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Cellosaurus UPCI-SCC-090 (CVCL_1899)

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Cell line name UPCI-SCC-090
Synonyms UPCI-SCC-90; UPCI:SCC090; UPCI:SCC90; UPCI-SCC090; UPCISCC090; SCC090; SCC90
Accession CVCL_1899
Resource Identification Initiative To cite this cell line use: UPCI-SCC-090 (RRID:CVCL_1899)
Comments Part of: Cancer Dependency Map project (DepMap) (includes Cancer Cell Line Encyclopedia - CCLE).
Part of: COSMIC cell lines project.
Part of: OPC-22 oral and pharyngeal cancer cell line panel.
Population: Caucasian.
Virology: Contains from 100 to 500 copies of the HPV16 genome (PubMed=24201445).
Doubling time: 2.8 days (PubMed=29156801); ~120-150 hours (DSMZ=ACC-670).
Microsatellite instability: Stable (MSS) (Sanger).
Transformant: NCBI_TaxID; 333760; Human papillomavirus type 16 (HPV16).
Omics: CRISPR phenotypic screen.
Omics: Deep exome analysis.
Omics: Deep quantitative proteome analysis.
Omics: DNA methylation analysis.
Omics: Protein expression by reverse-phase protein arrays.
Omics: SNP array analysis.
Omics: Transcriptome analysis by microarray.
Omics: Transcriptome analysis by RNAseq.
Derived from site: In situ; Oral cavity, tongue; UBERON=UBERON_0001723.
Genome ancestry Source: PubMed=30894373

Origin% genome
African0
Native American0
East Asian, North3.18
East Asian, South0
South Asian0
European, North67.02
European, South29.79
Disease Tongue squamous cell carcinoma (NCIt: C4648)
Squamous cell carcinoma of the oral tongue (ORDO: Orphanet_457252)
Species of origin Homo sapiens (Human) (NCBI Taxonomy: 9606)
Originate from same individual CVCL_C058 ! UPCI-SCC-152
Sex of cell Male
Age at sampling 46Y
Category Cancer cell line
STR profile Source(s): ATCC; Cosmic-CLP; DepMap; DSMZ; PubMed=25275298; PubMed=29156801; PubMed=33802339

Markers:
AmelogeninX,Y
CSF1PO11,12
D2S133822
D3S135814
D5S81811,12
D7S8209,10
D8S117912
D13S31711
D16S53912,13
D18S5114,17 (DSMZ)
14,18 (DepMap; PubMed=25275298; PubMed=33802339)
D19S43313
D21S1129,31
FGA20
Penta D11
Penta E11,12
TH017
TPOX8
vWA17

Run an STR similarity search on this cell line
Publications

PubMed=17112776; DOI=10.1016/j.oraloncology.2006.09.001
White J.S., Weissfeld J.L., Ragin C.C., Rossie K.M., Martin C.L., Shuster M., Ishwad C.S., Law J.C., Myers E.N., Johnson J.T., Gollin S.M.
The influence of clinical and demographic risk factors on the establishment of head and neck squamous cell carcinoma cell lines.
Oral Oncol. 43:701-712(2007)

PubMed=17848307; DOI=10.1016/j.ijrobp.2007.04.082
Yarbrough W.G., Whigham A., Brown B., Roach M., Slebos R.J.C.
Phosphoinositide kinase-3 status associated with presence or absence of human papillomavirus in head and neck squamous cell carcinomas.
Int. J. Radiat. Oncol. Biol. Phys. 69:S98-S101(2007)

PubMed=17681875; DOI=10.1016/j.oraloncology.2007.05.003
Martin C.L., Reshmi S.C., Ried T., Gottberg W., Wilson J.W., Reddy J.K., Khanna P., Johnson J.T., Myers E.N., Gollin S.M.
Chromosomal imbalances in oral squamous cell carcinoma: examination of 31 cell lines and review of the literature.
Oral Oncol. 44:369-382(2008)

