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Cellosaurus SCaBER (CVCL_3599)

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Cell line name SCaBER
Synonyms SCABER; Scaber
Accession CVCL_3599
Resource Identification Initiative To cite this cell line use: SCaBER (RRID:CVCL_3599)
Comments Part of: BLA-40 bladder carcinoma cell line panel.
Part of: Cancer Dependency Map project (DepMap) (includes Cancer Cell Line Encyclopedia - CCLE).
Part of: COSMIC cell lines project.
Part of: UBC-40 urothelial bladder cancer cell line index.
Population: African American.
Microsatellite instability: Stable (MSS) (Sanger).
Omics: Genomics; DNA methylation analysis.
Omics: Genomics; Whole exome sequencing.
Omics: Phenotyping; Drug screening.
Omics: Transcriptomics; Microarray.
Omics: Transcriptomics; RNAseq.
Omics: Variations; CNV analysis.
Omics: Variations; SNP array analysis.
Derived from site: In situ; Urinary bladder; UBERON=UBERON_0001255.
Sequence variations
  • Mutation; HGNC; HGNC:11730; TERT; Simple; c.1-124C>T (c.228C>T) (C228T); Zygosity=Unspecified; Note=In promoter (PubMed=24035680; PubMed=31068700).
  • Mutation; HGNC; HGNC:11998; TP53; Simple; p.Arg110Leu (c.329G>T); ClinVar=VCV000406597; Zygosity=Homozygous (PubMed=9850064; Cosmic-CLP=1299051; DepMap=ACH-000839).
Genome ancestry Source: PubMed=30894373

Origin% genome
African86.54
Native American1.69
East Asian, North2.11
East Asian, South0
South Asian0
European, North6
European, South3.66
Disease Bladder squamous cell carcinoma (NCIt: C4031)
Species of origin Homo sapiens (Human) (NCBI Taxonomy: 9606)
Hierarchy Children:
CVCL_C8D5 (SCaBER/R)
Sex of cell Male
Age at sampling 58Y
Category Cancer cell line
STR profile Source(s): ATCC=HTB-3; Cosmic-CLP=1299051; PubMed=11416159; PubMed=27270441

Markers:
AmelogeninX,Y
CSF1PO11,13
D2S133819,21
D3S135816
D5S81812,13
D7S8208,10
D8S117913,14
D13S31711,12
D16S53911,12
D18S5115 (PubMed=11416159)
15,17 (ATCC=HTB-3)
D19S43310,13
D21S1129,32.2
FGA22,23
Penta D3.2,5
Penta E7,9
TH017,9
TPOX9,11
vWA16

Run an STR similarity search on this cell line
Web pages Info; Synapse; Bladder Cancer exome; https://www.synapse.org/Synapse:syn4970200
Publications

PubMed=947851; DOI=10.1002/ijc.2910170604
Carol M. O'Toole, Shankar K. Nayak, Zane H. Price, W.H. Gilbert, Jerry Waisman;
A cell line (SCaBER) derived from squamous cell carcinoma of the human urinary bladder.
Int. J. Cancer 17:707-714(1976)

PubMed=571047
Jorgen Fogh;
Cultivation, characterization, and identification of human tumor cells with emphasis on kidney, testis, and bladder tumors.
Natl. Cancer Inst. Monogr. 49:5-9(1978)

PubMed=6244232
Richard D. Williams;
Human urologic cancer cell lines.
Invest. Urol. 17:359-363(1980)

PubMed=6935474; DOI=10.1093/jnci/66.2.239
William C. Wright, Walter P. Daniels, Jorgen Fogh;
Distinction of seventy-one cultured human tumor cell lines by polymorphic enzyme analysis.
J. Natl. Cancer Inst. 66:239-247(1981)

PubMed=6823318; DOI=10.1038/301429a0
Carol M. O'Toole, Susan Povey, Peter J. Hepburn, Leonard Maurice Franks;
Identity of some human bladder cancer cell lines.
Nature 301:429-430(1983)

PubMed=6582512; DOI=10.1073/pnas.81.2.568; PMCID=PMC344720
Michael Jules Mattes, Carlos Cordon-Cardo, John L. Lewis Jr., Lloyd John Old, Kenneth Oliver Lloyd;
Cell surface antigens of human ovarian and endometrial carcinoma defined by mouse monoclonal antibodies.
Proc. Natl. Acad. Sci. U.S.A. 81:568-572(1984)

