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Cellosaurus SK-PN-DW (CVCL_1703)

[Text version]
Cell line name SK-PN-DW
Synonyms SKPNDW
Accession CVCL_1703
Resource Identification Initiative To cite this cell line use: SK-PN-DW (RRID:CVCL_1703)
Comments 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.
Population: Caucasian.
Karyotypic information: Has lost chromosome Y as well as one copy each of chromosomes 11, 13, 17 and 18 (PubMed=31046733).
Microsatellite instability: Stable (MSS) (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: In situ; Retroperitoneal space; UBERON=UBERON_0003693.
Sequence variations
  • Gene fusion; HGNC; 3508; EWSR1 + HGNC; 3749; FLI1; Name(s)=EWSR1-FLI1, EWS-FLI1; Note=Type 1 fusion (Ex7/Ex6) (PubMed=8040301).
  • Mutation; HGNC; 9884; RB1; Simple; p.Trp78Ter (c.234G>A); ClinVar=VCV001456015; Zygosity=Homozygous (Cosmic-CLP; DepMap).
  • Mutation; HGNC; 11998; TP53; Simple; p.Cys176Phe (c.527G>T); ClinVar=VCV000376569; Zygosity=Homozygous (Cosmic-CLP; DepMap).
Genome ancestry Source: PubMed=30894373

Origin% genome
African0
Native American0
East Asian, North1.81
East Asian, South0
South Asian0
European, North62.77
European, South35.42
Disease Primitive neuroectodermal tumor (NCIt: C3716)
Species of origin Homo sapiens (Human) (NCBI Taxonomy: 9606)
Sex of cell Male
Age at sampling 17Y
Category Cancer cell line
STR profile Source(s): ATCC; Cosmic-CLP; ECACC

Markers:
AmelogeninX
CSF1PO12
D2S133817,25
D3S135814,16
D5S81813,14
D7S8208,14
D8S117913,15
D13S3179
D16S53912
D18S5116
D19S43312,13
D21S1129,31
FGA19,22
Penta D10,11
Penta E14,16
TH016
TPOX8,9
vWA16

Run an STR similarity search on this cell line
Web pages https://www.atcc.org/en/support/technical-support/faqs/morphology-of-atcc-crl-2139
Publications

PubMed=2987426; DOI=10.1007/BF00165170
Helson L., Helson C.
Human neuroblastoma cells and 13-cis-retinoic acid.
J. Neurooncol. 3:39-41(1985)

PubMed=3024811; DOI=10.1016/0165-4608(87)90084-7
Potluri V.R., Gilbert F., Helsen C., Helson L.
Primitive neuroectodermal tumor cell lines: chromosomal analysis of five cases.
Cancer Genet. Cytogenet. 24:75-86(1987)

DOI=10.1016/B978-0-12-333530-2.50006-X
Israel M.A., Thiele C.J.
Tumor cell lines of the peripheral nervous system.
(In) Atlas of human tumor cell lines; Hay R.J., Park J.-G., Gazdar A.F. (eds.); pp.43-78; Academic Press; New York (1994)

PubMed=8040301; DOI=10.1172/JCI117360
Giovannini M., Biegel J.A., Serra M., Wang J.-Y., Wei Y.-L.H., Nycum L., Emanuel B.S., Evans G.A.
EWS-erg and EWS-Fli1 fusion transcripts in Ewing's sarcoma and primitive neuroectodermal tumors with variant translocations.
J. Clin. Invest. 94:489-496(1994)

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=22142829; DOI=10.1158/1078-0432.CCR-11-2056
Shukla N., Ameur N., Yilmaz I., Nafa K., Lau C.-Y., Marchetti A., Borsu L., Barr F.G., Ladanyi M.
Oncogene mutation profiling of pediatric solid tumors reveals significant subsets of embryonal rhabdomyosarcoma and neuroblastoma with mutated genes in growth signaling pathways.
Clin. Cancer Res. 18:748-757(2012)

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=31046733; DOI=10.1186/s12885-019-5625-1
Du N., Bao W.-G., Zhang K.-Y., Lu X.-L., Crew R., Wang X.-F., Liu G.-M., Wang F.
Cytogenetic characterization of the malignant primitive neuroectodermal SK-PN-DW tumor cell line.
BMC Cancer 19:412.1-412.12(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.G., Gelfand E.T., Bielski C.M., Li H.-X., 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.-L., 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)

DOI=10.5282/edoc.27750
Orth M.F.
Systematic multi-omics profiling of Ewing sarcoma cell lines.
Thesis PhD (2021), Ludwig Maximilians University of Munich, Germany

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-2139
ECACC; 94092301
Cell line databases/resources CLO; CLO_0009064
CLDB; cl4358
cancercelllines; CVCL_1703
Cell_Model_Passport; SIDM01097
Cosmic-CLP; 909731
DepMap; ACH-001193
LINCS_LDP; LCL-1048
Biological sample resources BioSample; SAMN03472556
BioSample; SAMN10989621
CRISP screens repositories BioGRID_ORCS_Cell_line; 1015
Chemistry resources ChEMBL-Cells; CHEMBL3308886
ChEMBL-Targets; CHEMBL2366108
GDSC; 909731
PharmacoDB; SKPNDW_1412_2019
PubChem_Cell_line; CVCL_1703
Encyclopedic resources Wikidata; Q54954519
Gene expression databases ArrayExpress; E-MTAB-3610
GEO; GSM1670456
Polymorphism and mutation databases Cosmic; 684073
Cosmic; 909731
Cosmic; 1078390
Cosmic; 1718431
IARC_TP53; 27245
Proteomic databases PRIDE; PXD030304
Sequence databases EGA; EGAS00001000978
Entry history
Entry creation04-Apr-2012
Last entry update30-Jan-2024
Version number35