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di jfr integration [90 articles]

Articoli aggiunti di recente alla biblioteca di jfr classificati sotto il tag integration. You can also see everyone's integration.
  • Combining transcriptional datasets using the generalized singular value decomposition
    BMC Bioinformatics, Vol. 9 (08 August 2008), 335.
    by Andreas W Schreiber, Neil J Shirley, Rachel A Burton, Geoffrey B Fincher
    posted to microarray_analysis integration by jfr on 2008-11-11 13:14:02 as *** along with 4 people rmk GeeSharpMinor shigepong dansullivanblk
  • Robust and efficient identification of biomarkers by classifying features on graphs
    Bioinformatics, Vol. 24, No. 18. (15 September 2008), pp. 2023-2029.
    by Taehyun Hwang, Hugues Sicotte, Ze Tian, Baolin Wu, Jean-Pierre Kocher, Dennis A Wigle, Vipin Kumar, Rui Kuang
    posted to network integration graphs classification by jfr on 2008-11-10 16:51:57 as **** along with 7 people jyuh ihpark nuin GeeSharpMinor mitko AbnerCYH sg45653
  • Chromosomal aberrations and gene expression profiles in non-small cell lung cancer.
    Lung cancer (Amsterdam, Netherlands), Vol. 56, No. 2. (May 2007), pp. 175-184.
    by E Dehan, A Ben-Dor, W Liao, D Lipson, H Frimer, S Rienstein, D Simansky, M Krupsky, P Yaron, E Friedman, G Rechavi, M Perlman, A Aviram-Goldring, S Izraeli, M Bittner, Z Yakhini, N Kaminski
    posted to lung_cancer integration gene_expression copy-number by jfr on 2008-11-10 15:33:26 as **
  • Molecular subtypes of diffuse large B-cell lymphoma arise by distinct genetic pathways
    Proceedings of the National Academy of Sciences, Vol. 105, No. 36. (2008), pp. 13520-13525.
    by Georg Lenz, George W Wright, Tolga NC Emre, Holger Kohlhammer, Sandeep S Dave, Eric R Davis, Shannon Carty, Lloyd T Lam, AL Shaffer, Wenming Xiao, John Powell, Andreas Rosenwald, German Ott, Hans K Muller-Hermelink, Randy D Gascoyne, Joseph M Connors, Elias Campo, Elaine S Jaffe, Jan Delabie, Erlend B Smeland, Lisa M Rimsza, Richard I Fisher, Dennis D Weisenburger, Wing C Chan, Louis M Staudt
    posted to subtypes lymphoma integration gene_expression array-cgh by jfr on 2008-11-05 09:24:58 as read along with 1 person oelemento
  • Improved breast cancer prognosis through the combination of clinical and genetic markers
    Bioinformatics, Vol. 23, No. 1. (1 January 2007), pp. 30-37.
    by Sun, Yijun, Goodison, Steve, Li, Jian, Liu, Li, Farmerie, William
    posted to integration breast_cancer by jfr on 2008-11-04 12:07:00 as **** along with 1 person srp33
  • Combining results of microarray experiments: a rank aggregation approach.
    Statistical applications in genetics and molecular biology, Vol. 5 (2006)
    by RP DeConde, S Hawley, S Falcon, N Clegg, B Knudsen, R Etzioni
    posted to integration by jfr on 2008-10-08 16:56:24 as **
  • Integrating biological data - the Distributed Annotation System
    BMC Bioinformatics, Vol. 9, No. Suppl 8. (2008)
    by Andrew Jenkinson, Mario Albrecht, Ewan Birney, Hagen Blankenburg, Thomas Down, Robert Finn, Henning Hermjakob, Tim Hubbard, Rafael Jimenez, Philip Jones, Andreas Kahari, Eugene Kulesha, Jose Macias, Gabrielle Reeves, Andreas Prlic
    posted to software integration annotation by jfr on 2008-10-08 15:11:26 as ** along with 4 people druvus jyuh aconesa djkt
  • MAID : An effect size based model for microarray data integration across laboratories and platforms
    BMC Bioinformatics, Vol. 9 (10 July 2008), 305.
