirov, Stacey B. Gabriel, Gad Getz, Kristin Ardlie, Vivien Chan, Vic E. Myer, Barbara L. Weber, Jeff Porter, Markus Warmuth, Peter Finan, Jennifer L. Harris, Matthew Langer Meyerson, Todd Robert Golub, Michael P. Morrissey, William Raj Sellers, Robert Schlegel, Levi Alexander Garraway; Show fewer authors
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
Christina Dahl, Claus Christensen, Goran Jonsson, Anders Lorentzen, Mette Louise Skjodt, Ake Borg, Graham Pawelec, Per Guldberg;
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; PMCID=PMC4432652
Glenn S. Cowley, Barbara A. Weir, Francisca Vazquez, Pablo Tamayo, Justine A. Scott, Scott Rusin, Alexandra East-Seletsky, Levi D. Ali, William F.J. Gerath, Sarah E. Pantel, Patrick Hall Lizotte ...Show all 40 authors... , Guo-Zhi Jiang, Jessica Hsiao, Aviad Tsherniak, Elizabeth Dwinell, Simon Aoyama, Michael Okamoto, William Harrington, Ellen T. Gelfand, Thomas M. Green, Mark J. Tomko, Shuba Gopal, Terence C. Wong, Hu-Bo Li, Sara Howell, Nicolas Stransky, Ted Liefeld, Dongkeun Jang, Jonathan Bistline, Barbara Hill Meyers, Scott Allen Armstrong, Kenneth Carl Anderson, Kimberly Stegmaier, Michael Reich, David Pellman, Jesse S. Boehm, Jill P. Mesirov, Todd Robert Golub, David E. Root, William Chun Hahn; Show fewer authors
Parallel genome-scale loss of function screens in 216 cancer cell lines for the identification of context-specific genetic dependencies.
Sci. Data 1:140035.1-140035.12(2014)

PubMed=30894373; DOI=10.1158/0008-5472.CAN-18-2747; PMCID=PMC6445675
Julie Dutil, Zhi-Hua Chen, Alvaro N.A. Monteiro, Jamie K. Teer, Steven A. Eschrich;
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; PMCID=PMC6697103
Mahmoud Ghandi, Franklin W. Huang, Judit Jane-Valbuena, Gregory V. Kryukov, Christopher C. Lo, E. Robert McDonald 3rd, Jordi Ginesta Barretina, Ellen T. Gelfand, Craig M. Bielski, Hao-Xin Li, Kevin Hu ...Show all 68 authors... , Alexander Y. Andreev-Drakhlin, Jaegil Kim, Julian M. Hess, Brian J. Haas, Francois Aguet, Barbara A. Weir, Michael V. Rothberg, Brenton R. Paolella, Michael Scott Lawrence, Rehan Akbani, Yi-Ling Lu, Hong L. Tiv, Prafulla C. Gokhale, Antoine de Weck, Ali Amin Mansour, Coyin Oh, Juliann Shih, Kevin Hadi, Yanay Rosen, Jonathan Bistline, Kavitha Venkatesan, Anupama Reddy, Dmitriy Sonkin, Manway Liu, Joseph Lehar, Joshua M. Korn, Dale A. Porter, Michael D. Jones, Javad Golji, Giordano Caponigro, Jordan E. Taylor, Caitlin M. Dunning, Amanda L. Creech, Allison C. Warren, James M. McFarland, Mahdi Zamanighomi, Audrey Kauffmann, Nicolas Stransky, Marcin Imielinski, Yosef E. Maruvka, Andrew D. Cherniack, Aviad Tsherniak, Francisca Vazquez, Jacob D. Jaffe, Andrew Alan Lane, David M. Weinstock, Cory M. Johannessen, Michael P. Morrissey, Frank Stegmeier, Robert Schlegel, William Chun Hahn, Gad Getz, Gordon B. Mills, Jesse S. Boehm, Todd Robert Golub, Levi Alexander Garraway, William Raj Sellers; Show fewer authors
Next-generation characterization of the Cancer Cell Line Encyclopedia.
Nature 569:503-508(2019)

PubMed=31978347; DOI=10.1016/j.cell.2019.12.023; PMCID=PMC7339254
David Paul Nusinow, John Szpyt, Mahmoud Ghandi, Christopher M. Rose, E. Robert McDonald 3rd, Marian Kalocsay, Judit Jane-Valbuena, Ellen T. Gelfand, Devin K. Schweppe, Mark P. Jedrychowski, Javad Golji ...Show all 20 authors... , Dale A. Porter, Tomas Rejtar, Y. Karen Wang, Gregory V. Kryukov, Frank Stegmeier, Brian K. Erickson, Levi Alexander Garraway, William Raj Sellers, Steven P. Gygi; Show fewer authors
Quantitative proteomics of the Cancer Cell Line Encyclopedia.
Cell 180:387-402.e16(2020)

Cross-references
Cell line collections (Providers) DSMZ; ACC-239
Cell line databases/resources CLO; CLO_0006671
CLDB; cl2626
cancercelllines; CVCL_2076
Cell_Model_Passport; SIDM01065
DepMap; ACH-000550
DSMZCellDive; ACC-239
ESTDAB; ESTDAB-037 - Discontinued
LINCS_LDP; LCL-1249
Biological sample resources BioSample; SAMN10988096
CRISP screens repositories BioGRID_ORCS_Cell_line; 638
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 update10-Apr-2025
Version number37