PubMed=2990217; PMCID=PMC1888002
Carole Yee, Indira Krishnan-Hewlett, Carl C. Baker, Richard Schlegel, Peter Maxwell Howley;
Presence and expression of human papillomavirus sequences in human cervical carcinoma cell lines.
Am. J. Pathol. 119:361-366(1985)

PubMed=3518877; DOI=10.3109/07357908609038260
Jorgen Fogh;
Human tumor lines for cancer research.
Cancer Invest. 4:157-184(1986)

PubMed=3708594
John R.W. Masters, Peter J. Hepburn, Lawrence Walker, Wilma J. Highman, Ludwik K. Trejdosiewicz, Susan Povey, Mohamed Parkar, Bridget T. Hill, Peter N. Riddle, Leonard Maurice Franks;
Tissue culture model of transitional cell carcinoma: characterization of twenty-two human urothelial cell lines.
Cancer Res. 46:3630-3636(1986)

PubMed=7656243; DOI=10.1016/0304-3835(95)03864-s
Shivendra V. Singh, Bing H. Xu, Vicram Gupta, Erling O. Emerson, Howard Allen Zaren, Jitesh P. Jani;
Characterization of a human bladder cancer cell line selected for resistance to BMY 25067, a novel analogue of mitomycin C.
Cancer Lett. 95:49-56(1995)

PubMed=8873383; DOI=10.1007/BF00295899
Walter M. Stadler, Olufunmilayo I. Olopade;
The 9p21 region in bladder cancer cell lines: large homozygous deletion inactivate the CDKN2, CDKN2B and MTAP genes.
Urol. Res. 24:239-244(1996)

PubMed=9850064
Isabel D.C. Markl, Peter A. Jones;
Presence and location of TP53 mutation determines pattern of CDKN2A/ARF pathway inactivation in bladder cancer.
Cancer Res. 58:5348-5353(1998)

PubMed=11416159; DOI=10.1073/pnas.121616198; PMCID=PMC35459
John R.W. Masters, Jim A. Thomson, Bernadette Daly-Burns, Yvonne A. Reid, Wilhelm Gerhard Dirks, Phil Packer, Lorraine H. Toji, Tadao Ohno, Hideyuki Tanabe, Colin Francis Arlett, Lloyd R. Kelland ...Show all 16 authors... , Maureen Harrison, Arvind K. Virmani, Timothy H. Ward, Karen L. Ayres, Paul G. Debenham; Show fewer authors
Short tandem repeat profiling provides an international reference standard for human cell lines.
Proc. Natl. Acad. Sci. U.S.A. 98:8012-8017(2001)

PubMed=12127398; DOI=10.1016/S0165-4608(01)00648-3
Jonathan C. Strefford, Debra M. Lillington, Martin Steggall, Tim M. Lane, Ahmad M.E. Nouri, Bryan D. Young, R. Timothy D. Oliver;
Novel chromosome findings in bladder cancer cell lines detected with multiplex fluorescence in situ hybridization.
Cancer Genet. Cytogenet. 135:139-146(2002)

PubMed=20215515; DOI=10.1158/0008-5472.CAN-09-3458; PMCID=PMC2881662
S. Michael Rothenberg, Gayatry Mohapatra, Miguel N. Rivera, Daniel Winokur, Patricia Greninger, Mai Nitta, Peter M. Sadow, Gaya Sooriyakumar, Brian W. Brannigan, Matthew J. Ulman, Rushika M. Perera ...Show all 22 authors... , Rui Wang, Angela Tam, Xiao-Jun Ma, Mark Erlander, Dennis C. Sgroi, James W. Rocco, Mark W. Lingen, Ezra E.W. Cohen, David Neil Louis, Jeffrey Settleman, Daniel Arie Haber; Show fewer authors
A genome-wide screen for microdeletions reveals disruption of polarity complex genes in diverse human cancers.
Cancer Res. 70:2158-2164(2010)

