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Papers authored by Brown PO

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Concordant regulation of translation and mRNA abundance for hundreds of targets of a human microRNA.

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Hendrickson DG, Hogan DJ, McCullough HL, Myers JW, Herschlag D, Ferrell JE, and Brown PO

PLoS biology 7(11):e1000238, 2009 Nov - Who cited this? | PubMed ID: 19901979 | Fulltext

The preclinical natural history of serous ovarian cancer: defining the target for early detection.

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Brown PO and Palmer C

PLoS medicine 6(7):e1000114, 2009 Jul - Who cited this? | PubMed ID: 19636370 | Fulltext

Diverse RNA-Binding Proteins Interact with Functionally Related Sets of RNAs, Suggesting an Extensive Regulatory System.

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Hogan DJ, Riordan DP, Gerber AP, Herschlag D, and Brown PO

PLoS biology 6(10):e255, 2008 Oct 28 - Who cited this? | PubMed ID: 18959479 | Fulltext

Systematic identification of mRNAs recruited to argonaute 2 by specific microRNAs and corresponding changes in transcript abundance.

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Hendrickson DG, Hogan DJ, Herschlag D, Ferrell JE, and Brown PO

PLoS ONE 3(5):0, 2008 - Who cited this? | PubMed ID: 18461144 | Fulltext

Comparative analysis of viral gene expression programs during poxvirus infection: a transcriptional map of the vaccinia and monkeypox genomes.

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Rubins KH, Hensley LE, Bell GW, Wang C, Lefkowitz EJ, Brown PO, and Relman DA

PLoS ONE 3(7), 2008 - Who cited this? | PubMed ID: 18612436 | Fulltext

The Stanford Tissue Microarray Database.

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Marinelli RJ, Montgomery K, Liu CL, Shah NH, Prapong W, Nitzberg M, Zachariah ZK, Sherlock GJ, Natkunam Y, West RB, van de Rijn M, Brown PO, and Ball CA

Nucleic acids research 36(Database issue), 2008 Jan - Who cited this? | PubMed ID: 17989087 | Fulltext

Systematic evaluation of candidate blood markers for detecting ovarian cancer.

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Palmer C, Duan X, Hawley S, Scholler N, Thorpe JD, Sahota RA, Wong MQ, Wray A, Bergan LA, Drescher CW, McIntosh MW, Brown PO, Nelson BH, and Urban N

PLoS ONE 3(7):e2633, 2008 - Who cited this? | PubMed ID: 18612378 | Fulltext

Erratum.

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Hendrickson DG, Hogan DJ, Herschlag D, Ferrell JE, and Brown PO

PLoS ONE 3(11), 2008 - Who cited this? | PubMed ID: 19023452 | Fulltext

Transcriptional modulation of genes encoding structural characteristics of differentiating enterocytes during development of a polarized epithelium in vitro.

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Halbleib JM, Sääf AM, Brown PO, and Nelson WJ

Molecular biology of the cell 18(11):4261, 2007 Nov - Who cited this? | PubMed ID: 17699590 | Fulltext

Parallels between global transcriptional programs of polarizing Caco-2 intestinal epithelial cells in vitro and gene expression programs in normal colon and colon cancer.

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Sääf AM, Halbleib JM, Chen X, Yuen ST, Leung SY, Nelson WJ, and Brown PO

Molecular biology of the cell 18(11):4245, 2007 Nov - Who cited this? | PubMed ID: 17699589 | Fulltext

Gene expression programs of human smooth muscle cells: tissue-specific differentiation and prognostic significance in breast cancers.

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Chi JT, Rodriguez EH, Wang Z, Nuyten DS, Mukherjee S, van de Rijn M, van de Vijver MJ, Hastie T, and Brown PO

PLoS genetics 3(9):1770-84, 2007 Sep 7 - Who cited this? | PubMed ID: 17907811 | Fulltext

Development of the Human Infant Intestinal Microbiota.

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Palmer C, Bik EM, Digiulio DB, Relman DA, and Brown PO

PLoS biology 5(7), 2007 Jun 26 - Who cited this? | PubMed ID: 17594176 | Fulltext

The temporal program of peripheral blood gene expression in the response of nonhuman primates to Ebola hemorrhagic fever.

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Rubins KH, Hensley LE, Wahl-Jensen V, Daddario DiCaprio KM, Young HA, Reed DS, Jahrling PB, Brown PO, Relman DA, and Geisbert TW

Genome biology 8(8), 2007 - Who cited this? | PubMed ID: 17725815 | Fulltext

Gene expression patterns in pancreatic tumors, cells and tissues.

