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jfr library [1478 articles]

最近 jfr さんのライブラリ .
  • Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
    Genome Res. (19 February 2008), gr.7179508.
    by Ryan D Morin, Michael D O'Connor, Malachi Griffith, Florian Kuchenbauer, Allen Delaney, Anna-Liisa Prabhu, Yongjun Zhao, Helen Mcdonald, Thomas Zeng, Martin Hirst, Connie J Eaves, Marco A Marra
    posted to stem_cell mirna deep_sequencing by jfr on 2008-05-16 10:35:12 as ** along with 2 people and 1 group stajich maralena Berkeley Mycology
  • Protein networks in disease
    Genome Res., Vol. 18, No. 4. (1 April 2008), pp. 644-652.
    by Trey Ideker, Roded Sharan
    posted to review protein_interaction network by jfr on 2008-05-16 10:33:51 as **** along with 13 people thomaskelder gracio schuylrp jyuh tmmurali Borelli jwdietrich frohike bootsy nedwards roys mclarenv phoenixzxl
  • Understanding the physics of oligonucleotide microarrays: the Affymetrix spike-in data reanalysed.
    Physical biology, Vol. 5, No. 1. (2008)
    by CJ Burden
    posted to low_level affy by jfr on 2008-05-16 10:27:30 as **
  • Prediction of human disease genes by human-mouse conserved coexpression analysis.
    PLoS computational biology, Vol. 4, No. 3. (March 2008)
    by U Ala, RM Piro, E Grassi, C Damasco, L Silengo, M Oti, P Provero, F Di Cunto
    posted to co-expression by jfr on 2008-05-16 10:25:50 as **
  • Entropy measures quantify global splicing disorders in cancer.
    PLoS computational biology, Vol. 4, No. 3. (March 2008)
    by W Ritchie, S Granjeaud, D Puthier, D Gautheret
    posted to alternative_splicing by jfr on 2008-05-16 10:24:21 as ***
  • 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
  • Differential analysis for high density tiling microarray data
    BMC Bioinformatics, Vol. 8 (24 September 2007), 359.
    by Srinka Ghosh, Heather A Hirsch, Edward A Sekinger, Philipp Kapranov, Kevin Struhl, Thomas R Gingeras
    posted to tiling_array feature_selection by jfr on 2008-05-16 10:10:43 as *
  • Lightweight Genome Viewer: portable software for browsing genomics data in its chromosomal context
    BMC Bioinformatics, Vol. 8 (18 September 2007), 344.
    by Jeremiah J Faith, Andrew J Olson, Timothy S Gardner, Ravi Sachidanandam
    posted to software genome_browser bioinformatics annotation by jfr on 2008-05-16 10:09:05 as *
  • Oncomirs — microRNAs with a role in cancer
    Nature Reviews Cancer, Vol. 6, No. 4., pp. 259-269.
    by Aurora Esquela-Kerscher, Frank J Slack
    posted to review mirna by jfr on 2008-05-16 10:05:34 as **** along with 7 people and 6 groups jyuh marcius eckart_bindewald xico dchughes cdawson ealloza WetBiology G4ID BioinfoCIPF SGU-CIPF GIG Genetics-of-Gambling
  • JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update.
    Nucleic Acids Res (15 November 2007)
    by Jan Christian C Bryne, Eivind Valen, Man-Hung Eric H Tang, Troels Marstrand, Ole Winther, Isabelle da Piedade, Anders Krogh, Boris Lenhard, Albin Sandelin
    posted to tfbs database by jfr on 2008-05-16 10:03:56 as ** along with 4 people jyuh dullhunk idonaldson sci91078
  • Multivariate hierarchical Bayesian model for differential gene expression analysis in microarray experiments.
