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jfr gene_expression [70 articles]

Recent papers added to jfr library classified by the tag gene_expression. You can also see everyone's gene_expression.
  • Microarrays and molecular research: noise discovery?
    Lancet, Vol. 365, No. 9458. (5 February 2005), pp. 454-455.
    by JP Ioannidis
    posted to microarray_technology gene_expression comment by jfr on 2008-07-21 18:13:01 as read along with 1 person textoris
  • Technology insight: Emerging techniques to predict response to preoperative chemotherapy in breast cancer.
    Nature clinical practice. Oncology, Vol. 1, No. 1. (November 2004), pp. 44-50.
    by L Pusztai, L Gianni
    posted to therapy review microarray_technology gene_expression breast_cancer by jfr on 2008-07-21 18:08:40 as read
  • Getting the Noise Out of Gene Arrays
    Science, Vol. 306, No. 5696. (22 October 2004), pp. 630-631.
    by Eliot Marshall
    posted to platform_comparison microarray_technology gene_expression comment by jfr on 2008-07-21 18:07:23 as read along with 1 person cmmorel
  • Identification of gene interactions associated with disease from gene expression data using synergy networks
    BMC Systems Biology, Vol. 2, No. 1. (2008)
    by John Watkinson, Xiaodong Wang, Tian Zheng, Dimitris Anastassiou
    posted to network interaction gene_expression by jfr on 2008-07-17 14:47:51 as *** along with 4 people balicea frohike barriot smgomez
  • Sharing and reusing gene expression profiling data in neuroscience.
    Neuroinformatics, Vol. 5, No. 3. (2007), pp. 161-175.
    by X Wan, P Pavlidis
    posted to software review gene_expression by jfr on 2008-07-17 14:42:19 as read along with 3 people klo balicea hpiwowar
  • The use of logic relationships to model colon cancer gene expression networks with mRNA microarray data.
    Journal of biomedical informatics, Vol. 41, No. 4. (August 2008), pp. 530-543.
    by X Ruan, J Wang, H Li, RE Perozzi, EF Perozzi
    posted to progression pathway_analysis network gene_expression colon_cancer by jfr on 2008-07-17 14:36:18 as read along with 1 person balicea
  • An improved method for detecting and delineating genomic regions with altered gene expression in cancer
    Genome Biology, Vol. 9, No. 1. (2008)
    by Bjorn Nilsson, Mikael Johansson, Anders Heyden, Sven Nelander, Thoas Fioretos
    posted to integration gene_expression copy-number by jfr on 2008-07-17 14:18:14 as ** along with 3 people natstreet barriot ptrobajo
  • A susceptibility gene set for early onset colorectal cancer that integrates diverse signaling pathways: implication for tumorigenesis.
    Clinical cancer research : an official journal of the American Association for Cancer Research, Vol. 13, No. 4. (15 February 2007), pp. 1107-1114.
    by Y Hong, KS Ho, KW Eu, PY Cheah
    posted to gene_expression colon_cancer by jfr on 2008-07-10 17:19:34 as ***
  • A genome-wide map of aberrantly expressed chromosomal islands in colorectal cancer
    Molecular Cancer, Vol. 5 (18 September 2006), 37.
    by Eike Staub, Joern Groene, Detlev Mennerich, Stefan Roepcke, Irina Klaman, Bernd Hinzmann, Esmeralda Castanos-Velez, Benno Mann, Christian Pilarsky, Thomas Brummendorf, Birgit Weber, Heinz-Johannes Buhr, Andre Rosenthal
    posted to gene_expression copy-number colon_cancer by jfr on 2008-07-10 17:06:51 as read along with 2 people rdiaz cpnP
  • Positional gene enrichment analysis of gene sets for high-resolution identification of overrepresented chromosomal regions.
    Nucleic Acids Res (16 March 2008)
    by Katleen De Preter, Roland Barriot, Frank Speleman, Jo Vandesompele, Yves Moreau
    posted to gene_set_analysis gene_expression by jfr on 2008-06-27 13:29:10 as *** along with 4 people and 1 group inesdesantiago tmmurali frohike bootsy Bioinformatics
  • Can subtle changes in gene expression be consistently detected with different microarray platforms?
    BMC Genomics, Vol. 9, No. 1. (2008)
    by Paola Pedotti, Peter ' Hoen, Erno Vreugdenhil, Geert Schenk, Rolf Vossen, Yavuz Ariyurek, Mattias de Hollander, Rowan Kuiper, Gertjan van Ommen, Johan den Dunnen, Judith Boer, Renee de Menezes
    posted to platform_comparison genomics gene_expression by jfr on 2008-06-17 17:38:08 as ** along with 1 person heliopais
  • Visualizing chromosomes as transcriptome correlation maps: evidence of chromosomal domains containing co-expressed genes--a study of 130 invasive ductal breast carcinomas.