PubMed=22460905; DOI=10.1038/nature11003; PMCID=PMC3320027
Jordi Ginesta Barretina, Giordano Caponigro, Nicolas Stransky, Kavitha Venkatesan, Adam A. Margolin, Sungjoon Kim, Christopher J. Wilson, Joseph Lehar, Gregory V. Kryukov, Dmitriy Sonkin, Anupama Reddy ...Show all 61 authors... , Manway Liu, Lauren Murray, Michael F. Berger, John E. Monahan, Paula Morais, Jodi Meltzer, Adam Korejwa, Judit Jane-Valbuena, Felipa A. Mapa, Joseph Thibault, Eva Bric-Furlong, Pichai Raman, Aaron Shipway, Ingo H. Engels, Jill Cheng, Guo-Ying K. Yu, Jian-Jun Yu, Peter Aspesi Jr., Melanie de Silva, Kalpana Jagtap, Michael D. Jones, Li Wang, Charles Hatton, Emanuele Palescandolo, Supriya Gupta, Scott Mahan, Carrie Sougnez, Robert C. Onofrio, Ted Liefeld, Laura E. MacConaill, Wendy Winckler, Michael Reich, Nan-Xin Li, Jill P. Mesirov, Stacey B. Gabriel, Gad Getz, Kristin Ardlie, Vivien Chan, Vic E. Myer, Barbara L. Weber, Jeff Porter, Markus Warmuth, Peter Finan, Jennifer L. Harris, Matthew Langer Meyerson, Todd Robert Golub, Michael P. Morrissey, William Raj Sellers, Robert Schlegel, Levi Alexander Garraway; Show fewer authors
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.
Nature 483:603-607(2012)

PubMed=23401075; DOI=10.1002/path.4176
Ya-Nan Guo, Yvonne Chekaluk, Jian-Ming Zhang, Jin-Yan Du, Nathanael S. Gray, Chin-Lee Wu, David Joseph Kwiatkowski;
TSC1 involvement in bladder cancer: diverse effects and therapeutic implications.
J. Pathol. 230:17-27(2013)

PubMed=24367658; DOI=10.1371/journal.pone.0084411; PMCID=PMC3867501
Rebecca L. Ross, Julie E. Burns, Claire F. Taylor, Paul Mellor, Deborah H. Anderson, Margaret A. Knowles;
Identification of mutations in distinct regions of p85 alpha in urothelial cancer.
PLoS ONE 8:e84411.1-e84411.11(2013)

PubMed=24018021; DOI=10.1016/j.eururo.2013.08.052
Yves Allory, Willemien Beukers, Ana Sagrera, Marta Flandez, Miriam Marques, Mirari Marquez, Kirstin A. van der Keur, Lars Dyrskjot, Irene Lurkin, Marcel Vermeij, Alfredo Carrato ...Show all 24 authors... , Josep Lloreta, Jose A. Lorente, Enrique Carrillo-de-Santa-Pau, Roy G. Masius, Manolis Kogevinas, Ewout Willem Steyerberg, Angela A.G. van Tilborg, Cheno Abas, Torben Falck Orntoft, Tahlita C.M. Zuiverloon, Nuria Malats, Ellen C. Zwarthoff, Francisco X. Real; Show fewer authors
Telomerase reverse transcriptase promoter mutations in bladder cancer: high frequency across stages, detection in urine, and lack of association with outcome.
Eur. Urol. 65:360-366(2014)

PubMed=24035680; DOI=10.1016/j.eururo.2013.08.057
Carolyn D. Hurst, Fiona M. Platt, Margaret A. Knowles;
Comprehensive mutation analysis of the TERT promoter in bladder cancer and detection of mutations in voided urine.
Eur. Urol. 65:367-369(2014)

PubMed=25997541; DOI=10.1186/s12864-015-1450-3; PMCID=PMC4470036
Julie Earl, Daniel Rico, Enrique Carrillo-de-Santa-Pau, Benjamin Rodriguez-Santiago, Marinela Mendez-Pertuz, Herbert Auer, Gonzalo Gomez, Herbert Barton Grossman, David G. Pisano, Wolfgang A. Schulz, Luis A. Perez-Jurado ...Show all 16 authors... , Alfredo Carrato, Dan Theodorescu, Stephen Jacob Chanock, Alfonso Valencia, Francisco X. Real; Show fewer authors
The UBC-40 Urothelial Bladder Cancer cell line index: a genomic resource for functional studies.
BMC Genomics 16:403.1-403.16(2015)

PubMed=27270441; DOI=10.1038/onc.2016.172; PMCID=PMC5140783
Michael L. Nickerson, Nicolle Witte, Kate McGee Im, Sevilay Turan, Charles R. Owens, Kevin Misner, Shirley X. Tsang, Zhi-Ming Cai, Sen Wu, Michael Dean, James C. Costello, Dan Theodorescu;
Molecular analysis of urothelial cancer cell lines for modeling tumor biology and drug response.
Oncogene 36:35-46(2017)

PubMed=29732388; DOI=10.3233/BLC-180167; PMCID=PMC5929350
Tahlita C.M. Zuiverloon, Florus C. de Jong, James C. Costello, Dan Theodorescu;
Systematic review: characteristics and preclinical uses of bladder cancer cell lines.
Bladder Cancer 4:169-183(2018)