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Lowe AW, Olsen M, Hao Y, Lee SP, Taek Lee K, Chen X, van de Rijn M, and Brown PO

PLoS ONE 2(3), 2007 - Who cited this? | PubMed ID: 17389914 | Fulltext

Virtual Northern analysis of the human genome.

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Hurowitz EH, Drori I, Stodden VC, Donoho DL, and Brown PO

PLoS ONE 2(5), 2007 - Who cited this? | PubMed ID: 17520019 | Fulltext

Characterization of heterotypic interaction effects in vitro to deconvolute global gene expression profiles in cancer.

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Buess M, Nuyten DS, Hastie T, Nielsen T, Pesich R, and Brown PO

Genome biology 8(9), 2007 - Who cited this? | PubMed ID: 17868458 | Fulltext

The Stanford Microarray Database: implementation of new analysis tools and open source release of software.

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Demeter J, Beauheim C, Gollub J, Hernandez-Boussard T, Jin H, Maier D, Matese JC, Nitzberg M, Wymore F, Zachariah ZK, Brown PO, Sherlock G, and Ball CA

Nucleic acids research 35(Database issue):D766-70, 2007 Jan - Who cited this? | PubMed ID: 17182626 | Fulltext

Transcriptional program induced by wnt protein in human fibroblasts suggests mechanisms for cell cooperativity in defining tissue microenvironments.

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Klapholz-Brown Z, Walmsley GG, Nusse YM, Nusse R, and Brown PO

PLoS ONE 2(9):e945, 2007 - Who cited this? | PubMed ID: 17895986 | Fulltext

Gene-expression patterns reveal underlying biological processes in Kawasaki disease.

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Popper SJ, Shimizu C, Shike H, Kanegaye JT, Newburger JW, Sundel RP, Brown PO, Burns JC, and Relman DA

Genome biology 8(12):R261, 2007 - Who cited this? | PubMed ID: 18067656 | Fulltext

Pseudopolymorphism of aliphatic amine/4-tert-butylcalix[4]arene inclusion compounds: supramolecular stabilization as a route to polar clusters and layers.

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Brown PO, Udachin KA, Enright GD, and Ripmeester JA

Chemistry (Weinheim an der Bergstrasse, Germany) 12(32):8240-52, 2006 Nov 6 - Who cited this? | PubMed ID: 16921568 | Fulltext

Nanocrystalline Ag from supramolecular stabilization of metals in 4-tert-butylcalix[4]arene lattices.

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Brown PO, Enright GD, and Ripmeester JA

Chemistry, an Asian journal 1(4):529-35, 2006 Oct 20 - Who cited this? | PubMed ID: 17441090 | Fulltext

Bone morphogenetic protein antagonist gremlin 1 is widely expressed by cancer-associated stromal cells and can promote tumor cell proliferation.

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Sneddon JB, Zhen HH, Montgomery K, van de Rijn M, Tward AD, West R, Gladstone H, Chang HY, Morganroth GS, Oro AE, and Brown PO

Proceedings of the National Academy of Sciences of the United States of America 103(40):14842-7, 2006 Oct 3 - Who cited this? | PubMed ID: 17003113 | Fulltext

2005 Curt Stern Award address. Exploring along a crooked path.

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Brown PO

American journal of human genetics 79(3):429-33, 2006 Sep - Who cited this? | PubMed ID: 16909380 | Fulltext

Anatomic demarcation by positional variation in fibroblast gene expression programs.

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Rinn JL, Bondre C, Gladstone HB, Brown PO, and Chang HY

PLoS genetics 2(7), 2006 Jul - Who cited this? | PubMed ID: 16895450 | Fulltext

Gene expression patterns in human placenta.

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Sood R, Zehnder JL, Druzin ML, and Brown PO

Proceedings of the National Academy of Sciences of the United States of America 103(14):5478-83, 2006 Apr 4 - Who cited this? | PubMed ID: 16567644 | Fulltext

Genome-wide identification of mRNAs associated with the translational regulator PUMILIO in Drosophila melanogaster.

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Gerber AP, Luschnig S, Krasnow MA, Brown PO, and Herschlag D

Proceedings of the National Academy of Sciences of the United States of America 103(12):4487, 2006 Mar 21 - Who cited this? | PubMed ID: 16537387 | Fulltext

Gene expression programs in response to hypoxia: cell type specificity and prognostic significance in human cancers.

