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Cellminer is described in (Shankavaram et al., 2009). If you wish to cite the tool, please cite the application URL, http://discover.nci.nih.gov/cellminer. If you would like to cite any data sets listed below, use the corresponding citation information below.
Public data sets citations
- DNA: BAC aCGH
- DNA: Mutation
- DNA: Chromosomal aberrations: spectral karyotyping
- DNA: Bisulfite sequencing of E-cadherin promoter
- RNA: microRNA expression
- RNA: cDNA array
- RNA: Affy U133
- RNA: Affy U95
- RNA: Affy HU6800
- RNA: ABC Transporter (RT-PCR)
- RNA: ABC-Tox Chip
- RNA: Transporter Array
- RNA: Oncochip
- RNA: NCI60 Radiation
- Protein: Lysate array
- Drug: A118
- Drug: A1429
- Drug: A4463
Integrating data on DNA copy number with gene expression levels and drug sensitivities in the NCI-60 cell line panel
Kimberly J. Bussey, Koei Chin, Samir Lababidi, Mark Reimers, William C. Reinhold, Wen-Lin Kuo, Fuad Gwadry, Ajay, Hosein Kouros-Mehr, Jane Fridlyand, Ajay Jain, Colin Collins, Satoshi Nishizuka, Giovanni Tonon, Anna Roschke, Kristen Gehlhaus, Ilan Kirsch, Dominic A. Scudiero, Joe W. Gray and John N. Weinstein
Mol Cancer Ther. 2006 Apr;5(4):853-67.
Mutation analysis of 24 known cancer genes in the NCI-60 cell line set
Ogechi N. Ikediobi, Helen Davies, Graham Bignell, Sarah Edkins, Claire Stevens, Sarah O’Meara, Thomas Santarius, Tim Avis, Syd Barthorpe, Lisa Brackenbury, Gemma Buck, Adam Butler, Jody Clements, Jennifer Cole, Ed Dicks, Simon Forbes, Kristian Gray, Kelly Halliday, Rachel Harrison, Katy Hills, Jonathan Hinton, Chris Hunter, Andy Jenkinson, David Jones, Vivienne Kosmidou, Richard Lugg, Andrew Menzies, Tatiana Mironenko, Adrian Parker, Janet Perry, Keiran Raine, David Richardson, Rebecca Shepherd, Alex Small, Raffaella Smith, Helen Solomon, Philip Stephens, Jon Teague, Calli Tofts, Jennifer Varian, Tony Webb, Sofie West, Widaa, Andy Yates, William Reinhold ,John N. Weinstein, Michael R. Stratton, P. Andrew Futreal, Richard Wooster
Mol Cancer Ther. 2006;5:2606-2612
Karyotypic Complexity of the NCI-60 Drug-Screening Panel
Anna V. Roschke, Giovanni Tonon, Kristen S. Gehlhaus, Nicolas McTyre, Kimberly J. Bussey, Samir Lababidi, Dominic A. Scudiero, John N. Weinstein and Ilan R. Kirsch
Cancer Research 63, 8634-8647, December 15, 2003
Detailed DNA methylation profiles of the E-cadherin promoter in the NCI-60 cancer cells.
William C. Reinhold, Mark A. Reimers, Alika K. Maunakea, Sohyoung Kim, Samir Lababidi, Uwe Scherf, Uma T. Shankavaram, Micah S. Ziegler, Claudia Stewart, Hosein Kouros-Mehr, Hengmi Cui, Douglas Dolginow, Dominic A. Scudiero, Yves G. Pommier, David J. Munroe, Andrew P. Feinberg and John N. Weinstein
Mol Cancer Ther. 2007 Feb;6(2):391-403. Epub 2007 Feb 1.
MicroRNA expression profiles for the NCI-60 cancer cell panel.
Blower PE, Verducci JS, Lin S, Zhou J, Chung JH, Dai Z, Liu CG, Reinhold W, Lorenzi PL, Kaldjian EP, Croce CM,Weinstein JN, Sadee W.
