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Kerby Shedden

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Oligonucleotide Array Sequence Analysis

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Chemicals & Drugs

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Proteomics

Genes & Molecular Sequences

Single Nucleotide Polymorphism

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Publications

TOP 3
Brian Parkin; Diane Roulston; Kerby Shedden; Peter Ouillette; Jennifer Keller; Cindy Lam; Cheng Li; Yifeng Li; Sami Malek
Clonal evolution and devolution after chemotherapy in adult acute myelogenous leukemia.
Peter D Ouillette; Kerby Shedden; Cheng Li; Sami N Malek
Analysis of acquired genomic copy number aberrations and regions of loss of heterozygosity in acute myelogenous leukemia genomes using Affymetrix SNP 6.0 arrays and supporting software tools.
Peter Ouillette; Rita Shaknovich; Kerby Shedden; Jinghui Li; Yifeng Li; Ari Melnick; Sami Malek
Incidence and clinical implications of ATM aberrations in chronic lymphocytic leukemia.

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All Publications

2013: Brian Parkin; Diane Roulston; Kerby Shedden; Peter Ouillette; Jennifer Keller; Cindy Lam; Cheng Li; Yifeng Li; Sami Malek
Clonal evolution and devolution after chemotherapy in adult acute myelogenous leukemia.
Blood 2013;121(2):369-77.
2013: Peter D Ouillette; Kerby Shedden; Cheng Li; Sami N Malek
Analysis of acquired genomic copy number aberrations and regions of loss of heterozygosity in acute myelogenous leukemia genomes using Affymetrix SNP 6.0 arrays and supporting software tools.
Methods in molecular biology (Clifton, N.J.) 2013;973():99-119.
2012: Peter Ouillette; Rita Shaknovich; Kerby Shedden; Jinghui Li; Yifeng Li; Ari Melnick; Sami Malek
Incidence and clinical implications of ATM aberrations in chronic lymphocytic leukemia.
Genes, chromosomes & cancer 2012;51(12):1125-32.
2012: Matthew H Stenmark; Randall TenHaken; Shuanghu Yuan; Xu-Wei Cai; James A Hayman; Theodore S Lawrence; Timothy Ritter; Kerby Shedden; Fengming P Kong
Combining physical and biologic parameters to predict radiation-induced lung toxicity in patients with non-small-cell lung cancer treated with definitive radiation therapy.
International journal of radiation oncology, biology, physics 2012;84(2):e217-22.
2012: Kerby Shedden; P Ouillette; Y Li; Sami Malek
Characteristics of chronic lymphocytic leukemia with somatically acquired mutations in NOTCH1 exon 34.
Leukemia 2012;26(5):1108-10.
2012: Joonkoo Park; Kerby Shedden; Thad A Polk
Correlation and heritability in neuroimaging datasets: a spatial decomposition approach with application to an fMRI study of twins.
NeuroImage 2012;59(2):1132-42.
2012: Sirarat Sarntivijai; Kerby Shedden; Zuoshuang Xiang; Brian D Athey; Howard Markel; Gilbert S Omenn; Yongqun He
Ontology-based combinatorial comparative analysis of adverse events associated with killed and live influenza vaccines.
PloS one 2012;7(11):e49941.
2011: Peter Ouillette; Sajid Shakhan; Kerby Shedden; Roxane Collins; Cheng Li; Jinghui Li; Sami Malek
The prognostic significance of various 13q14 deletions in chronic lymphocytic leukemia.
Clinical cancer research : an official journal of the American Association for Cancer Research 2011;17(21):6778-90.
2011: Nan Zheng; Kerby Shedden; Hobart Ng Tsai; Xinyuan Zhang; Gus R Rosania
The subcellular distribution of small molecules: a meta-analysis.
Molecular pharmaceutics 2011;8(5):1611-8.
2011: Peter Ouillette; Edward M Peres; Sajid Shakhan; Kerby Shedden; Moshe Talpaz; Roxane Collins; Mark S Kaminski; Lisa Ann Kujawski; Cheng Li; Jinghui Li; Sami Malek
Acquired genomic copy number aberrations and survival in chronic lymphocytic leukemia.
