ID   SF539
AC   CVCL_1691
AS   CVCL_F230
SY   SF-539; SF-539 BT; SF.539; SF 539
DR   BTO; BTO:0004214
DR   CLO; CLO_0009903
DR   EFO; EFO_0005453
DR   ArrayExpress; E-MTAB-783
DR   ArrayExpress; E-MTAB-2706
DR   ArrayExpress; E-MTAB-2770
DR   ArrayExpress; E-MTAB-3610
DR   BioGRID_ORCS_Cell_line; 1010
DR   BioSample; SAMN03471111
DR   BioSample; SAMN10989592
DR   cancercelllines; CVCL_1691
DR   Cell_Model_Passport; SIDM00083
DR   ChEMBL-Cells; CHEMBL3307721
DR   ChEMBL-Cells; CHEMBL3307833
DR   ChEMBL-Targets; CHEMBL614860
DR   ChEMBL-Targets; CHEMBL613986
DR   Cosmic; 687582
DR   Cosmic; 875893
DR   Cosmic; 905984
DR   Cosmic; 974238
DR   Cosmic; 1092631
DR   Cosmic; 1175817
DR   Cosmic; 1305360
DR   Cosmic; 1312342
DR   Cosmic; 1436041
DR   Cosmic; 1998474
DR   Cosmic; 2367546
DR   Cosmic; 2550359
DR   Cosmic-CLP; 905984
DR   DepMap; ACH-000273
DR   EGA; EGAS00001000610
DR   EGA; EGAS00001000978
DR   GDSC; 905984
DR   GEO; GSM2133
DR   GEO; GSM50177
DR   GEO; GSM50241
DR   GEO; GSM743437
DR   GEO; GSM750784
DR   GEO; GSM799325
DR   GEO; GSM799388
DR   GEO; GSM847114
DR   GEO; GSM844683
DR   GEO; GSM844684
DR   GEO; GSM1153395
DR   GEO; GSM1178602
DR   GEO; GSM1178603
DR   GEO; GSM1181246
DR   GEO; GSM1181261
DR   GEO; GSM1670419
DR   GEO; GSM2124682
DR   IARC_TP53; 21089
DR   LiGeA; CCLE_033
DR   LINCS_LDP; LCL-1390
DR   NCI-DTP; SF-539
DR   PharmacoDB; SF539_1369_2019
DR   PRIDE; PXD005942
DR   PRIDE; PXD005946
DR   PRIDE; PXD030304
DR   Progenetix; CVCL_1691
DR   PubChem_Cell_line; CVCL_1691
DR   SKY/M-FISH/CGH; 2744
DR   Wikidata; Q54952931
RX   PubMed=2041050;
RX   PubMed=3019542;
RX   PubMed=3335022;
RX   PubMed=10700174;
RX   PubMed=15748285;
RX   PubMed=17088437;
RX   PubMed=19372543;
RX   PubMed=20164919;
RX   PubMed=22068913;
RX   PubMed=22336246;
RX   PubMed=22347499;
RX   PubMed=22384151;
RX   PubMed=22628656;
RX   PubMed=23856246;
RX   PubMed=23933261;
RX   PubMed=24279929;
RX   PubMed=24670534;
RX   PubMed=25485619;
RX   PubMed=25877200;
RX   PubMed=26589293;
RX   PubMed=27377824;
RX   PubMed=27397505;
RX   PubMed=27807467;
RX   PubMed=28196595;
RX   PubMed=30894373;
RX   PubMed=30971826;
RX   PubMed=31068700;
RX   PubMed=35839778;
WW   https://dtp.cancer.gov/discovery_development/nci-60/cell_list.htm
WW   https://strap.nci.nih.gov/celline_detail.php?sample_id=61
WW   https://tcpaportal.org/mclp/
CC   Part of: Cancer Dependency Map project (DepMap) (includes Cancer Cell Line Encyclopedia - CCLE).
CC   Part of: COSMIC cell lines project.
CC   Part of: JFCR39 cancer cell line panel.
CC   Part of: MD Anderson Cell Lines Project.
CC   Part of: NCI-60 cancer cell line panel.
CC   Population: Caucasian.
CC   Doubling time: 35.4 hours (NCI-DTP=SF-539).
CC   HLA typing: A*02:01:01; B*08,35; C*04,07; DPB1*01:01:01,04:01; DQB1*02:01,03:01:01; DRB1*03:01:01,12 (PubMed=15748285).
CC   HLA typing: A*02:01,02:01; B*08:01,35:03; C*04:01,07:01; DRB1*11:07,11:07 (PubMed=26589293).
CC   Microsatellite instability: Stable (MSS) (Sanger).
CC   Sequence variation: Mutation; HGNC; 9884; RB1; Simple; p.Thr116Leufs*8 (c.346_349delACTT); Zygosity=Heterozygous (PubMed=17088437; Cosmic-CLP; DepMap).