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Chi JT, Wang Z, Nuyten DS, Rodriguez EH, Schaner ME, Salim A, Wang Y, Kristensen GB, Helland A, Børresen-Dale AL, Giaccia A, Longaker MT, Hastie T, Yang GP, van de Vijver MJ, and Brown PO

PLoS medicine 3(3), 2006 Mar - Who cited this? | PubMed ID: 16417408 | Fulltext

A landscape effect in tenosynovial giant-cell tumor from activation of CSF1 expression by a translocation in a minority of tumor cells.

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West RB, Rubin BP, Miller MA, Subramanian S, Kaygusuz G, Montgomery K, Zhu S, Marinelli RJ, De Luca A, Downs-Kelly E, Goldblum JR, Corless CL, Brown PO, Gilks CB, Nielsen TO, Huntsman D,

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Proceedings of the National Academy of Sciences of the United States of America 103(3):690-5, 2006 Jan 17 - Who cited this? | PubMed ID: 16407111 | Fulltext

Exploring the regulation of human neural precursor cell differentiation using arrays of signaling microenvironments.

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Soen Y, Mori A, Palmer TD, and Brown PO

Molecular systems biology 2:37, 2006 - Who cited this? | PubMed ID: 16820778 | Fulltext

Rapid quantitative profiling of complex microbial populations.

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Palmer C, Bik EM, Eisen MB, Eckburg PB, Sana TR, Wolber PK, Relman DA, and Brown PO

Nucleic acids research 34(1), 2006 - Who cited this? | PubMed ID: 16407321 | Fulltext

Genome-scale identification of membrane-associated human mRNAs.

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Diehn M, Bhattacharya R, Botstein D, and Brown PO

PLoS genetics 2(1), 2006 Jan - Who cited this? | PubMed ID: 16415983 | Fulltext

Cell-type specific gene expression profiles of leukocytes in human peripheral blood.

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Palmer C, Diehn M, Alizadeh AA, and Brown PO

BMC genomics 7:115, 2006 - Who cited this? | PubMed ID: 16704732 | Fulltext

Discovery and validation of breast cancer subtypes.

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Kapp AV, Jeffrey SS, Langerød A, Børresen-Dale AL, Han W, Noh DY, Bukholm IR, Nicolau M, Brown PO, and Tibshirani R

BMC genomics 7:231, 2006 - Who cited this? | PubMed ID: 16965636 | Fulltext

Predicting a local recurrence after breast-conserving therapy by gene expression profiling.

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Nuyten DS, Kreike B, Hart AA, Chi JT, Sneddon JB, Wessels LF, Peterse HJ, Bartelink H, Brown PO, Chang HY, and van de Vijver MJ

Breast cancer research : BCR 8(5):R62, 2006 - Who cited this? | PubMed ID: 17069664 | Fulltext

Minimizing off-target effects by using diced siRNAs for RNA interference.

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Myers JW, Chi JT, Gong D, Schaner ME, Brown PO, and Ferrell JE

Journal of RNAi and gene silencing 2(2):181-94, 2006 - Who cited this? | PubMed ID: 19771225 | Fulltext

Marked differences in human melanoma antigen-specific T cell responsiveness after vaccination using a functional microarray.

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Chen DS, Soen Y, Stuge TB, Lee PP, Weber JS, Brown PO, and Davis MM

PLoS medicine 2(10):0, 2005 Oct - Who cited this? | PubMed ID: 16162034 | Fulltext

Extending the chemistry of p-tert-butylcalix[4]arene with H-bonding and secondary coordination.

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Brown PO, Udachin KA, Enright GD, and Ripmeester JA

Chemical communications (Cambridge, England)(35):4402-4, 2005 Sep 21 - Who cited this? | PubMed ID: 16136231 | Fulltext

Determination of stromal signatures in breast carcinoma.

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West RB, Nuyten DS, Subramanian S, Nielsen TO, Corless CL, Rubin BP, Montgomery K, Zhu S, Patel R, Hernandez-Boussard T, Goldblum JR, Brown PO, van de Vijver M, and van de Rijn M

PLoS biology 3(6):e187, 2005 Jun - Who cited this? | PubMed ID: 15869330 | Fulltext

Gene expression profiling reveals molecularly and clinically distinct subtypes of glioblastoma multiforme.