Mol Cancer Ther 2007;6(5):1483-91
Transcript and protein expression profiles of the NCI-60 cancer cell panel: an integromic microarray study
Uma T. Shankavaram, William C. Reinhold, Satoshi Nishizuka, Sylvia Major, Daisaku Morita, Krishna K. Chary, Mark A. Reimers, Uwe Scherf, Ari Kahn, Douglas Dolginow, Jeffrey Cossman, Eric P. Kaldjian, Dominic A. Scudiero, Emanuel Petricoin, Lance Liotta, Jae K. Lee, John N. Weinstein
Mol Cancer Ther 2007;6(3):820-32
A gene expression database for the molecular pharmacology of cancer
Scherf U, Ross DT, Waltham M, Smith LH, Lee JK, Tanabe L, Kohn KW, Reinhold WC, Myers TG, Andrews DT, Scudiero DA, Eisen MB, Sausville EA, Pommier Y, Botstein D, Brown PO, Weinstein JN
Nature Genetics, 2000 March, 24(3):236-244
Systematic variation in gene expression patterns in human cancer cell lines
Ross, D.T., Scherf, U., Eisen, M.B., Perou, C.M., Spellman, P., Iyer, V., Jeffrey, S.S., Van de Rijn, M., Waltham, M., Pergamenschikov, A., Lee, J.C.F., Lashkari, D., Shalon, D., Myers, T.G., Weinstein, J.N., Botstein, D., and Brown, P.O.
Nature Genetics, 2000 March, 24(3):227-234
Transcript and protein expression profiles of the NCI-60 cancer cell panel: an integromic microarray study
Uma T. Shankavaram, William C. Reinhold, Satoshi Nishizuka, Sylvia Major, Daisaku Morita, Krishna K. Chary, Mark A. Reimers, Uwe Scherf, Ari Kahn, Douglas Dolginow, Jeffrey Cossman, Eric P. Kaldjian, Dominic A. Scudiero, Emanuel Petricoin, Lance Liotta, Jae K. Lee, John N. Weinstein
Mol Cancer Ther 2007;6(3):820-32
Transcript and protein expression profiles of the NCI-60 cancer cell panel: an integromic microarray study
Uma T. Shankavaram, William C. Reinhold, Satoshi Nishizuka, Sylvia Major, Daisaku Morita, Krishna K. Chary, Mark A. Reimers, Uwe Scherf, Ari Kahn, Douglas Dolginow, Jeffrey Cossman, Eric P. Kaldjian, Dominic A. Scudiero, Emanuel Petricoin, Lance Liotta, Jae K. Lee, John N. Weinstein
Mol Cancer Ther 2007;6(3):820-32
Chemosensitivity Prediction by Transcriptional Profiling
Staunton JE, Slonim DK, Coller HA, Tamayo P, Angelo MJ, Park J, Scherf U, Lee JK, Reinhold WO, Weinstein JN, Mesirov JP, Lander ES, Golub TR.
Proc Natl Acad Sci U S A 2001 Sep 11;98(19):10787-92
Predicting drug sensitivity and resistance: Profiling ABC transporter genes in cancer cells
Gergely Szakács, Jean-Philippe Annereau, Samir Lababidi, Uma Shankavaram, Angela Arciello, Kimberly J. Bussey, William Reinhold, Yanping Guo, Gary D. Kruh, Mark Reimers, John N. Weinstein, and Michael M. Gottesman
2004 Cell PressPII:Section: Cancer Cell, Vol 6, 129-137, August 2004
Analysis of ATP-Binding Cassette Transporter Expression in Drug-Selected Cell Lines by a Microarray Dedicated to Multidrug Resistance
Jean-Philippe Annereau, Gergely Szakács, Charles J. Tucker, Angela Arciello, Carol Cardarelli, Jennifer Collins, Sherry Grissom, Barry R. Zeeberg, William Reinhold, John N. Weinstein, Yves Pommier, Richard S. Paules, and Michael M. Gottesman
Mol Pharmacol 66:1397-1405, 2004
Membrane Transporters and Channels: Role of the Transportome in Cancer Chemosensitivity and Chemoresistance
Ying Huang, Pascale Anderle, Kimberly J. Bussey, Catalin Barbacioru, Uma Shankavaram, Zunyan Dai, William C. Reinhold, Audrey Papp, John N. Weinstein and Wolfgang Sadée
Cancer Res. 2004 Jun 15;64(12):4294-301
Apoptotic Susceptibility of Cancer Cells Selected for Camptothecin Resistance: Gene Expression Profiling, Functional Analysis, and Molecular Interaction Mapping
William C. Reinhold, Hosein Kouros-Mehr, Kurt W. Kohn, Alika K. Maunakea, Samir Lababidi, Anna Roschke, Kristen Stover, Jes Alexander, Panayotis Pantazis, Lance Miller, Edison Liu, Ilan R. Kirsch, Yoshimasa Urasaki, Yves Pommier, and John N. Weinstein
Cancer Res 2003 Mar 1;63(5):1000-11
Integrating global gene expression and radiation survival parameters across the 60 cell lines of the National Cancer Institute Anticancer Drug Screen.