Blood 2011;118(11):3051-61.
2011: Xu-Wei Cai; Mary A Davis; Xiao-Long Fu; Theodore S Lawrence; David M Lubman; Kerby Shedden; Cong-Ying Xie; Lu-Ying Xu; Shang-Hu Yuan; Fengming P Kong
Baseline plasma proteomic analysis to identify biomarkers that predict radiation-induced lung toxicity in patients receiving radiation for non-small cell lung cancer.
Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer 2011;6(6):1073-8.
2011: Na Yang; Shun Feng; Kerby Shedden; Xiaolei Xie; Yashu Liu; Charles J Rosser; David M Lubman; Steven Goodison
Urinary glycoprotein biomarker discovery for bladder cancer detection using LC/MS-MS and label-free quantification.
Clinical cancer research : an official journal of the American Association for Cancer Research 2011;17(10):3349-59.
2011: Zhenxin Lin; Diane M Simeone; Michelle A Anderson; Randall E Brand; Xiaolei Xie; Kerby Shedden; Mack T Ruffin; David M Lubman
Mass spectrometric assay for analysis of haptoglobin fucosylation in pancreatic cancer.
Journal of proteome research 2011;10(5):2602-11.
2011: Kamlai Saiya-Cork; Roxane Collins; Brian Parkin; Peter Ouillette; Erlene Kuizon; Lisa Ann Kujawski; Harry P Erba; Erica Campagnaro; Kerby Shedden; Mark S Kaminski; Sami Malek
A pathobiological role of the insulin receptor in chronic lymphocytic leukemia.
Clinical cancer research : an official journal of the American Association for Cancer Research 2011;17(9):2679-92.
2011: Katja Karg; Margit Burmeister; Kerby Shedden; Srijan Sen
The serotonin transporter promoter variant (5-HTTLPR), stress, and depression meta-analysis revisited: evidence of genetic moderation.
Archives of general psychiatry 2011;68(5):444-54.
2011: Yan V Sun; Wei Zhao; Kerby Shedden; Sharon L R Kardia
Identification of genes associated with complex traits by testing the genetic dissimilarity between individuals.
BMC proceedings 2011;5 Suppl 9():S120.
2010: Brian Parkin; Harry P Erba; Peter Ouillette; Diane Roulston; Anjali Purkayastha; Judith E Karp; Moshe Talpaz; Lisa Ann Kujawski; Sajid Shakhan; Cheng Li; Kerby Shedden; Sami Malek
Acquired genomic copy number aberrations and survival in adult acute myelogenous leukemia.
Blood 2010;116(23):4958-67.
2010: Brian Parkin; Peter Ouillette; Yin Wang; Yan Liu; Whitney Wright; Diane Roulston; Anjali Purkayastha; Amanda Dressel; Judith E Karp; Paula L Bockenstedt; Ammar Al-Zoubi; Moshe Talpaz; Lisa Ann Kujawski; Yang Liu; Kerby Shedden; Sajid Shakhan; Cheng Li; Harry P Erba; Sami Malek
NF1 inactivation in adult acute myelogenous leukemia.
Clinical cancer research : an official journal of the American Association for Cancer Research 2010;16(16):4135-47.
2010: Jianting Long; Brian Parkin; Peter Ouillette; Dale Bixby; Kerby Shedden; Harry P Erba; Shaomeng Wang; Sami Malek
Multiple distinct molecular mechanisms influence sensitivity and resistance to MDM2 inhibitors in adult acute myelogenous leukemia.
Blood 2010;116(1):71-80.
2010: Lan Dai; Chen Li; Kerby Shedden; Cheong J Lee; Chenwei Li; HuyVuong Quoc; Diane M Simeone; David M Lubman
Quantitative proteomic profiling studies of pancreatic cancer stem cells.
Journal of proteome research 2010;9(7):3394-402.
2010: Xu-Wei Cai; Kerby Shedden; Xiaoping Ao; Mary Davis; Xiao-Long Fu; Theodore S Lawrence; David M Lubman; Fengming P Kong
Plasma proteomic analysis may identify new markers for radiation-induced lung toxicity in patients with non-small-cell lung cancer.
