Selected Publications
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Cheng AS, Culhane AC, Chan MW, Venkataramu CR, Ehrich M, Nasir A,
Rodriguez BA, Liu J, Yan PS, Quackenbush J, Nephew KP, Yeatman TJ, Huang TH
Epithelial
progeny of estrogen-exposed breast progenitor cells display a cancer-like methylome.
Cancer Res. 2008 Mar 15;68(6):1786-96.
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Aryee, M, Quackenbush J
An Optimized Predictive Strategy for Interactome Mapping
Submitted
Format: zip, size: 1.6M.
The zip file contains the simulation code and the datasets used in the paper as well as a README
describing the contents.
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Danley PD, Mullen SP, Liu F, Nene V, Quackenbush J, Shaw KL
A cricket Gene Index: a genomic resource for studying neurobiology, speciation, and molecular evolution.
BMC Genomics. 2007 Apr 25;8:109.
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Mar JC, Rubio R, Quackenbush J.
Inferring steady state single-cell gene expression distributions from analysis of mesoscopic samples.
Genome Biol. 2006;7(12):R119.
Additional file 1 Format: zip, size: 19MB.
A ZIP file containing the qRT-PCR data analyzed in this
manuscript, the software (as R code) used to perform the analysis and produce the figures
presented, and instructions on how to install R and perform the analysis as well as a
"README" that explicitly describes each file in the .zip archive.
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Chittenden TW, Culhane AC, Howe EA, Sultana R, Taylor JM, Holmes C, Quackenbush J.
Somatic Mutation of TGF-β1 Regulated Genes in Human Cancers
Submitted.
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Chen T, Yang I, Irby R, Shain KH, Wang HG, Quackenbush J, Coppola D, Cheng JQ, Yeatman TJ.
Regulation of caspase expression and apoptosis by adenomatous polyposis coli
Cancer Res. Aug 1;63(15):4368-74 2003.
Supporting Materials
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Agrawal D, Chen T, Irby R, Quackenbush J, Chambers AF, Szabo M, Coppola D, Yeatman TJ.
Osteopontin Identified as Lead Marker of Colon Cancer Progression Using Expression Profiling on Pooled Samples
J Natl Cancer Inst. 2002 Apr 3;94(7):513-21.
Supporting Materials
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Hegde P, Qi R, Gaspard R, Abernathy K, Dharap S, Earle-Hughes J, Gay C, Nwokekeh NU, Chen T, Saeed AI, Sharov V, Lee NH, Yeatman TJ, and Quackenbush J.
Identification of tumor markers in models of human colorectal cancer using a 19,200 element cDNA microarray.
Cancer Res. Nov 1, 2001.
Supporting Materials:
TABLE
Slide Map
Protocols and Standard Operating Procedures