Sally A. Amundson, Khanh T. Do, Lisa C. Vinikoor, R. Anthony Lee, Christine A. Koch-Paiz, Jaeyong Ahn, Mark Reimers, Yidong Chen, Dominic A. Scudiero, John N. Weinstein, Jeffrey M. Trent, Michael L. Bittner, Paul S. Meltzer and Albert J. Fornace, Jr.
Cancer Res 2008 Jan 15;68(2):415-24
Proteomic Profiling of the NCI-60 Cancer Cell Lines Using New High-density Reverse-phase Lysate Microarrays
Satoshi Nishizuka, Lu Charboneau, Lynn Young, Sylvia Major, William C. Reinhold, Mark Waltham, Hosein Kouros-Mehr, Kimberly J. Bussey, Jae K. Lee, Virginia Espina, Peter J. Munson, Emanuel Petricoin III, Lance A. Liotta , and John N. Weinstein
Proc Natl Acad Sci USA 2003 November 25th; 100(24): 14229-14234 [first 52 anitbodies]
Transcript and protein expression profiles of the NCI-60 cancer cell panel: an integromic microarray study
Uma T. Shankavaram, William C. Reinhold, Satoshi Nishizuka, Sylvia Major, Daisaku Morita, Krishna K. Chary, Mark A. Reimers, Uwe Scherf, Ari Kahn, Douglas Dolginow, Jeffrey Cossman, Eric P. Kaldjian, Dominic A. Scudiero, Emanuel Petricoin, Lance Liotta, Jae K. Lee, John N. Weinstein
Mol Cancer Ther 2007;6(3):820-32 [entire set of anitbodies]
Integrating data on DNA copy number with gene expression levels and drug sensitivities in the NCI-60 cell line panel
Kimberly J. Bussey, Koei Chin, Samir Lababidi, Mark Reimers, William C. Reinhold, Wen-Lin Kuo, Fuad Gwadry, Ajay, Hosein Kouros-Mehr, Jane Fridlyand, Ajay Jain, Colin Collins, Satoshi Nishizuka, Giovanni Tonon, Anna Roschke, Kristen Gehlhaus, Ilan Kirsch, Dominic A. Scudiero, Joe W. Gray and John N. Weinstein
Mol Cancer Ther. 2006 Apr;5(4):853-67.
Analysis of ATP-Binding Cassette Transporter Expression in Drug-Selected Cell Lines by a Microarray Dedicated to Multidrug Resistance
Jean-Philippe Annereau, Gergely Szakács, Charles J. Tucker, Angela Arciello, Carol Cardarelli, Jennifer Collins, Sherry Grissom, Barry R. Zeeberg, William Reinhold, John N. Weinstein, Yves Pommier, Richard S. Paules, and Michael M. Gottesman
Mol Pharmacol 66:1397-1405, 2004
Pharmacogenomic analysis: correlating molecular substructure classes with microarray gene expression data
P E Blower, C Yang, M A Fligner, J S Verducci, L Yu, S Richman and J N Weinstein
The Pharmacogenomics Journal (Nature) 2002; 2:259-271.
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CellMiner™ is a development of the Genomics and Bioinformatics Group, Laboratory of Molecular Pharmacology (LMP), Center for Cancer Research (CCR), National Cancer Institute (NCI). Please email us with any problems, questions or feedback on the tool.