    by Ivan Borozan, Limin Chen, Bryan Paeper, Jenny E Heathcote, Aled M Edwards, Michael Katze, Zhaolei Zhang, Ian D Mcgilvray
    posted to meta-analysis integration by jfr on 2008-09-29 15:11:08 as *** along with 4 people ptrobajo talponer jyuh GeeSharpMinor
  • Assessing the functional structure of genomic data.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by C Huttenhower, OG Troyanskaya
    posted to integration functional_analysis by jfr on 2008-09-29 15:05:19 as ** along with 1 person jyuh
  • Unraveling transcriptional regulatory programs by integrative analysis of microarray and transcription factor binding data.
    Bioinformatics (Oxford, England), Vol. 24, No. 17. (1 September 2008), pp. 1874-1880.
    by H Li, M Zhan
    posted to tfbs regulation microarray_analysis integration by jfr on 2008-09-29 14:23:18 as ** along with 3 people icecrown ealloza m9array
  • Finding common genes in multiple cancer types through meta-analysis of microarray experiments: A rank aggregation approach.
    Genomics (17 June 2008)
    by V Pihur, Somnath Datta, Susmita Datta
    posted to meta-analysis integration feature_selection by jfr on 2008-09-24 11:43:41 as **
  • Improving the prediction accuracy in classification using the combined data sets by ranks of gene expressions
    BMC Bioinformatics, Vol. 9 (16 June 2008), 283.
    by Ki-Yeol Kim, Dong H Ki, Hei-Cheul Jeung, Hyun C Chung, Sun Y Rha
    posted to meta-analysis integration classification by jfr on 2008-09-16 18:56:20 as *** along with 2 people akastrin jyuh
  • A modular approach for integrative analysis of large-scale gene-expression and drug-response data
    Nature Biotechnology, Vol. 26, No. 5. (08 May 2008), pp. 531-539.
    by Zoltán Kutalik, Jacques S Beckmann, Sven Bergmann
    posted to nci60 integration drug_discovery by jfr on 2008-09-04 14:26:20 as **** along with 4 people stringertheory tmmurali oelemento ptrobajo
  • An integrative approach to characterize disease-specific pathways and their coordination: a case study in cancer.
    BMC genomics, Vol. 9 Suppl 1 (2008)
    by M Xu, MC Kao, J Nunez-Iglesias, JR Nevins, M West, XJ Zhou
    posted to pathway_analysis integration breast_cancer by jfr on 2008-09-04 11:05:25 as ***** along with 3 people jyuh Zephyrus cswinburne
  • Regional copy number–independent deregulation of transcription in cancer
    Nature Genetics, Vol. 38, No. 12. (12 November 2006), pp. 1386-1396.
    by Nicolas Stransky, Céline Vallot, Fabien Reyal, Isabelle Bernard-Pierrot, Sixtina, Rick Segraves, Yann de Rycke, Paul Elvin, Andrew Cassidy, Carolyn Spraggon, Alexander Graham, Jennifer Southgate, Bernard Asselain, Yves Allory, Claude C Abbou, Donna G Albertson, Jean P Thiery, Dominique K Chopin, Daniel Pinkel, François Radvanyi
    posted to integration gene_expression copy-number by jfr on 2008-09-03 16:54:03 as **** along with 2 people shigepong bioyang
  • Integrated genetic and epigenetic analysis identifies three different subclasses of colon cancer
    Proceedings of the National Academy of Sciences, Vol. 104, No. 47. (20 November 2007), pp. 18654-18659.
    by Lanlan Shen, Minoru Toyota, Yutaka Kondo, E Lin, Li Zhang, Yi Guo, Natalie S Hernandez, Xinli Chen, Saira Ahmed, Kazuo Konishi, Stanley R Hamilton, Jean-Pierre J Issa
    posted to subtypes mutations integration colon_cancer by jfr on 2008-09-03 14:59:52 as *** along with 1 person epigenetics
  • Simple integrative preprocessing preserves what is shared in data sources
    BMC Bioinformatics, Vol. 9 (21 February 2008), 111.
    by Abhishek Tripathi, Arto Klami, Samuel Kaski
    posted to software methodology integration by jfr on 2008-09-03 13:12:34 as read along with 2 people cannin RockHI
  • Integrated genomic and transcriptomic analysis of ductal carcinoma in situ of the breast.