International journal of radiation oncology, biology, physics 2010;77(3):867-76.
2010: Peter Ouillette; Samuel Fossum; Brian Parkin; L Ding; Paula L Bockenstedt; Ammar Al-Zoubi; Kerby Shedden; Sami Malek
Aggressive chronic lymphocytic leukemia with elevated genomic complexity is associated with multiple gene defects in the response to DNA double-strand breaks.
Clinical cancer research : an official journal of the American Association for Cancer Research 2010;16(3):835-47.
2009: Wenjun Ju; Felix Eichinger; Markus Bitzer; Jun Oh; Shannon McWeeney; Celine C Berthier; Kerby Shedden; Clemens D Cohen; Anna Henger; Stefanie Krick; Jeffrey B Kopp; Christian J Stoeckert; Steven Dikman; Bernd Schroppel; David B Thomas; Detlef Schlondorff; Matthias Kretzler; Erwin P Böttinger
Renal gene and protein expression signatures for prediction of kidney disease progression.
The American journal of pathology 2009;174(6):2073-85.
2009: Kerby Shedden; Qian Li; Fangyi Liu; Young Tae Chang; Gus R Rosania
Machine vision-assisted analysis of structure-localization relationships in a combinatorial library of prospective bioimaging probes.
Cytometry. Part A : the journal of the International Society for Analytical Cytology 2009;75(6):482-93.
2009: Lan Dai; Chen Li; Kerby Shedden; David E Misek; David M Lubman
Comparative proteomic study of two closely related ovarian endometrioid adenocarcinoma cell lines using cIEF fractionation and pathway analysis.
Electrophoresis 2009;30(7):1119-31.
2009: Yanfei Wang; Rong Wu; Kathleen R Cho; Dafydd Thomas; Gabrielle Gossner; J Rebecca Liu; Thomas J Giordano; Kerby Shedden; David E Misek; David M Lubman
Differential protein mapping of ovarian serous adenocarcinomas: identification of potential markers for distinct tumor stage.
Journal of proteome research 2009;8(3):1452-63.
2009: Chen Li; Diane M Simeone; Dean E Brenner; Michelle A Anderson; Kerby Shedden; Mack T Ruffin; David M Lubman
Pancreatic cancer serum detection using a lectin/glyco-antibody array method.
Journal of proteome research 2009;8(2):483-92.
2009: Yan V Sun; Kerby Shedden; Ji Zhu; Nam-Hee Choi; Sharon L R Kardia
Identification of correlated genetic variants jointly associated with rheumatoid arthritis using ridge regression.
BMC proceedings 2009;3 Suppl 7():S67.
2009: Weijun Luo; Michael S Friedman; Kerby Shedden; Kurt D Hankenson; Peter J Woolf
GAGE: generally applicable gene set enrichment for pathway analysis.
BMC bioinformatics 2009;10():161.
2009: Newaj M Abdullah; Gus R Rosania; Kerby Shedden
Selective targeting of tumorigenic cancer cell lines by microtubule inhibitors.
PloS one 2009;4(2):e4470.
2008: Lisa Ann Kujawski; Peter Ouillette; Harry P Erba; Chris Saddler; Andrzej J Jakubowiak; Mark S Kaminski; Kerby Shedden; Sami Malek
Genomic complexity identifies patients with aggressive chronic lymphocytic leukemia.
Blood 2008;112(5):1993-2003.
2008: Adam C Lee; Kerby Shedden; Gustavo R Rosania; Gordon M Crippen
Data mining the NCI60 to predict generalized cytotoxicity.
Journal of chemical information and modeling 2008;48(7):1379-88.
2008: Yinghua Qiu; Tasneem H Patwa; Li Xu; Kerby Shedden; David E Misek; Missy Tuck; Gracie Jin; Mack T Ruffin; D Kim Turgeon; Sapna Synal; Robert Bresalier; Norman Marcon; Dean E Brenner; David M Lubman
Plasma glycoprotein profiling for colorectal cancer biomarker identification by lectin glycoarray and lectin blot.
Journal of proteome research 2008;7(4):1693-703.
