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Cellosaurus YMB-1-E (CVCL_2815)

[Text version]
Cell line name YMB-1-E
Synonyms YMB1-E; YMB1E
Accession CVCL_2815
Resource Identification Initiative To cite this cell line use: YMB-1-E (RRID:CVCL_2815)
Comments Problematic cell line: Contaminated. Parent cell line (YMB-1) has been shown to be a ZR-75-1 derivative (PubMed=23136038).
Part of: Cancer Dependency Map project (DepMap) (includes Cancer Cell Line Encyclopedia - CCLE).
Part of: COSMIC cell lines project.
Registration: International Cell Line Authentication Committee, Register of Misidentified Cell Lines; ICLAC-00392.
Population: Caucasian.
Microsatellite instability: Stable (MSS) (Sanger).
Omics: Deep exome analysis.
Omics: Deep quantitative proteome analysis.
Omics: DNA methylation analysis.
Omics: SNP array analysis.
Omics: Transcriptome analysis by RNAseq.
Derived from site: Metastatic; Ascites; UBERON=UBERON_0007795.
Sequence variations
  • Mutation; HGNC; 5173; HRAS; Simple; p.Glu162Lys (c.484G>A); ClinVar=VCV001034833; Zygosity=Homozygous (Cosmic-CLP=1303911; DepMap=ACH-002208).
  • Mutation; HGNC; 6407; KRAS; Simple; p.Lys117Asn (c.351A>T); ClinVar=VCV000375964; Zygosity=Heterozygous (Cosmic-CLP=1303911; DepMap=ACH-002208).
  • Mutation; HGNC; 9588; PTEN; Simple; p.Leu108Arg (c.323T>G); Zygosity=Homozygous (Cosmic-CLP=1303911; DepMap=ACH-002208).
HLA typing Source: PubMed=26589293
Class I
HLA-AA*24:18,24:18
HLA-BB*35:01,35:01
HLA-CC*04:01,04:01
Genome ancestry Source: PubMed=30894373

Origin% genome
African0.06
Native American0
East Asian, North0
East Asian, South0
South Asian1.29
European, North66.59
European, South32.06
Disease Invasive breast carcinoma of no special type (NCIt: C4194)
Species of origin Homo sapiens (Human) (NCBI Taxonomy: 9606)
Hierarchy Parent: CVCL_2814 (YMB-1)
Sex of cell Female
Age at sampling 63Y
Category Cancer cell line
STR profile Source(s): Cosmic-CLP=1303911; JCRB=JCRB0825; TKG=TKG 0440

Markers:
AmelogeninX
CSF1PO10,11
D5S81813
D7S82010,11
D13S3179
D16S53911
TH017,9.3
TPOX8
vWA16,18

Run an STR similarity search on this cell line
Web pages https://iclac.org/wp-content/uploads/Cross-Contaminations_v13_distribution.xlsx
Publications

PubMed=9290701; DOI=10.1002/(SICI)1098-2744(199708)19:4<243::AID-MC5>3.0.CO;2-D
Jia L.-Q., Osada M., Ishioka C., Gamo M., Ikawa S., Suzuki T., Shimodaira H., Niitani T., Kudo T., Akiyama M., Kimura N., Matsuo M., Mizusawa H., Tanaka N., Koyama H., Namba M., Kanamaru R., Kuroki T.
Screening the p53 status of human cell lines using a yeast functional assay.
Mol. Carcinog. 19:243-253(1997)

PubMed=23136038; DOI=10.1002/ijc.27931
Capes-Davis A., Reid Y.A., Kline M.C., Storts D.R., Strauss E., Dirks W.G., Drexler H.G., MacLeod R.A.F., Sykes G.R., Kohara A., Nakamura Y., Elmore E., Nims R.W., Alston-Roberts C., Barallon R., Los G.V., Nardone R.M., Price P.J., Steuer A., Thomson J.A., Masters J.R.W., Kerrigan L.
Match criteria for human cell line authentication: where do we draw the line?
Int. J. Cancer 132:2510-2519(2013)