    Clinical cancer research : an official journal of the American Association for Cancer Research, Vol. 14, No. 7. (1 April 2008), pp. 1956-1965.
    by A Vincent-Salomon, C Lucchesi, N Gruel, V Raynal, G Pierron, R Goudefroye, F Reyal, F Radvanyi, R Salmon, JP Thiery, X Sastre-Garau, B Sigal-Zafrani, A Fourquet, O Delattre,
    posted to array-cgh breast_cancer gene_expression integration by jfr on 2008-08-05 14:41:52 as *** along with 1 person Zephyrus
  • 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 copy-number gene_expression integration by jfr on 2008-07-17 14:18:14 as ** along with 4 people rdiaz natstreet barriot ptrobajo
  • 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 breast_cancer copy-number gene_expression integration by jfr on 2008-06-17 12:04:03 as ***
  • 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 chip-chip gene_expression integration regulation by jfr on 2008-05-04 23:42:17 as **
  • 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 gene_expression integration text_mining by jfr on 2008-04-30 18:02:07 as ** along with 2 people and 1 group mitko 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 classification gene_expression integration methodology proteomics by jfr on 2008-04-30 16:51:31 as ** along with 1 person frohike
  • Exon level integration of proteomics and microarray data
    BMC Bioinformatics, Vol. 9 (25 February 2008), 118.
    by Danny A Bitton, Michal J Okoniewski, Yvonne Connolly, Crispin J Miller
    posted to exon_arrays integration proteomics by jfr on 2008-04-30 15:08:59 as ** along with 5 people jo_davies jyuh thomaskelder phoenixzxl huali
  • MetaReg: A platform for modeling, analysis and visualization of biological systems using large-scale experimental data
    Genome Biology, Vol. 9 (02 January 2008), R1.
    by Igor Ulitsky, Irit Gat-Viks, Ron Shamir
    posted to integration network software by jfr on 2008-04-30 11:23:17 as ** along with 4 people jyuh tmmurali waszak ptrobajo
  • The Annotation, Mapping, Expression and Network (AMEN) suite of tools for molecular systems biology
    BMC Bioinformatics, Vol. 9 (06 February 2008), 86.
    by Frederic Chalmel, Michael Primig
    posted to integration network software by jfr on 2008-04-29 15:25:15 as read along with 2 people jyuh maralena
  • 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 12 people natstreet druvus jyuh balicea dullhunk ghattem RamuAnandakrishnan heliopais ablejec zhouyu bertelsen sanchezbuelna
  • 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 ***
  • 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
  • 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
  • SGDI: system for genomic data integration.
    Pac Symp Biocomput (2008), pp. 141-152.
    by VJ Carey, J Gentry, R Sarkar, D Gentleman, S Ramaswamy
    posted to bioinformatics database integration meta-analysis by jfr on 2008-04-09 12:51:42 as read along with 2 people imina jyuh
  • Computational analysis of biological functions and pathways collectively targeted by co-expressed microRNAs in cancer
    BMC Bioinformatics, Vol. 8, No. Suppl 7. (2007)
    by Yuriy Gusev, Thomas Schmittgen, Megan Lerner, Russell Postier, Daniel Brackett
    posted to cancer integration mirna by jfr on 2008-04-09 11:25:50 as read along with 5 people eckart_bindewald ealloza vinithepooh yugusev maralena
  • Application of a correlation correction factor in a microarray cross-platform reproducibility study
    BMC Bioinformatics, Vol. 8 (15 November 2007), 447.