2008: Peter Ouillette; Harry P Erba; Lisa Ann Kujawski; Mark S Kaminski; Kerby Shedden; Sami Malek
Integrated genomic profiling of chronic lymphocytic leukemia identifies subtypes of deletion 13q14.
Cancer research 2008;68(4):1012-21.
2008: Robert W Cho; Xinhao Wang; Maximilian Diehn; Kerby Shedden; Grace Chen; Gavin Sherlock; Austin Gurney; John Lewicki; Michael F Clarke
Isolation and molecular characterization of cancer stem cells in MMTV-Wnt-1 murine breast tumors.
Stem cells (Dayton, Ohio) 2008;26(2):364-71.
2008: Chris Saddler; Peter Ouillette; Lisa Ann Kujawski; Sanjeev Shangary; Moshe Talpaz; Mark S Kaminski; Harry P Erba; Kerby Shedden; Shaomeng Wang; Sami Malek
Comprehensive biomarker and genomic analysis identifies p53 status as the major determinant of response to MDM2 inhibitors in chronic lymphocytic leukemia.
Blood 2008;111(3):1584-93.
2007: Stephen Cooper; Kerby Shedden
Microarrays and the relationship of mRNA variation to protein variation during the cell cycle.
Journal of theoretical biology 2007;249(3):574-81.
2007: Gus R Rosania; Gordon M Crippen; Peter Woolf; David States; Kerby Shedden
A cheminformatic toolkit for mining biomedical knowledge.
Pharmaceutical research 2007;24(10):1791-802.
2007: Jung H Kim; Saravana M Dhanasekaran; Rohit Mehra; Scott A Tomlins; Wenjuan Gu; Jianjun Yu; Chandan Kumar; Xuhong Cao; Atreya Dash; Lei Wang; Debashis Ghosh; Kerby Shedden; James E Montie; Mark A Rubin; Kenneth J Pienta; Rajal B Shah; Arul M Chinnaiyan
Integrative analysis of genomic aberrations associated with prostate cancer progression.
Cancer research 2007;67(17):8229-39.
2007: Charles W Ross; Peter D Ouillette; Chris M Saddler; Kerby Shedden; Sami Malek
Comprehensive analysis of copy number and allele status identifies multiple chromosome defects underlying follicular lymphoma pathogenesis.
Clinical cancer research : an official journal of the American Association for Cancer Research 2007;13(16):4777-85.
2007: Jia Zhao; Andrew C Chang; Chen Li; Kerby Shedden; Dafydd Thomas; David E Misek; Arun Prasad Manoharan; Thomas J Giordano; David G Beer; David M Lubman
Comparative proteomics analysis of Barrett metaplasia and esophageal adenocarcinoma using two-dimensional liquid mass mapping.
Molecular & cellular proteomics : MCP 2007;6(6):987-99.
2007: Jia Zhao; Tasneem H Patwa; Weilian Qiu; Kerby Shedden; Robert Hinderer; David E Misek; Michelle A Anderson; Diane M Simeone; David M Lubman
Glycoprotein microarrays with multi-lectin detection: unique lectin binding patterns as a tool for classifying normal, chronic pancreatitis and pancreatic cancer sera.
Journal of proteome research 2007;6(5):1864-74.
2007: Rui Liu; Xinhao Wang; Grace Chen; Piero Dalerba; Austin Gurney; Timothy Hoey; Gavin Sherlock; John Lewicki; Kerby Shedden; Michael F Clarke
The prognostic role of a gene signature from tumorigenic breast-cancer cells.
The New England journal of medicine 2007;356(3):217-26.
2006: Xinyuan Zhang; Kerby Shedden; Gus R Rosania
A cell-based molecular transport simulator for pharmacokinetic prediction and cheminformatic exploration.
Molecular pharmaceutics 2006;3(6):704-16.
2006: Yi Zhu; Rong Wu; Navneet Sangha; Chul Yoo; Kathleen R Cho; Kerby Shedden; Hidetaka Katabuchi; David M Lubman
Classifications of ovarian cancer tissues by proteomic patterns.
Proteomics 2006;6(21):5846-56.