    BMC bioinformatics, Vol. 9 Suppl 1 (2008)
    by H Zhao, KL Chan, LM Cheng, H Yan
    posted to feature_selection fdr by jfr on 2008-05-16 09:44:30 as ** along with 1 person naegele
  • How to decide which are the most pertinent overly-represented features during gene set enrichment analysis
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Roland Barriot, David Sherman, Isabelle Dutour
    posted to gene_set_analysis by jfr on 2008-05-16 09:43:26 as ** along with 6 people and 2 groups heliopais jyuh ealloza barriot waghsk mcgannd Bioinformatics BioinfoCIPF
  • Pathway Analysis of Microarray Data via Regression
    Journal of Computational Biology, Vol. 0, No. 0. (0), pp. 1-9.
    by AJ Adewale, I Dinu, JD Potter, Q Liu, Y Yasui
    posted to pathway_analysis by jfr on 2008-05-14 11:50:02 as ** along with 4 people heliopais tmmurali csgillespie huali
  • Validation and extension of an empirical Bayes method for SNP calling on Affymetrix microarrays
    Genome Biology, Vol. 9 (03 April 2008), R63.
    by Shin Lin, Benilton Carvalho, David J Cutler, Dan E Arking, Aravinda Chakravarti, Rafael A Irizarry
    posted to software snp_arrays genotyping bioconductor by jfr on 2008-05-07 11:17:14 as read along with 1 person natstreet
  • Computational Modeling of Post-Transcriptional Gene Regulation by MicroRNAs.
    J Comput Biol (11 March 2008)
    by Raya Khanin, Veronica Vinciotti
    posted to regulation mirna methodology by jfr on 2008-05-05 15:48:09 as ** along with 3 people bootsy eckart_bindewald maralena
  • Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)
    Nature Biotechnology, Vol. 26, No. 3. (07 March 2008), pp. 305-312.
    by Eric W Deutsch, Catherine A Ball, Jules J Berman, Steven G Bova, Alvis Brazma, Roger E Bumgarner, David Campbell, Helen C Causton, Jeffrey H Christiansen, Fabrice Daian, Delphine Dauga, Duncan R Davidson, Gregory Gimenez, Young A Goo, Sean Grimmond, Thorsten Henrich, Bernhard G Herrmann, Michael H Johnson, Martin Korb, Jason C Mills, Asa J Oudes, Helen E Parkinson, Laura E Pascal, Nicolas Pollet, John Quackenbush, Mirana Ramialison, Martin Ringwald, David Salgado, Susanna-Assunta Sansone, Gavin Sherlock, Christian J Stoeckert, Jason Swedlow, Ronald C Taylor, Laura Walashek, Anthony Warford, David G Wilkinson, Yi Zhou, Leonard I Zon, Alvin Y Liu, Lawrence D True
    posted to standards in_situ_hybridization immunohistochemistry by jfr on 2008-05-05 11:12:40 as * along with 3 people and 1 group psique katerinakal zwang parkinson's disease references
  • CMARRT: a tool for the analysis of ChIP-chip data from tiling arrays by incorporating the correlation structure.
    Pac Symp Biocomput (2008), pp. 515-526.
    by PF Kuan, H Chun, S Keleş
    posted to software chip-chip by jfr on 2008-05-05 11:10:00 as ** along with 1 person idonaldson
  • Ab initio identification of human microRNAs based on structure motifs
    BMC Bioinformatics, Vol. 8 (18 December 2007), 478.
    by Markus Brameier, Carsten Wiuf
    posted to mirna methodology by jfr on 2008-05-05 11:07:56 as ** along with 1 person sventura
  • Direct multiplexed measurement of gene expression with color-coded probe pairs.
    Nat Biotechnol (17 February 2008)
    by Gary K K Geiss, Roger E E Bumgarner, Brian Birditt, Timothy Dahl, Naeem Dowidar, Dwayne L L Dunaway, H Perry P Fell, Sean Ferree, Renee D D George, Tammy Grogan, Jeffrey J J James, Malini Maysuria, Jeffrey D D Mitton, Paola Oliveri, Jennifer L L Osborn, Tao Peng, Amber L L Ratcliffe, Philippa J J Webster, Eric H H Davidson, Leroy Hood
    posted to microarray_technology by jfr on 2008-05-05 11:05:40 as ** along with 6 people and 2 groups psique jyuh austin vplagnol GeeSharpMinor shikin parkinson's disease references GeneGo
  • What is principal component analysis?