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=23419152; DOI=10.1186/gm419
Lechner M., Fenton T., West J., Wilson G., Feber A., Henderson S., Thirlwell C., Dibra H.K., Jay A., Butcher L.M., Chakravarthy A.R., Gratrix F., Patel N., Vaz F., O'Flynn P., Kalavrezos N., Teschendorff A.E., Boshoff C., Beck S.
Identification and functional validation of HPV-mediated hypermethylation in head and neck squamous cell carcinoma.
Genome Med. 5:15.1-15.16(2013)

PubMed=24403267; DOI=10.1002/cam4.151
Kawakami H., Okamoto I., Terao K., Sakai K., Suzuki M., Ueda S., Tanaka K., Kuwata K., Morita Y., Ono K., Nishio K., Nishimura Y., Doi K., Nakagawa K.
Human papillomavirus DNA and p16 expression in Japanese patients with oropharyngeal squamous cell carcinoma.
Cancer Med. 2:933-941(2013)

PubMed=24201445; DOI=10.1101/gr.164806.113
Akagi K., Li J.-F., Broutian T.R., Padilla-Nash H.M., Xiao W.-H., Jiang B., Rocco J.W., Teknos T.N., Kumar B., Wangsa D., He D., Ried T., Symer D.E., Gillison M.L.
Genome-wide analysis of HPV integration in human cancers reveals recurrent, focal genomic instability.
Genome Res. 24:185-199(2014)

PubMed=25275298; DOI=10.18632/oncotarget.2417
Martin D., Abba M.C., Molinolo A.A., Vitale-Cross L., Wang Z.-Y., Zaida M., Delic N.C., Samuels Y., Lyons J.G., Gutkind J.S.
The head and neck cancer cell oncogenome: a platform for the development of precision molecular therapies.
Oncotarget 5:8906-8923(2014)

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=28236344; DOI=10.1002/hed.24729
Walline H.M., Goudsmit C.M., McHugh J.B., Tang A.L., Owen J.H., Teh B.T., McKean E.L., Glover T.W., Graham M.P., Prince M.E.P., Chepeha D.B., Chinn S.B., Ferris R.L., Gollin S.M., Hoffmann T.K., Bier H., Brakenhoff R.H., Bradford C.R., Carey T.E.
Integration of high-risk human papillomavirus into cellular cancer-related genes in head and neck cancer cell lines.
Head Neck 39:840-852(2017)

PubMed=29156801; DOI=10.18632/oncotarget.21174
Kalu N.N., Mazumdar T., Peng S., Shen L., Sambandam V., Rao X., Xi Y., Li L., Qi Y., Gleber-Netto F.O., Patel A., Wang J., Frederick M.J., Myers J.N., Pickering C.R., Johnson F.M.
Genomic characterization of human papillomavirus-positive and -negative human squamous cell cancer cell lines.
Oncotarget 8:86369-86383(2017)

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=33802339; DOI=10.3390/cancers13051069
Gottgens E.-L., Ansems M., Leenders W.P.J., Bussink J., Span P.N.
Genotyping and characterization of HPV status, hypoxia, and radiosensitivity in 22 head and neck cancer cell lines.
Cancers (Basel) 13:1069.1-1069.12(2021)

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-3239
DSMZ; ACC-670
Cell line databases/resources Cell_Model_Passport; SIDM00399
Cosmic-CLP; 1299052
DepMap; ACH-001227
DSMZCellDive; ACC-670
Biological sample resources BioSample; SAMN03473425
Chemistry resources GDSC; 1299052
PharmacoDB; SCC90_1357_2019
Encyclopedic resources Wikidata; Q54991658
Gene expression databases ArrayExpress; E-MTAB-3610
GEO; GSM937832
GEO; GSM937833
Polymorphism and mutation databases Cosmic; 1122679
Cosmic; 1530750
Cosmic; 2296310
Proteomic databases PRIDE; PXD030304
Sequence databases EGA; EGAS00001000978
Entry history
Entry creation04-Apr-2012
Last entry update05-Oct-2023
Version number30