2006: Yanfei Wang; Rong Wu; Kathleen R Cho; Kerby Shedden; Timothy J Barder; David M Lubman
Classification of cancer cell lines using an automated two-dimensional liquid mapping method with hierarchical clustering techniques.
Molecular & cellular proteomics : MCP 2006;5(1):43-52.
2005: Thomas J Giordano; Rork Kuick; Dafydd Thomas; David E Misek; Michelle Vinco; Donita Sanders; Zhaowen Zhu; Raffaele Ciampi; Michael H Roh; Kerby Shedden; Paul G Gauger; Gerard M Doherty; Norman W Thompson; Samir Hanash; Ronald J Koenig; Yuri E Nikiforov
Molecular classification of papillary thyroid carcinoma: distinct BRAF, RAS, and RET/PTC mutation-specific gene expression profiles discovered by DNA microarray analysis.
Oncogene 2005;24(44):6646-56.
2005: Jocelyn E Wiggins; Meera Goyal; Silja K Sanden; Bryan L Wharram; Kerby Shedden; David E Misek; Rork Kuick; Roger C Wiggins
Podocyte hypertrophy, "adaptation," and "decompensation" associated with glomerular enlargement and glomerulosclerosis in the aging rat: prevention by calorie restriction.
Journal of the American Society of Nephrology : JASN 2005;16(10):2953-66.
2005: Kerby Shedden; Malti P Kshirsagar; Donald R Schwartz; Rong Wu; Hongfeng Yu; David E Misek; Samir Hanash; Hidetaka Katabuchi; Lora Hedrick Ellenson; Eric R Fearon; Kathleen R Cho
Histologic type, organ of origin, and Wnt pathway status: effect on gene expression in ovarian and uterine carcinomas.
Clinical cancer research : an official journal of the American Association for Cancer Research 2005;11(6):2123-31.
2005: Kerby Shedden; Wei Chen; Rork Kuick; Debashis Ghosh; James Macdonald; Kathleen R Cho; Thomas J Giordano; Stephen B Gruber; Eric R Fearon; Jeremy Taylor; Samir Hanash
Comparison of seven methods for producing Affymetrix expression scores based on False Discovery Rates in disease profiling data.
BMC bioinformatics 2005;6():26.
2004: Vivien Y Chen; Sonya M Khersonsky; Kerby Shedden; Young Tae Chang; Gus R Rosania
System dynamics of subcellular transport.
Molecular pharmaceutics 2004;1(6):414-25.
2004: Kerby Shedden; Gus R Rosania
Exploratory chemoinformatic analysis of cell type-selective anticancer drug targeting.
Molecular pharmaceutics 2004;1(4):267-80.
2004: Kerby Shedden
Confidence levels for the comparison of microarray experiments.
Statistical applications in genetics and molecular biology 2004;3():Article32.
2003: Guoan Chen; Tarek G Gharib; Hong Wang; Chiang-Ching Huang; Rork Kuick; Dafydd Thomas; Kerby Shedden; David E Misek; Jeremy Taylor; Thomas J Giordano; Sharon L R Kardia; Mark D Iannettoni; John Yee; Philip J Hogg; Mark B Orringer; Samir M Hanash; David G Beer
Protein profiles associated with survival in lung adenocarcinoma.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(23):13537-42.
2003: Kerby Shedden; Julie Dumond; Young Tae Chang; Gus R Rosania
Chemoinformatic analysis of a supertargeted combinatorial library of styryl molecules.
Journal of chemical information and computer sciences 2003;43(6):2068-80.
2003: Kerby Shedden; Jeremy Taylor; Thomas J Giordano; Rork Kuick; David E Misek; Gad Rennert; Donald R Schwartz; Stephen B Gruber; Craig D Logsdon; Diane M Simeone; Sharon L R Kardia; Joel K Greenson; Kathleen R Cho; David G Beer; Eric R Fearon; Samir Hanash
Accurate molecular classification of human cancers based on gene expression using a simple classifier with a pathological tree-based framework.
The American journal of pathology 2003;163(5):1985-95.
2003: Kerby Shedden; Xue Tao Xie; Parthapratim Chandaroy; Young Tae Chang; Gus R Rosania
Expulsion of small molecules in vesicles shed by cancer cells: association with gene expression and chemosensitivity profiles.