PubMed=25485619; DOI=10.1038/nbt.3080
Klijn C., Durinck S., Stawiski E.W., Haverty P.M., Jiang Z.-S., Liu H.-B., Degenhardt J., Mayba O., Gnad F., Liu J.-F., Pau G., Reeder J., Cao Y., Mukhyala K., Selvaraj S.K., Yu M.-M., Zynda G.J., Brauer M.J., Wu T.D., Gentleman R.C., Manning G., Yauch R.L., Bourgon R., Stokoe D., Modrusan Z., Neve R.M., de Sauvage F.J., Settleman J., Seshagiri S., Zhang Z.-M.
A comprehensive transcriptional portrait of human cancer cell lines.
Nat. Biotechnol. 33:306-312(2015)

PubMed=26589293; DOI=10.1186/s13073-015-0240-5; PMCID=PMC4653878
Scholtalbers J., Boegel S., Bukur T., Byl M., Goerges S., Sorn P., Loewer M., Sahin U., Castle J.C.
TCLP: an online cancer cell line catalogue integrating HLA type, predicted neo-epitopes, virus and gene expression.
Genome Med. 7:118.1-118.7(2015)

PubMed=27397505; DOI=10.1016/j.cell.2016.06.017; PMCID=PMC4967469
Iorio F., Knijnenburg T.A., Vis D.J., Bignell G.R., Menden M.P., Schubert M., Aben N., Goncalves E., Barthorpe S., Lightfoot H., Cokelaer T., Greninger P., van Dyk E., Chang H., de Silva H., Heyn H., Deng X.-M., Egan R.K., Liu Q.-S., Mironenko T., Mitropoulos X., Richardson L., Wang J.-H., Zhang T.-H., Moran S., Sayols S., Soleimani M., Tamborero D., Lopez-Bigas N., Ross-Macdonald P., Esteller M., Gray N.S., Haber D.A., Stratton M.R., Benes C.H., Wessels L.F.A., Saez-Rodriguez J., McDermott U., Garnett M.J.
A landscape of pharmacogenomic interactions in cancer.
Cell 166:740-754(2016)

PubMed=30894373; DOI=10.1158/0008-5472.CAN-18-2747; PMCID=PMC6445675
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=35839778; DOI=10.1016/j.ccell.2022.06.010; PMCID=PMC9387775
Goncalves E., Poulos R.C., Cai Z.-X., Barthorpe S., Manda S.S., Lucas N., Beck A., Bucio-Noble D., Dausmann M., Hall C., Hecker M., Koh J., Lightfoot H., Mahboob S., Mali I., Morris J., Richardson L., Seneviratne A.J., Shepherd R., Sykes E., Thomas F., Valentini S., Williams S.G., Wu Y.-X., Xavier D., MacKenzie K.L., Hains P.G., Tully B., Robinson P.J., Zhong Q., Garnett M.J., Reddel R.R.
Pan-cancer proteomic map of 949 human cell lines.
Cancer Cell 40:835-849.e8(2022)

Cross-references
Cell line collections (Providers) JCRB; JCRB0825
RCB; RCB1964 - Discontinued
TKG; TKG 0440
Cell line databases/resources cancercelllines; CVCL_2815
Cell_Model_Passport; SIDM01261
Cosmic-CLP; 1303911
DepMap; ACH-002208
Anatomy/cell type resources BTO; BTO:0002583
Biological sample resources BioSample; SAMN03152043
Chemistry resources ChEMBL-Cells; CHEMBL3307353
ChEMBL-Targets; CHEMBL614251
GDSC; 1303911
PharmacoDB; YMB1E_1687_2019
PubChem_Cell_line; CVCL_2815
Encyclopedic resources Wikidata; Q54995446
Experimental variables resources EFO; EFO_0006780
Gene expression databases ArrayExpress; E-MTAB-2706
GEO; GSM1670587
Polymorphism and mutation databases Cosmic; 1571791
Proteomic databases PRIDE; PXD030304
Sequence databases EGA; EGAS00001000610
EGA; EGAS00001002554
Entry history
Entry creation04-Apr-2012
Last entry update02-May-2024
Version number34