CC   Sequence variation: Mutation; HGNC; 11998; TP53; Simple; p.Arg342Glufs*3 (c.1024delC); ClinVar=VCV000428885; Zygosity=Heterozygous (PubMed=17088437; Cosmic-CLP; DepMap).
CC   Omics: Array-based CGH.
CC   Omics: CNV analysis.
CC   Omics: CRISPR phenotypic screen.
CC   Omics: Deep exome analysis.
CC   Omics: Deep proteome analysis.
CC   Omics: Deep quantitative proteome analysis.
CC   Omics: DNA methylation analysis.
CC   Omics: Fluorescence phenotype profiling.
CC   Omics: lncRNA expression profiling.
CC   Omics: Metabolome analysis.
CC   Omics: Protein expression by reverse-phase protein arrays.
CC   Omics: SNP array analysis.
CC   Omics: Transcriptome analysis by microarray.
CC   Omics: Transcriptome analysis by RNAseq.
CC   Genome ancestry: African=1.47%; Native American=1.68%; East Asian, North=1.5%; East Asian, South=2.04%; South Asian=6.93%; European, North=25.95%; European, South=60.44% (PubMed=30894373).
CC   Misspelling: ISF-539; ChEMBL-Targets=CHEMBL613986; ChEMBL-Cells=CHEMBL3307833.
CC   Derived from site: In situ; Brain, right temporo-parietal lobe.
ST   Source(s): Cosmic-CLP; PubMed=19372543; PubMed=25877200
ST   Amelogenin: X
ST   CSF1PO: 10,11,13 (Cosmic-CLP)
ST   CSF1PO: 11,13 (PubMed=19372543; PubMed=25877200)
ST   D13S317: 12
ST   D16S539: 11,12
ST   D18S51: 20
ST   D19S433: 14
ST   D21S11: 29
ST   D2S1338: 17,23
ST   D3S1358: 15
ST   D5S818: 14
ST   D7S820: 11
ST   D8S1179: 15,17
ST   FGA: 20,21
ST   Penta D: 10
ST   Penta E: 12,15
ST   TH01: 7,8 (PubMed=19372543; PubMed=25877200)
ST   TH01: 7,8,9 (Cosmic-CLP)
ST   TPOX: 9,10
ST   vWA: 16,17
DI   NCIt; C3796; Gliosarcoma
DI   ORDO; Orphanet_251576; Gliosarcoma
OX   NCBI_TaxID=9606; ! Homo sapiens (Human)
SX   Female
AG   34Y
CA   Cancer cell line
DT   Created: 04-04-12; Last updated: 30-01-24; Version: 43
//
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RT   gliosarcoma.";
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RT   "HLA class I and II genotype of the NCI-60 cell lines.";
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//
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RA   O'Meara S., Santarius T., Avis T., Barthorpe S., Brackenbury L.,
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RT   "Mutation analysis of 24 known cancer genes in the NCI-60 cell line
RT   set.";
RL   Mol. Cancer Ther. 5:2606-2612(2006).
//
RX   PubMed=19372543; DOI=10.1158/1535-7163.MCT-08-0921;
RA   Lorenzi P.L., Reinhold W.C., Varma S., Hutchinson A.A., Pommier Y.,
RA   Chanock S.J., Weinstein J.N.;
RT   "DNA fingerprinting of the NCI-60 cell line panel.";
RL   Mol. Cancer Ther. 8:713-724(2009).
//
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RA   Bignell G.R., Greenman C.D., Davies H., Butler A.P., Edkins S.,
RA   Andrews J.M., Buck G., Chen L., Beare D., Latimer C., Widaa S.,
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RT   "Signatures of mutation and selection in the cancer genome.";
RL   Nature 463:893-898(2010).
//
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RA   Gillet J.-P., Calcagno A.M., Varma S., Marino M., Green L.J.,
RA   Vora M.I., Patel C., Orina J.N., Eliseeva T.A., Singal V.,
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RA   Ambudkar S.V., Gottesman M.M.;
RT   "Redefining the relevance of established cancer cell lines to the
RT   study of mechanisms of clinical anti-cancer drug resistance.";
RL   Proc. Natl. Acad. Sci. U.S.A. 108:18708-18713(2011).
//
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RA   Kong D.-X., Yamori T.;
RT   "JFCR39, a panel of 39 human cancer cell lines, and its application in
RT   the discovery and development of anticancer drugs.";
RL   Bioorg. Med. Chem. 20:1947-1951(2012).
//
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RA   Ruan X.-Y., Kocher J.-P.A., Pommier Y., Liu H.-F., Reinhold W.C.;
RT   "Mass homozygotes accumulation in the NCI-60 cancer cell lines as
RT   compared to HapMap trios, and relation to fragile site location.";
RL   PLoS ONE 7:E31628-E31628(2012).