    Cancer research, Vol. 65, No. 4. (15 February 2005), pp. 1376-1383.
    by F Reyal, N Stransky, I Bernard-Pierrot, A Vincent-Salomon, Y de Rycke, P Elvin, A Cassidy, A Graham, C Spraggon, Y Désille, A Fourquet, C Nos, P Pouillart, H Magdelénat, D Stoppa-Lyonnet, J Couturier, B Sigal-Zafrani, B Asselain, X Sastre-Garau, O Delattre, JP Thiery, F Radvanyi
    posted to integration gene_expression copy-number breast_cancer by jfr on 2008-06-17 12:04:03 as ***
  • Many Microbe Microarrays Database: uniformly normalized Affymetrix compendia with structured experimental metadata
    Nucl. Acids Res. (11 October 2007), gkm815.
    by Jeremiah J Faith, Michael E Driscoll, Vincent A Fusaro, Elissa J Cosgrove, Boris Hayete, Frank S Juhn, Stephen J Schneider, Timothy S Gardner
    posted to gene_expression database bioinformatics affy by jfr on 2008-06-13 14:42:32 as read along with 1 person tvdbulck
  • Gene expression signatures, clinicopathological features, and individualized therapy in breast cancer.
    JAMA : the journal of the American Medical Association, Vol. 299, No. 13. (2 April 2008), pp. 1574-1587.
    by CR Acharya, DS Hsu, CK Anders, A Anguiano, KH Salter, KS Walters, RC Redman, SA Tuchman, CA Moylan, S Mukherjee, WT Barry, HK Dressman, GS Ginsburg, KP Marcom, KS Garman, GH Lyman, JR Nevins, A Potti
    posted to therapy gene_expression classification breast_cancer bio_signature by jfr on 2008-05-16 10:17:02 as read along with 1 person jyuh
  • Ranking analysis of F-atatistics for microarray data
    BMC Bioinformatics, Vol. 9 (06 March 2008), 142.
    by Yuan-De Tan, Myriam Fornage, Hongyan Xu
    posted to gene_expression feature_selection fdr by jfr on 2008-05-05 11:01:54 as ** along with 2 people jyuh fpattyn
  • Normalization of oligonucleotide arrays based on the least-variant set of genes
    BMC Bioinformatics, Vol. 9 (05 March 2008), 140.
    by Stefano Calza, Davide Valentini, Yudi Pawitan
    posted to software normalization low_level gene_expression affy by jfr on 2008-05-05 10:58:52 as ** along with 3 people jyuh giovenko waszak
  • Prognosis of stage II colon cancer by non-neoplastic mucosa gene expression profiling
    Oncogene, Vol. aop, No. current.
    by A Barrier, F Roser, PY Boëlle, B Franc, C Tse, D Brault, F Lacaine, S Houry, P Callard, C Penna, B Debuire, A Flahault, S Dudoit, A Lemoine
    posted to stageii gene_expression colon_cancer classification by jfr on 2008-05-04 23:49:23 as read
  • A suite of Perl modules for handling Microarray data.
    Bioinformatics (18 March 2008)
    by James A A Morris, Simon A A Gayther, Ian J J Jacobs, Christopher Jones
    posted to software gene_expression by jfr on 2008-05-04 23:44:09 as read along with 4 people AlexanderPico jyuh wisdom_love brianb
  • Identifying synergistic regulation involving c-Myc and sp1 in human tissues.
    Nucleic Acids Res, Vol. 35, No. 4. (2007), pp. 1098-1107.
    by F Parisi, P Wirapati, F Naef
    posted to regulation integration gene_expression chip-chip by jfr on 2008-05-04 23:42:17 as **
  • Gene expression profiling of nonneoplastic mucosa may predict clinical outcome of colon cancer patients.