    by Kellie J Archer, Catherine I Dumur, Scott G Taylor, Michael D Chaplin, Anthony Guiseppi-Elie, Geraldine Grant, Andrea Ferreira-Gonzalez, Carleton T Garrett
    posted to integration by jfr on 2008-03-17 15:15:10 as **** along with 1 person shigepong
  • Integrative genomic analyses identify MITF as a lineage survival oncogene amplified in malignant melanoma
    Nature, Vol. 436, No. 7047., pp. 117-122.
    by Levi A Garraway, Hans R Widlund, Mark A Rubin, Gad Getz, Aaron J Berger, Sridhar Ramaswamy, Rameen Beroukhim, Danny A Milner, Scott R Granter, Jinyan Du, Charles Lee, Stephan N Wagner, Cheng Li, Todd R Golub, David L Rimm, Matthew L Meyerson, David E Fisher, William R Sellers
    posted to integration melanoma nci60 snp-arrays by jfr on 2008-02-29 15:59:50 as *** along with 4 people kentsis acorner tabu rdiaz
  • Silence of chromosomal amplifications in colon cancer.
    Cancer Res, Vol. 62, No. 4. (15 February 2002), pp. 1134-1138.
    by P Platzer, MB Upender, K Wilson, J Willis, J Lutterbaugh, A Nosrati, JK Willson, D Mack, T Ried, S Markowitz
    posted to colon_cancer copy-number gene_expression integration by jfr on 2008-02-19 16:33:01 as read
  • Relationship of Gene Expression and Chromosomal Abnormalities in Colorectal Cancer
    Cancer Res, Vol. 66, No. 4. (15 February 2006), pp. 2129-2137.
    by Dafna Tsafrir, Manny Bacolod, Zachariah Selvanayagam, Ilan Tsafrir, Jinru Shia, Zhaoshi Zeng, Hao Liu, Curtis Krier, Robert F Stengel, Francis Barany, William L Gerald, Philip B Paty, Eytan Domany, Daniel A Notterman
    posted to array-cgh colon_cancer gene_expression integration progression snp-arrays by jfr on 2008-02-11 12:17:14 as read along with 2 people bioguru2000 cpnP
  • Evaluation and integration of 49 genome-wide experiments and the prediction of previously unknown obesity-related genes
    Bioinformatics, Vol. 23, No. 21. (1 November 2007), pp. 2910-2917.
    by Sangeeta B English, Atul J Butte
    posted to integration meta-analysis by jfr on 2008-02-05 12:09:45 as *** along with 5 people yaredo tmmurali nedwards barriot jyuh
  • Integrative microarray analysis of pathways dysregulated in metastatic prostate cancer.
    Cancer Res, Vol. 67, No. 21. (1 November 2007), pp. 10296-10303.
    by SR Setlur, TE Royce, A Sboner, JM Mosquera, F Demichelis, MD Hofer, KD Mertz, M Gerstein, MA Rubin
    posted to integration pathway_analysis meta-analysis by jfr on 2008-02-04 09:52:11 as *** along with 2 people oelemento dragonrez
  • Integrated analysis of independent gene expression microarray datasets improves the predictability of breast cancer outcome
    BMC Genomics, Vol. 8 (20 September 2007), 331.
    by Zhe Zhang, Dechang Chen, David A Fenstermacher
    posted to breast_cancer classification integration by jfr on 2008-02-04 09:31:53 as read
  • Protein network inference from multiple genomic data: a supervised approach.