//
RX   PubMed=22384151; DOI=10.1371/journal.pone.0032096;
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RA   Yoon C.N., Chang Y.-T.;
RT   "Identification of cancer cell-line origins using fluorescence
RT   image-based phenomic screening.";
RL   PLoS ONE 7:E32096-E32096(2012).
//
RX   PubMed=22628656; DOI=10.1126/science.1218595;
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RA   Kafri R., Kirschner M.W., Clish C.B., Mootha V.K.;
RT   "Metabolite profiling identifies a key role for glycine in rapid
RT   cancer cell proliferation.";
RL   Science 336:1040-1044(2012).
//
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RA   Abaan O.D., Polley E.C., Davis S.R., Zhu Y.-L.J., Bilke S., Walker R.L.,
RA   Pineda M.A., Gindin Y., Jiang Y., Reinhold W.C., Holbeck S.L.,
RA   Simon R.M., Doroshow J.H., Pommier Y., Meltzer P.S.;
RT   "The exomes of the NCI-60 panel: a genomic resource for cancer biology
RT   and systems pharmacology.";
RL   Cancer Res. 73:4372-4382(2013).
//
RX   PubMed=23933261; DOI=10.1016/j.celrep.2013.07.018;
RA   Moghaddas Gholami A., Hahne H., Wu Z.-X., Auer F.J., Meng C.,
RA   Wilhelm M., Kuster B.;
RT   "Global proteome analysis of the NCI-60 cell line panel.";
RL   Cell Rep. 4:609-620(2013).
//
RX   PubMed=24279929; DOI=10.1186/2049-3002-1-20;
RA   Dolfi S.C., Chan L.L.-Y., Qiu J., Tedeschi P.M., Bertino J.R.,
RA   Hirshfield K.M., Oltvai Z.N., Vazquez A.;
RT   "The metabolic demands of cancer cells are coupled to their size and
RT   protein synthesis rates.";
RL   Cancer Metab. 1:20.1-20.13(2013).
//
RX   PubMed=24670534; DOI=10.1371/journal.pone.0092047;
RA   Varma S., Pommier Y., Sunshine M., Weinstein J.N., Reinhold W.C.;
RT   "High resolution copy number variation data in the NCI-60 cancer cell
RT   lines from whole genome microarrays accessible through CellMiner.";
RL   PLoS ONE 9:E92047-E92047(2014).
//
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RA   Klijn C., Durinck S., Stawiski E.W., Haverty P.M., Jiang Z.-S.,
RA   Liu H.-B., Degenhardt J., Mayba O., Gnad F., Liu J.-F., Pau G.,
RA   Reeder J., Cao Y., Mukhyala K., Selvaraj S.K., Yu M.-M., Zynda G.J.,
RA   Brauer M.J., Wu T.D., Gentleman R.C., Manning G., Yauch R.L.,
RA   Bourgon R., Stokoe D., Modrusan Z., Neve R.M., de Sauvage F.J.,
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RT   "A comprehensive transcriptional portrait of human cancer cell
RT   lines.";
RL   Nat. Biotechnol. 33:306-312(2015).
//
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RA   Yuan J., Lee G., Peale F.V., Klijn C., Bourgon R., Kaminker J.S.,
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RT   "A resource for cell line authentication, annotation and quality
RT   control.";
RL   Nature 520:307-311(2015).
//
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RA   Loewer M., Sahin U., Castle J.C.;
RT   "TCLP: an online cancer cell line catalogue integrating HLA type,
RT   predicted neo-epitopes, virus and gene expression.";
RL   Genome Med. 7:118.1-118.7(2015).
//
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RA   Vandesompele J.;
RT   "Long non-coding RNA expression profiling in the NCI60 cancer cell
RT   line panel using high-throughput RT-qPCR.";
RL   Sci. Data 3:160052-160052(2016).
//
RX   PubMed=27397505; DOI=10.1016/j.cell.2016.06.017;
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RA   Schubert M., Aben N., Goncalves E., Barthorpe S., Lightfoot H.,
RA   Cokelaer T., Greninger P., van Dyk E., Chang H., de Silva H., Heyn H.,
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RA   Richardson L., Wang J.-H., Zhang T.-H., Moran S., Sayols S.,
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RL   Cell 166:740-754(2016).
//
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RL   Mob. DNA 7:20.1-20.11(2016).
//
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RL   Cancer Cell 31:225-239(2017).
//
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RL   Cancer Res. 79:1263-1273(2019).
//
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//
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RA   Goncalves E., Poulos R.C., Cai Z.-X., Barthorpe S., Manda S.S., Lucas N.,
RA   Beck A., Bucio-Noble D., Dausmann M., Hall C., Hecker M., Koh J.,
RA   Lightfoot H., Mahboob S., Mali I., Morris J., Richardson L.,
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RL   Cancer Cell 40:835-849.e8(2022).
//