    Nature Biotechnology, Vol. 26, No. 3., pp. 303-304.
    by Markus Ringnér
    posted to tutorial pca by jfr on 2008-05-05 11:04:19 as ** along with 45 people and 3 groups chrissp100 xingxu dekay23 rvosa i-stevenson dimka dayjm markusd ashko craigwilson06 abbie_riner quianominorleo bibay2004 kristgy pavanghatty rchauhan waghsk hpaces adacier fryanpan sobolevnrm Yanno jyuh operon barry baaic laharrin dullhunk Bevan_Weir zeji gareth massivemayhem zwang GustavoLacerda GeeSharpMinor bmaust zambujo mingzhi starz1010101 maralena wchannels sunhwan jennifermbui kdelavega zhouyu FAB-lab Bioinformatics baker-group
  • 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 2 people giovenko waszak
  • A single gene network accurately predicts phenotypic effects of gene perturbation in Caenorhabditis elegans
    Nature Genetics, Vol. 40, No. 2. (27 January 2008), pp. 181-188.
    by Insuk Lee, Ben Lehner, Catriona Crombie, Wendy Wong, Andrew G Fraser, Edward M Marcotte
    posted to network by jfr on 2008-05-05 10:46:20 as **** along with 7 people tmmurali balicea capitall roys jiny kintoki meiklej
  • Analysis of microRNA-target interactions by a target structure based hybridization model.
    Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2008), pp. 64-74.
    by D Long, CY Chan, Y Ding
    posted to mirna_target methodology by jfr on 2008-05-05 10:44:24 as ** along with 1 person mtagaya
  • Comparing sequence and expression for predicting microRNA targets using GenMiR3.
    Pac Symp Biocomput (2008), pp. 52-63.
    by JC Huang, BJ Frey, QD Morris
    posted to mirna_target methodology by jfr on 2008-05-05 10:42:48 as ** along with 1 person and 1 group heliopais microRNA
  • 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
  • Machine learning methods for predictive proteomics.
    Brief Bioinform (29 February 2008)
    by Annalisa Barla, Giuseppe Jurman, Samantha Riccadonna, Stefano Merler, Marco Chierici, Cesare Furlanello
    posted to review proteomics machine_learning classification by jfr on 2008-05-04 23:47:30 as ** along with 2 people neils phoenixzxl
  • 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 3 people 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 ** along with 1 person inesdesantiago
  • MIRIAM Resources: tools to generate and resolve robust cross-references in Systems Biology
    BMC Systems Biology, Vol. 1, No. 1. (2007)
    by Camille Laibe, Nicolas Le Novere
    posted to systems_biology standards by jfr on 2008-05-04 23:01:05 as * along with 3 people jyuh tmmurali lenov
  • Eigengene networks for studying the relationships between co-expression modules
    BMC Systems Biology, Vol. 1, No. 1. (2007)
    by Peter Langfelder, Steve Horvath
    posted to software network co-expression by jfr on 2008-05-04 22:58:45 as **
  • Open-Source Tools for Data Mining
    Clinics in Laboratory Medicine, Vol. 28, No. 1. (March 2008), pp. 37-54.
    by Blaz Zupan, Janez Demsar
    posted to software review open-source by jfr on 2008-05-04 22:50:32 as ** along with 2 people jyuh imrchen
  • Consensus and Meta-analysis regulatory networks for combining multiple microarray gene expression datasets.
    Journal of biomedical informatics (6 February 2008)
    by Emma Steele, Allan Tucker
    posted to network methodology meta-analysis by jfr on 2008-05-04 22:41:21 as ****
  • Practical guidelines for assessing power and false discovery rate for a fixed sample size in microarray experiments.