    Diseases of the colon and rectum, Vol. 48, No. 12. (December 2005), pp. 2238-2248.
    by A Barrier, PY Boelle, A Lemoine, C Tse, D Brault, F Chiappini, F Lacaine, S Houry, M Huguier, A Flahault, S Dudoit
    posted to stageii gene_expression colon_cancer classification by jfr on 2008-05-04 22:20:51 as read
  • Indirect genomic effects on survival from gene expression data
    Genome Biology, Vol. 9 (22 March 2008), R58.
    by Egil Ferkingstad, Arnoldo Frigessi, Heidi Lyng
    posted to regulation methodology gene_expression by jfr on 2008-05-04 22:16:56 as ****
  • Gene expression-based screening for inhibitors of PDGFR signaling
    Genome Biology, Vol. 9, No. 3. (2008)
    by Alena Antipova, Brent Stockwell, Todd Golub
    posted to small_molecule pathway gene_expression by jfr on 2008-05-04 22:09:57 as ** along with 2 people jyuh acanario
  • Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer
    Genome Biology, Vol. 8 (05 July 2007), R131.
    by Sergio Kaiser, Young-Kyu Park, Jeffrey L Franklin, Richard B Halberg, Ming Yu, Walter J Jessen, Johannes Freudenberg, Xiaodi Chen, Kevin Haigis, Anil G Jegga, Sue Kong, Bhuvaneswari Sakthivel, Huan Xu, Timothy Reichling, Mohammad Azhar, Gregory P Boivin, Reade B Roberts, Anika Bissahoyo, Fausto Gonzales, Greg L Bloom, Stephen Eschrich, Scott L Carter, Jeremy E Aronow, John Kleimeyer, Michael Kleimeyer, Vivek Ramaswamy, Stephen H Settle, Braden Boone, Shawn Levy, Jonathan M Graff, Thomas Doetschman, Joanna Groden, William F Dove, David W Threadgill, Timothy J Yeatman, Robert J Coffey, Bruce J Aronow
    posted to progression gene_expression colon_cancer by jfr on 2008-05-04 22:05:23 as read along with 2 people vmsr slevy03
  • Integration of microarray and textual data improves the prognosis prediction of breast, lung and ovarian cancer patients.
    Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2008), pp. 279-290.
    by O Gevaert, S Van Vooren, B de Moor
    posted to text_mining integration gene_expression by jfr on 2008-04-30 18:02:07 as ** along with 1 person and 1 group frohike Bioinformatics
  • Integrating microarray and proteomics data to predict the response on cetuximab in patients with rectal cancer.
    Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2008), pp. 166-177.
    by A Daemen, O Gevaert, T De Bie, A Debucquoy, JP Machiels, B De Moor, K Haustermans
    posted to proteomics methodology integration gene_expression classification by jfr on 2008-04-30 16:51:31 as **
  • Meta-analysis of breast cancer microarray studies in conjunction with conserved cis-elements suggest patterns for coordinate regulation
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by David Smith, Pal Saetrom, Ola Snove, Cathryn Lundberg, Guillermo Rivas, Carlotta Glackin, Garrett Larson
    posted to tfbs meta-analysis gene_expression estrogen breast_cancer by jfr on 2008-04-29 15:22:53 as read along with 3 people and 1 group shigepong heliopais xili03 microRNA
  • Sixteen-kinase gene expression identifies luminal breast cancers with poor prognosis.
    Cancer research, Vol. 68, No. 3. (1 February 2008), pp. 767-776.
    by P Finetti, N Cervera, E Charafe-Jauffret, C Chabannon, C Charpin, M Chaffanet, J Jacquemier, P Viens, D Birnbaum, F Bertucci
    posted to breast_cancer gene_expression by jfr on 2008-04-22 08:48:40 as **
  • Reconstruction of genetic association networks from microarray data: A partial least squares approach.
    Bioinformatics (18 January 2008)
    by Vasyl Pihur, Somnath Datta, Susmita Datta
    posted to gene_expression methodology network by jfr on 2008-04-22 08:31:47 as ** along with 6 people winterschlaefer jyuh cannin shigepong aconesa sotacam
  • Characterization of microRNA expression profiles in normal human tissues
    BMC Genomics, Vol. 8 (12 June 2007), 166.
    by Yu Liang, Dana Ridzon, Linda Wong, Caifu Chen
    posted to gene_expression mirna by jfr on 2008-04-22 06:57:19 as read along with 3 people and 2 groups frohike bootsy heliopais Bioinformatics microRNA
  • Novel blood-based, five-gene biomarker set for the detection of colorectal cancer.
    Clinical cancer research : an official journal of the American Association for Cancer Research, Vol. 14, No. 2. (15 January 2008), pp. 455-460.
    by M Han, CT Liew, HW Zhang, S Chao, R Zheng, KT Yip, ZY Song, HM Li, XP Geng, LX Zhu, JJ Lin, KW Marshall, CC Liew
    posted to classification colon_cancer diagnostic gene_expression by jfr on 2008-04-21 09:26:30 as **
  • A comparison of meta-analysis methods for detecting differentially expressed genes in microarray experiments.