Cancer research 2003;63(15):4331-7.
2003: Kerby Shedden; Leroy B Townsend; John C Drach; Gus R Rosania
A rational approach to personalized anticancer therapy: chemoinformatic analysis reveals mechanistic gene-drug associations.
Pharmaceutical research 2003;20(6):843-7.
2003: Donald R Schwartz; Rong Wu; Sharon L R Kardia; Al Levin; Chiang-Ching Huang; Kerby Shedden; Rork Kuick; David E Misek; Samir M Hanash; Jeremy Taylor; Heather Reed; Neali Hendrix; Yali Zhai; Eric R Fearon; Kathleen R Cho
Novel candidate targets of beta-catenin/T-cell factor signaling identified by gene expression profiling of ovarian endometrioid adenocarcinomas.
Cancer research 2003;63(11):2913-22.
2003: Guoan Chen; Hong Wang; Tarek G Gharib; Chiang-Ching Huang; Dafydd Thomas; Kerby Shedden; Rork Kuick; Jeremy Taylor; Sharon L R Kardia; David E Misek; Thomas J Giordano; Mark D Iannettoni; Mark B Orringer; Samir M Hanash; David G Beer
Overexpression of oncoprotein 18 correlates with poor differentiation in lung adenocarcinomas.
Molecular & cellular proteomics : MCP 2003;2(2):107-16.
2003: George Michailidis; Kerby Shedden
The application of rule-based methods to class prediction problems in genomics.
Journal of computational biology : a journal of computational molecular cell biology 2003;10(5):689-98.
2002: Tarek G Gharib; Guoan Chen; Hong Wang; Chiang-Ching Huang; Michael S Prescott; Kerby Shedden; David E Misek; Dafydd Thomas; Thomas J Giordano; Jeremy Taylor; Sharon L R Kardia; John Yee; Mark B Orringer; Samir Hanash; David G Beer
Proteomic analysis of cytokeratin isoforms uncovers association with survival in lung adenocarcinoma.
Neoplasia (New York, N.Y.) 2002;4(5):440-8.
2002: Donald R Schwartz; Sharon L R Kardia; Kerby Shedden; Rork Kuick; George Michailidis; Jeremy Taylor; David E Misek; Rong Wu; Yali Zhai; Danielle M Darrah; Heather Reed; Lora Hedrick Ellenson; Thomas J Giordano; Eric R Fearon; Samir M Hanash; Kathleen R Cho
Gene expression in ovarian cancer reflects both morphology and biological behavior, distinguishing clear cell from other poor-prognosis ovarian carcinomas.
Cancer research 2002;62(16):4722-9.
2002: Guoan Chen; Tarek G Gharib; Chiang-Ching Huang; Dafydd Thomas; Kerby Shedden; Jeremy Taylor; Sharon L R Kardia; David E Misek; Thomas J Giordano; Mark D Iannettoni; Mark B Orringer; Samir M Hanash; David G Beer
Proteomic analysis of lung adenocarcinoma: identification of a highly expressed set of proteins in tumors.
Clinical cancer research : an official journal of the American Association for Cancer Research 2002;8(7):2298-305.
2002: Kerby Shedden; Stephen Cooper
Analysis of cell-cycle gene expression in Saccharomyces cerevisiae using microarrays and multiple synchronization methods.
Nucleic acids research 2002;30(13):2920-9.
2002: Kerby Shedden; Stephen Cooper
Analysis of cell-cycle-specific gene expression in human cells as determined by microarrays and double-thymidine block synchronization.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(7):4379-84.
2001: Thomas J Giordano; Kerby Shedden; Donald R Schwartz; Rork Kuick; Jeremy Taylor; N Lee; David E Misek; Joel K Greenson; Sharon L R Kardia; David G Beer; Gad Rennert; Kathleen R Cho; Stephen B Gruber; Eric R Fearon; Samir Hanash
Organ-specific molecular classification of primary lung, colon, and ovarian adenocarcinomas using gene expression profiles.
The American journal of pathology 2001;159(4):1231-8.