    Stat Med (12 March 2008)
    by Tiejun Tong, Hongyu Zhao
    posted to sample_size methodology fdr by jfr on 2008-05-04 22:25:02 as ** along with 1 person jyuh
  • 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 1 person acanario
  • SPACE: an algorithm to predict and quantify alternatively spliced isoforms using microarrays
    Genome Biology, Vol. 9 (29 February 2008), R46.
    by Miguel A Anton, Dorleta Gorostiaga, Elizabeth Guruceaga, Victor Segura, Pedro Carmona-Saez, Alberto Pascual-Montano, Ruben Pio, Luis M Montuenga, Angel Rubio
    posted to methodology alternative_splicing by jfr on 2008-05-04 22:09:12 as ** along with 3 people and 1 group stajich huali Baten Berkeley Mycology
  • 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
  • Extracting biology from high-dimensional biological data.
    J Exp Biol, Vol. 210, No. Pt 9. (May 2007), pp. 1507-1517.
    by J Quackenbush
    posted to review by jfr on 2008-04-30 18:22:56 as ** along with 4 people jyuh balicea Sharpshoot jo_davies
  • Effects of dependence in high-dimensional multiple testing problems
    BMC Bioinformatics, Vol. 9 (25 February 2008), 114.
    by Kyung I Kim, Mark A van de Wiel
    posted to multiple_testing fdr by jfr on 2008-04-30 18:21:51 as ** along with 3 people jyuh shigepong barriot
  • Clustering millions of tandem mass spectra.
    Journal of proteome research, Vol. 7, No. 1. (January 2008), pp. 113-122.
    by AM Frank, N Bandeira, Z Shen, S Tanner, SP Briggs, RD Smith, PA Pevzner
    posted to proteomics clustering by jfr on 2008-04-30 18:17:05 as **
  • SEGS: Search for enriched gene sets in microarray data.
    J Biomed Inform (15 December 2007)
    by Igor Trajkovski, Nada Lavrač, Jakub Tolar
    posted to gene_set_analysis by jfr on 2008-04-30 18:05:29 as ** along with 1 person jyuh
  • 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
  • Bioinformatics challenges of new sequencing technology
    Trends in Genetics, Vol. In Press, Corrected Proof
    by Mihai Pop, Steven L Salzberg
    posted to review deep_sequencing bioinformatics by jfr on 2008-04-30 17:58:27 as ** along with 8 people mariakmejia Neeperando jmeppley dchughes djkt GustavoLacerda niallhaslam urgi
  • What are artificial neural networks?
    Nature Biotechnology, Vol. 26, No. 2., pp. 195-197.
    by Anders Krogh
    posted to primer network by jfr on 2008-04-30 17:55:57 as ** along with 8 people adacier Yanno jyuh dullhunk zwang cabbagezs asddd sci91078
  • Human Proteinpedia enables sharing of human protein data
    Nature Biotechnology, Vol. 26, No. 2., pp. 164-167.