    Bioinformatics (18 January 2008)
    by Fangxin Hong, Rainer Breitling
    posted to comparison gene_expression meta-analysis by jfr on 2008-04-21 09:18:14 as *** along with 4 people jyuh cannin shigepong jdiezperezj
  • Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package annotationTools
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Alexandre Kuhn, Ruth L Carter, Mauro Delorenzi
    posted to bioconductor gene_expression integration by jfr on 2008-04-18 11:40:43 as *** along with 9 people bertelsen ablejec zhouyu jyuh balicea dullhunk ghattem RamuAnandakrishnan heliopais
  • Prediction of breast cancer prognosis by gene expression profile of TP53 status.
    Cancer science, Vol. 99, No. 2. (February 2008), pp. 324-332.
    by S Takahashi, T Moriya, T Ishida, H Shibata, H Sasano, N Ohuchi, C Ishioka
    posted to breast_cancer gene_expression p53 prognosis by jfr on 2008-04-17 14:10:49 as ***
  • Poor outcome in estrogen receptor-positive breast cancers predicted by loss of plexin B1.
    Clinical cancer research : an official journal of the American Association for Cancer Research, Vol. 13, No. 4. (15 February 2007), pp. 1115-1122.
    by A Rody, U Holtrich, R Gaetje, M Gehrmann, K Engels, G von Minckwitz, S Loibl, R Diallo-Danebrock, E Ruckhäberle, D Metzler, A Ahr, C Solbach, T Karn, M Kaufmann
    posted to breast_cancer gene_expression by jfr on 2008-04-16 17:53:50 as **
  • Gene expression profiling and clinical outcome in breast cancer.
    Omics : a journal of integrative biology, Vol. 10, No. 4. (2006), pp. 429-443.
    by F Bertucci, P Finetti, N Cervera, D Maraninchi, P Viens, D Birnbaum
    posted to breast_cancer gene_expression review by jfr on 2008-04-15 11:39:32 as **
  • Text-derived concept profiles support assessment of DNA microarray data for acute myeloid leukemia and for androgen receptor stimulation
    BMC Bioinformatics, Vol. 8 (18 January 2007), 14.
    by Rob Jelier, Guido Jenster, Lambert CJ Dorssers, Bas J Wouters, Peter JM Hendriksen, Barend Mons, Ruud Delwel, Jan A Kors
    posted to gene_expression integration methodology software text_mining by jfr on 2008-04-14 17:01:10 as ** along with 4 people and 1 group yas hpiwowar fisherp Barend T_lab
  • Graph kernels for disease outcome prediction from protein-protein interaction networks.
    Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2007), pp. 4-15.
    by KM Borgwardt, HP Kriegel, SV Vishwanathan, NN Schraudolph
    posted to classification gene_expression integration methodology protein_interaction by jfr on 2008-04-11 17:51:25 as ***
  • Identification of Differentially Expressed Gene Categories in Microarray Studies Using Nonparametric Multivariate Analysis.
    Bioinformatics (27 November 2007)
    by Dan Nettleton, Justin Recknor, James M M Reecy
    posted to feature_selection gene_expression methodology by jfr on 2008-04-09 14:38:28 as ** along with 3 people jyuh shigepong heliopais
  • Systematic review: gene expression profiling assays in early-stage breast cancer.
    Ann Intern Med, Vol. 148, No. 5. (4 March 2008), pp. 358-369.
    by L Marchionni, RF Wilson, AC Wolff, S Marinopoulos, G Parmigiani, EB Bass, SN Goodman
    posted to breast_cancer classification gene_expression review by jfr on 2008-04-09 14:25:05 as read along with 1 person jyuh
  • In situ analysis of cross-hybridisation on microarrays and the inference of expression correlation
    BMC Bioinformatics, Vol. 8 (26 November 2007), 461.
    by Tineke Casneuf, Yves Van de Peer, Wolfgang Huber
    posted to microarray_technology correlation gene_expression by jfr on 2008-04-09 14:15:09 as ****
  • Use of 70-gene signature to predict prognosis of patients with node-negative breast cancer: a prospective community-based feasibility study (RASTER).
