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Cellosaurus SK-N-MC-IXC (CVCL_1398)

[Text version]
Cell line name SK-N-MC-IXC
Synonyms MC-IXC; MCIXC
Accession CVCL_1398
Resource Identification Initiative To cite this cell line use: SK-N-MC-IXC (RRID:CVCL_1398)
Comments Problematic cell line: Misclassified. Parent cell line (SK-N-MC) was originally thought to be a neuroblastoma cell line but shown to be from an Askin tumor.
Part of: Cancer Dependency Map project (DepMap) (includes Cancer Cell Line Encyclopedia - CCLE).
Part of: COSMIC cell lines project.
From: Memorial Sloan Kettering Cancer Center; New York; USA.
Registration: Memorial Sloan Kettering Cancer Center Office of Technology Development; SK2010-067.
Population: Caucasian.
Microsatellite instability: Instable (MSI-low) (Sanger).
Omics: Array-based CGH.
Omics: CRISPR phenotypic screen.
Omics: Deep exome analysis.
Omics: Deep quantitative proteome analysis.
Omics: DNA methylation analysis.
Omics: SNP array analysis.
Omics: Transcriptome analysis by microarray.
Derived from site: Metastatic; Orbital region; UBERON=UBERON_0004088.
Sequence variations
  • Gene fusion; HGNC; 3508; EWSR1 + HGNC; 3749; FLI1; Name(s)=EWSR1-FLI1, EWS-FLI1; Note=Type 1 fusion (Ex7/Ex6) (from parent cell line).
  • Mutation; HGNC; 11998; TP53; Simple; c.170_572del; Zygosity=Unspecified (from parent cell line).
Genome ancestry Source: PubMed=30894373

Origin% genome
African0
Native American0
East Asian, North0
East Asian, South0
South Asian0
European, North74.37
European, South25.63
Disease Askin tumor (NCIt: C7542)
Peripheral primitive neuroectodermal tumor (ORDO: Orphanet_370348)
Species of origin Homo sapiens (Human) (NCBI Taxonomy: 9606)
Hierarchy Parent: CVCL_0530 (SK-N-MC)
Children:
CVCL_B0FD (SK-N-MC-IXC/VCR)
Sex of cell Female
Age at sampling 12Y
Category Cancer cell line
STR profile Source(s): ATCC; Cosmic-CLP; PubMed=25877200

Markers:
AmelogeninX
CSF1PO10
D2S133817,21
D3S135815
D5S81811
D7S8208
D8S117910
D13S31711
D16S53912
D18S5113,14,15
D19S43313,15.2
D21S1130,31.2
FGA21,25
Penta D9,13
Penta E16,18
TH019.3
TPOX9,11
vWA17,18

Run an STR similarity search on this cell line
Web pages https://www.mskcc.org/research-advantage/support/technology/tangible-material/sk-n-mc-ixc-human-neuroblastoma-cell-line
Publications

PubMed=4748425
Biedler J.L., Helson L., Spengler B.A.
Morphology and growth, tumorigenicity, and cytogenetics of human neuroblastoma cells in continuous culture.
Cancer Res. 33:2643-2652(1973)

PubMed=15892104; DOI=10.1002/gcc.20198
Mosse Y.P., Greshock J., Margolin A.A., Naylor T., Cole K., Khazi D., Hii G., Winter C., Shahzad S., Asziz M.U., Biegel J.A., Weber B.L., Maris J.M.
High-resolution detection and mapping of genomic DNA alterations in neuroblastoma.
Genes Chromosomes Cancer 43:390-403(2005)

PubMed=20164919; DOI=10.1038/nature08768
Bignell G.R., Greenman C.D., Davies H., Butler A.P., Edkins S., Andrews J.M., Buck G., Chen L., Beare D., Latimer C., Widaa S., Hinton J., Fahey C., Fu B.-Y., Swamy S., Dalgliesh G.L., Teh B.T., Deloukas P., Yang F.-T., Campbell P.J., Futreal P.A., Stratton M.R.
Signatures of mutation and selection in the cancer genome.
Nature 463:893-898(2010)

PubMed=20215515; DOI=10.1158/0008-5472.CAN-09-3458
Rothenberg S.M., Mohapatra G., Rivera M.N., Winokur D., Greninger P., Nitta M., Sadow P.M., Sooriyakumar G., Brannigan B.W., Ulman M.J., Perera R.M., Wang R., Tam A., Ma X.-J., Erlander M., Sgroi D.C., Rocco J.W., Lingen M.W., Cohen E.E.W., Louis D.N., Settleman J., Haber D.A.
A genome-wide screen for microdeletions reveals disruption of polarity complex genes in diverse human cancers.
Cancer Res. 70:2158-2164(2010)

PubMed=25877200; DOI=10.1038/nature14397
Yu M., Selvaraj S.K., Liang-Chu M.M.Y., Aghajani S., Busse M., Yuan J., Lee G., Peale F.V., Klijn C., Bourgon R., Kaminker J.S., Neve R.M.
A resource for cell line authentication, annotation and quality control.
Nature 520:307-311(2015)

PubMed=27397505; DOI=10.1016/j.cell.2016.06.017
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
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=30971826; DOI=10.1038/s41586-019-1103-9
Behan F.M., Iorio F., Picco G., Goncalves E., Beaver C.M., Migliardi G., Santos R., Rao Y., Sassi F., Pinnelli M., Ansari R., Harper S., Jackson D.A., McRae R., Pooley R., Wilkinson P., van der Meer D.J., Dow D., Buser-Doepner C.A., Bertotti A., Trusolino L., Stronach E.A., Saez-Rodriguez J., Yusa K., Garnett M.J.
Prioritization of cancer therapeutic targets using CRISPR-Cas9 screens.
Nature 568:511-516(2019)

PubMed=35839778; DOI=10.1016/j.ccell.2022.06.010
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) ATCC; CRL-2270
Cell line databases/resources CLO; CLO_0007615
cancercelllines; CVCL_1398
Cell_Model_Passport; SIDM01246
Cosmic-CLP; 908118
DepMap; ACH-002160
IGRhCellID; MCIXC
LINCS_LDP; LCL-1967
TOKU-E; 4055
Anatomy/cell type resources BTO; BTO:0005372
Biological sample resources BioSample; SAMN03472918
CRISP screens repositories BioGRID_ORCS_Cell_line; 939
Chemistry resources ChEMBL-Cells; CHEMBL3308758
ChEMBL-Targets; CHEMBL1075495
GDSC; 908118
PharmacoDB; MCIXC_886_2019
PubChem_Cell_line; CVCL_1398
Encyclopedic resources Wikidata; Q54954480
Experimental variables resources EFO; EFO_0002230
Gene expression databases ArrayExpress; E-MTAB-38
ArrayExpress; E-MTAB-783
GEO; GSM1670077
Polymorphism and mutation databases Cosmic; 688068
Cosmic; 908118
Progenetix; CVCL_1398
Proteomic databases PRIDE; PXD030304
Entry history
Entry creation04-Apr-2012
Last entry update30-Jan-2024
Version number38