PubMed=30894373; DOI=10.1158/0008-5472.CAN-18-2747; PMCID=PMC6445675
Julie Dutil, Zhi-Hua Chen, Alvaro N.A. Monteiro, Jamie K. Teer, Steven A. Eschrich;
An interactive resource to probe genetic diversity and estimated ancestry in cancer cell lines.
Cancer Res. 79:1263-1273(2019)

PubMed=31068700; DOI=10.1038/s41586-019-1186-3; PMCID=PMC6697103
Mahmoud Ghandi, Franklin W. Huang, Judit Jane-Valbuena, Gregory V. Kryukov, Christopher C. Lo, E. Robert McDonald 3rd, Jordi Ginesta Barretina, Ellen T. Gelfand, Craig M. Bielski, Hao-Xin Li, Kevin Hu ...Show all 68 authors... , Alexander Y. Andreev-Drakhlin, Jaegil Kim, Julian M. Hess, Brian J. Haas, Francois Aguet, Barbara A. Weir, Michael V. Rothberg, Brenton R. Paolella, Michael Scott Lawrence, Rehan Akbani, Yi-Ling Lu, Hong L. Tiv, Prafulla C. Gokhale, Antoine de Weck, Ali Amin Mansour, Coyin Oh, Juliann Shih, Kevin Hadi, Yanay Rosen, Jonathan Bistline, Kavitha Venkatesan, Anupama Reddy, Dmitriy Sonkin, Manway Liu, Joseph Lehar, Joshua M. Korn, Dale A. Porter, Michael D. Jones, Javad Golji, Giordano Caponigro, Jordan E. Taylor, Caitlin M. Dunning, Amanda L. Creech, Allison C. Warren, James M. McFarland, Mahdi Zamanighomi, Audrey Kauffmann, Nicolas Stransky, Marcin Imielinski, Yosef E. Maruvka, Andrew D. Cherniack, Aviad Tsherniak, Francisca Vazquez, Jacob D. Jaffe, Andrew Alan Lane, David M. Weinstock, Cory M. Johannessen, Michael P. Morrissey, Frank Stegmeier, Robert Schlegel, William Chun Hahn, Gad Getz, Gordon B. Mills, Jesse S. Boehm, Todd Robert Golub, Levi Alexander Garraway, William Raj Sellers; Show fewer authors
Next-generation characterization of the Cancer Cell Line Encyclopedia.
Nature 569:503-508(2019)

Cross-references
Cell line collections (Providers) ATCC; HTB-3
CLS; 305111
Cell line databases/resources CLO; CLO_0008965
cancercelllines; CVCL_3599
CCRID; 3101HUMTCHu239
Cell_Model_Passport; SIDM00032
Cosmic-CLP; 1299051
DepMap; ACH-000839
IGRhCellID; SCaBER
LINCS_LDP; LCL-1540
Anatomy/cell type resources BTO; BTO_0003777
Biological sample resources BioSample; SAMN03472741
BioSample; SAMN10988312
CRISP screens repositories BioGRID_ORCS_Cell_line; 471
Chemistry resources ChEMBL-Cells; CHEMBL3307437
ChEMBL-Targets; CHEMBL614898
GDSC; 1299051
PharmacoDB; SCaBER_1351_2019
PubChem_Cell_line; CVCL_3599
Encyclopedic resources Wikidata; Q54952320
Experimental variables resources EFO; EFO_0002325
Gene expression databases ArrayExpress; E-MTAB-38
ArrayExpress; E-MTAB-2770
ArrayExpress; E-MTAB-3610
GEO; GSM136226
GEO; GSM887557
GEO; GSM888640
GEO; GSM1374862
GEO; GSM1374863
GEO; GSM1574562
GEO; GSM1670407
Polymorphism and mutation databases Cosmic; 687456
Cosmic; 715717
Cosmic; 760489
Cosmic; 845570
Cosmic; 923376
Cosmic; 925835
Cosmic; 928824
Cosmic; 943743
Cosmic; 1046689
Cosmic; 1285126
Cosmic; 1286000
Cosmic; 1927304
Cosmic; 1995625
Cosmic; 2037956
Cosmic; 2050461
Cosmic; 2686113
IARC_TP53; 375
LiGeA; CCLE_439
Progenetix; CVCL_3599
Sequence databases EGA; EGAS00001000978
Entry history
Entry creation04-Apr-2012
Last entry update10-Apr-2025
Version number43