    Bioinformatics, Vol. 20 Suppl 1 (4 August 2004)
    by Y Yamanishi, JP Vert, M Kanehisa
    posted to integration motif network by jfr on 2008-01-28 16:05:54 as *** along with 2 people bioinfo iris_2001
  • The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration
    Nat Biotech, Vol. 25, No. 11. (November 2007), pp. 1251-1255.
    by Barry Smith, Michael Ashburner, Cornelius Rosse, Jonathan Bard, William Bug, Werner Ceusters, Louis J Goldberg, Karen Eilbeck, Amelia Ireland, Christopher J Mungall, Neocles Leontis, Philippe Rocca-Serra, Alan Ruttenberg, Susanna-Assunta Sansone, Richard H Scheuermann, Nigam Shah, Patricia L Whetzel, Suzanna Lewis
    posted to integration software standards by jfr on 2008-01-23 15:34:48 as * along with 14 people and 2 groups tmmurali dullhunk jandot cjeans leechuck sgoetz PunkRock sobolevnrm lenov AlexanderPico dansullivanblk dagmar marck fgibson baker-group csb_journal_club_public
  • Gene expression in 16q is associated with survival and differs between Sørlie breast cancer subtypes.
    Genes Chromosomes Cancer, Vol. 46, No. 1. (January 2007), pp. 87-97.
    by K Wennmalm, S Calza, A Ploner, P Hall, J Bjöhle, S Klaar, J Smeds, Y Pawitan, J Bergh
    posted to breast_cancer copy-number integration subtypes by jfr on 2008-01-23 15:16:18 as **
  • Combining functional and topological properties to identify core modules in protein interaction networks
    Proteins: Structure, Function, and Bioinformatics, Vol. 64, No. 4. (2006), pp. 948-959.
    by Zelmina Lubovac, Jonas Gamalielsson, Björn Olsson
    posted to integration motif network by jfr on 2008-01-23 15:12:18 as ** along with 1 person conkymacro
  • A Gibbs sampler for the identification of gene expression and network connectivity consistency.
    Bioinformatics (23 October 2006)
    by Mark P P Brynildsen, Linh M M Tran, James C C Liao
    posted to integration network protein_interaction by jfr on 2008-01-09 12:09:17 as *** along with 1 person gpalidwor
  • Integration of biological networks and gene expression data using Cytoscape.
    Nat Protoc, Vol. 2, No. 10. (2007), pp. 2366-2382.
    by MS Cline, M Smoot, E Cerami, A Kuchinsky, N Landys, C Workman, R Christmas, I Avila-Campilo, M Creech, B Gross, K Hanspers, R Isserlin, R Kelley, S Killcoyne, S Lotia, S Maere, J Morris, K Ono, V Pavlovic, AR Pico, A Vailaya, PL Wang, A Adler, BR Conklin, L Hood, M Kuiper, C Sander, I Schmulevich, B Schwikowski, GJ Warner, T Ideker, GD Bader
    posted to integration network software by jfr on 2008-01-09 11:46:14 as read along with 11 people and 1 group cswinburne giovenko isimpson emmackinnon yaredo Stew jyuh shikin shung thomaskelder AlexanderPico GeneGo
  • Discovering molecular pathways from protein interaction and gene expression data.
    Bioinformatics, Vol. 19 Suppl 1 (2003)
    by E Segal, H Wang, D Koller
    posted to integration network by jfr on 2008-01-09 11:42:50 as read along with 6 people and 1 group lfriedl wnpx noano bhaddow edwardmorrissey jiny kdl
  • Integrative analysis of multiple gene expression profiles with quality-adjusted effect size models.
    BMC Bioinformatics, Vol. 6 (2005)
    by P Hu, CM Greenwood, J Beyene
    posted to integration meta-analysis by jfr on 2008-01-09 11:33:32 as *** along with 1 person nuin
  • Genome-wide combination profiling of copy number and methylation offers an approach for deciphering misregulation and development in cancer cells.
    Gene, Vol. 407, No. 1-2. (15 January 2008), pp. 139-147.
    by JJ Park, JK Kang, S Hong, ES Ryu, JI Kim, JH Lee, JS Seo
    posted to copy-number integration methylation by jfr on 2007-12-19 09:26:11 as read
  • Revealing signaling pathway deregulation by using gene expression signatures and regulatory motif analysis
    Genome Biology, Vol. 8 (11 May 2007), R77.
    by Yingchun Liu, Markus Ringner
    posted to integration regulation by jfr on 2007-12-07 13:25:22 as *** along with 1 person ptrobajo
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