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Liang Y, Diehn M, Watson N, Bollen AW, Aldape KD, Nicholas MK, Lamborn KR, Berger MS, Botstein D, Brown PO, and Israel MA

Proceedings of the National Academy of Sciences of the United States of America 102(16):5814, 2005 Apr 19 - Who cited this? | PubMed ID: 15827123 | Fulltext

Robustness, scalability, and integration of a wound-response gene expression signature in predicting breast cancer survival.

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Chang HY, Nuyten DS, Sneddon JB, Hastie T, Tibshirani R, Sørlie T, Dai H, He YD, van't Veer LJ, Bartelink H, van de Rijn M, Brown PO, and van de Vijver MJ

Proceedings of the National Academy of Sciences of the United States of America 102(10):3738-43, 2005 Mar 8 - Who cited this? | PubMed ID: 15701700 | Fulltext

A DNA microarray survey of gene expression in normal human tissues.

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Shyamsundar R, Kim YH, Higgins JP, Montgomery K, Jorden M, Sethuraman A, van de Rijn M, Botstein D, Brown PO, and Pollack JR

Genome biology 6(3), 2005 - Who cited this? | PubMed ID: 15774023 | Fulltext

The Stanford Microarray Database accommodates additional microarray platforms and data formats.

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Ball CA, Awad IA, Demeter J, Gollub J, Hebert JM, Hernandez-Boussard T, Jin H, Matese JC, Nitzberg M, Wymore F, Zachariah ZK, Brown PO, and Sherlock G

Nucleic acids research 33(Database issue):D580-2, 2005 Jan 1 - Who cited this? | PubMed ID: 15608265 | Fulltext

Dissecting eukaryotic translation and its control by ribosome density mapping.

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Arava Y, Boas FE, Brown PO, and Herschlag D

Nucleic acids research 33(8):2421-32, 2005 - Who cited this? | PubMed ID: 15860778 | Fulltext

Differential gene expression in anatomical compartments of the human eye.

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Diehn JJ, Diehn M, Marmor MF, and Brown PO

Genome biology 6(9):R74, 2005 - Who cited this? | PubMed ID: 16168081 | Fulltext

The host response to smallpox: analysis of the gene expression program in peripheral blood cells in a nonhuman primate model.

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Rubins KH, Hensley LE, Jahrling PB, Whitney AR, Geisbert TW, Huggins JW, Owen A, Leduc JW, Brown PO, and Relman DA

Proceedings of the National Academy of Sciences of the United States of America 101(42):15190-5, 2004 Oct 19 - Who cited this? | PubMed ID: 15477590 | Fulltext

A method for detecting and correcting feature misidentification on expression microarrays.

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Tu IP, Schaner M, Diehn M, Sikic BI, Brown PO, Botstein D, and Fero MJ

BMC genomics 5(1):64, 2004 Sep 9 - Who cited this? | PubMed ID: 15357875 | Fulltext

A specific gene expression program triggered by Gram-positive bacteria in the cytosol.

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McCaffrey RL, Fawcett P, O'Riordan M, Lee KD, Havell EA, Brown PO, and Portnoy DA

Proceedings of the National Academy of Sciences of the United States of America 101(31):11386, 2004 Aug 3 - Who cited this? | PubMed ID: 15269347 | Fulltext

Apo D in soft tissue tumors: a novel marker for dermatofibrosarcoma protuberans.

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West RB, Harvell J, Linn SC, Liu CL, Prapong W, Hernandez-Boussard T, Montgomery K, Nielsen TO, Rubin BP, Patel R, Goldblum JR, Brown PO, and van de Rijn M

The American journal of surgical pathology 28(8):1063-9, 2004 Aug - Who cited this? | PubMed ID: 15252314 | Fulltext

The novel marker, DOG1, is expressed ubiquitously in gastrointestinal stromal tumors irrespective of KIT or PDGFRA mutation status.

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West RB, Corless CL, Chen X, Rubin BP, Subramanian S, Montgomery K, Zhu S, Ball CA, Nielsen TO, Patel R, Goldblum JR, Brown PO, Heinrich MC, and van de Rijn M

The American journal of pathology 165(1):107-13, 2004 Jul - Who cited this? | PubMed ID: 15215166 | Fulltext

Diverse and specific gene expression responses to stresses in cultured human cells.

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Murray JI, Whitfield ML, Trinklein ND, Myers RM, Brown PO, and Botstein D

Molecular biology of the cell 15(5):2361, 2004 May - Who cited this? | PubMed ID: 15004229 | Fulltext

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