    Lancet Oncol, Vol. 8, No. 12. (December 2007), pp. 1079-1087.
    by JM Bueno-de-Mesquita, WH van Harten, VP Retel, LJ van't Veer, FS van Dam, K Karsenberg, KF Douma, H van Tinteren, JL Peterse, J Wesseling, TS Wu, D Atsma, EJ Rutgers, G Brink, AN Floore, AM Glas, RM Roumen, FE Bellot, C van Krimpen, S Rodenhuis, MJ van de Vijver, SC Linn
    posted to breast_cancer gene_expression prognosis by jfr on 2008-04-09 14:11:34 as ** along with 2 people ptrobajo frohike
  • Growing functional modules from a seed protein via integration of protein interaction and gene expression data
    BMC Bioinformatics, Vol. 8 (23 October 2007), 408.
    by Ioannis A Maraziotis, Konstantina Dimitrakopoulou, Anastasios Bezerianos
    posted to gene_expression integration module_detection protein_interaction by jfr on 2008-04-09 14:02:23 as *** along with 2 people dragonrez iris_2001
  • Expression of epiregulin and amphiregulin and K-ras mutation status predict disease control in metastatic colorectal cancer patients treated with cetuximab.
    Journal of clinical oncology : official journal of the American Society of Clinical Oncology, Vol. 25, No. 22. (1 August 2007), pp. 3230-3237.
    by S Khambata-Ford, CR Garrett, NJ Meropol, M Basik, CT Harbison, S Wu, TW Wong, X Huang, CH Takimoto, AK Godwin, BR Tan, SS Krishnamurthi, HA Burris, EA Poplin, M Hidalgo, J Baselga, EA Clark, DJ Mauro
    posted to classification colon_cancer gene_expression therapy by jfr on 2008-04-09 13:55:11 as ****
  • Pancreatic Expression database: a generic model for the organization, integration and mining of complex cancer datasets
    BMC Genomics, Vol. 8 (28 November 2007), 439.
    by Claude Chelala, Stephan A Hahn, Hannah J Whiteman, Sayka Barry, Deepak Hariharan, Tomasz P Radon, Nicholas R Lemoine, Tatjana Crnogorac-Jurcevic
    posted to bioinformatics database gene_expression integration by jfr on 2008-04-09 13:40:06 as read along with 1 person and 1 group shikin GeneGo
  • Gene expression signature in advanced colorectal cancer patients select drugs and response for the use of leucovorin, fluorouracil, and irinotecan.
    Journal of clinical oncology : official journal of the American Society of Clinical Oncology, Vol. 25, No. 7. (1 March 2007), pp. 773-780.
    by M Del Rio, F Molina, C Bascoul-Mollevi, V Copois, F Bibeau, P Chalbos, C Bareil, A Kramar, N Salvetat, C Fraslon, E Conseiller, V Granci, B Leblanc, B Pau, P Martineau, M Ychou
    posted to colon_cancer gene_expression therapy by jfr on 2008-04-09 13:19:40 as read
  • Expression and genomic profiling of colorectal cancer.
    Biochimica et biophysica acta, Vol. 1775, No. 1. (January 2007), pp. 103-137.
    by J Cardoso, J Boer, H Morreau, R Fodde
    posted to review gene_expression crc_bib copy-number colon_cancer by jfr on 2008-04-09 13:15:38 as read
  • mRNA/microRNA gene expression profile in microsatellite unstable colorectal cancer
    Molecular Cancer, Vol. 6 (23 August 2007), 54.
    by Giovanni Lanza, Manuela Ferracin, Roberta Gafa, Angelo Veronese, Riccardo Spizzo, Flavia Pichiorri, Chang-Gong Liu, George A Calin, Carlo M Croce, Massimo Negrini
    posted to colon_cancer gene_expression mirna msi by jfr on 2008-04-09 12:46:13 as **
  • Integrative analysis of a cancer somatic mutome
    Molecular Cancer, Vol. 6 (05 February 2007), 13.
    by Pilar Hernandez, Xavier Sole, Joan Valls, Victor Moreno, Gabriel Capella, Ander Urruticoechea, Miguel A Pujana
    posted to breast_cancer copy-number gene_expression mutations by jfr on 2008-04-04 17:15:02 as read along with 1 person jjohnson17
  • Prediction potential of candidate biomarker sets identified and validated on gene expression data from multiple datasets
    BMC Bioinformatics, Vol. 8 (26 October 2007), 415.
    by Michael Gormley, William Dampier, Adam Ertel, Bilge Karacali, Aydin Tozeren
    posted to classification gene_expression by jfr on 2008-03-17 16:14:54 as ** along with 1 person shigepong
  • Molecular staging for survival prediction of colorectal cancer patients.
    J Clin Oncol, Vol. 23, No. 15. (20 May 2005), pp. 3526-3535.
    by S Eschrich, I Yang, G Bloom, KY Kwong, D Boulware, A Cantor, D Coppola, M Kruhøffer, L Aaltonen, TF Orntoft, J Quackenbush, TJ Yeatman
    posted to classification colon_cancer gene_expression staging by jfr on 2008-02-29 10:52:18 as read along with 1 person frohike
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