    by Suresh Mathivanan, Mukhtar Ahmed, Natalie G Ahn, Hainard Alexandre, Ramars Amanchy, Philip C Andrews, Joel S Bader, Brian M Balgley, Marcus Bantscheff, Keiryn L Bennett, Erik Björling, Blagoy Blagoev, Ron Bose, Samir K Brahmachari, Alma S Burlingame, Xosé R Bustelo, Gerard Cagney, Greg T Cantin, Helene L Cardasis, Julio E Celis, Raghothama Chaerkady, Feixia Chu, Philip A Cole, Catherine E Costello, Robert J Cotter, David Crockett, James P Delany, Angelo M De Marzo, Leroi V Desouza, Eric W Deutsch, Eric Dransfield, Gerard Drewes, Arnaud Droit, Michael J Dunn, Kojo Elenitoba-Johnson, Rob M Ewing, Jennifer Van Eyk, Vitor Faca, Jayson Falkner, Xiangming Fang, Catherine Fenselau, Daniel Figeys, Pierre Gagné, Cecilia Gelfi, Kris Gevaert, Jeffrey M Gimble, Florian Gnad, Renu Goel, Pavel Gromov, Samir M Hanash, William S Hancock, HC Harsha, Gerald Hart, Faith Hays, Fuchu He, Prashantha Hebbar, Kenny Helsens, Heiko Hermeking, Winston Hide, Karin Hjernø, Denis F Hochstrasser, Oliver Hofmann, David M Horn, Ralph H Hruban, Nieves Ibarrola, Peter James, Ole N Jensen, Pia H Jensen, Peter Jung, Kumaran Kandasamy, Indu Kheterpal, Reiko F Kikuno, Ulrike Korf, Roman Körner, Bernhard Kuster, Min-Seok Kwon, Hyoung-Joo Lee, Young-Jin Lee, Michael Lefevre, Minna Lehvaslaiho, Pierre Lescuyer, Fredrik Levander, Megan S Lim, Christian Löbke, Joseph A Loo, Matthias Mann, Lennart Martens, Juan Martinez-Heredia, Mark Mccomb, James Mcredmond, Alexander Mehrle, Rajasree Menon, Christine A Miller, Harald Mischak, Sujatha S Mohan, Riaz Mohmood, Henrik Molina, Michael F Moran, James D Morgan, Robert Moritz, Martine Morzel, David C Muddiman, Anuradha Nalli, Daniel J Navarro, Thomas A Neubert, Osamu Ohara, Rafael Oliva, Gilbert S Omenn, Masaaki Oyama, Young-Ki Paik, Kyla Pennington, Rainer Pepperkok, Balamurugan Periaswamy, Emanuel F Petricoin, Guy G Poirier, Keshava TS Prasad, Samuel O Purvine, Abdul B Rahiman, Prasanna Ramachandran, YL Ramachandra, Robert H Rice, Jens Rick, Ragna H Ronnholm, Johanna Salonen, Jean-Charles Sanchez, Thierry Sayd, Beerelli Seshi, Kripa Shankari, Shi J Sheng, Vivekananda Shetty, K Shivakumar, Richard J Simpson, Ravi Sirdeshmukh, Michael KW Siu, Jeffrey C Smith, Richard D Smith, David J States, Sumio Sugano, Matthew Sullivan, Giulio Superti-Furga, Maarit Takatalo, Visith Thongboonkerd, Jonathan C Trinidad, Mathias Uhlen, Joël Vandekerckhove, Julian Vasilescu, Timothy D Veenstra, José-Manuel Vidal-Taboada, Mauno Vihinen, Robin Wait, Xiaoyue Wang, Stefan Wiemann, Billy Wu, Tao Xu, John R Yates, Jun Zhong, Ming Zhou, Yunping Zhu, Petra Zurbig, Akhilesh Pandey
    posted to resource proteomics protein_interaction database annotation by jfr on 2008-04-30 16:55:49 as read along with 5 people jyuh tmmurali dullhunk jdiezperezj drbal
  • GSE: a comprehensive database system for the representation, retrieval, and analysis of microarray data.
    Pac Symp Biocomput (2008), pp. 539-550.
    by T Danford, A Rolfe, D Gifford
    posted to software database chip-chip by jfr on 2008-04-30 16:53:52 as ** along with 1 person idonaldson
  • 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 **
  • Quantitative expression profiling of highly degraded RNA from formalin-fixed, paraffin-embedded breast tumor biopsies by oligonucleotide microarrays
    Laboratory Investigation, Vol. aop, No. current.
    by Maria Ravo, Margherita Mutarelli, Lorenzo Ferraro, Olì, Ornella Paris, Roberta Tarallo, Alessandra Vigilante, Daniela Cimino, Michele De Bortoli, Ernesto Nola, Luigi Cicatiello, Alessandro Weisz
    posted to rna_quality illumina ffpe dasl by jfr on 2008-04-30 15:48:42 as ** along with 1 person jyuh
    • 注: このページを引用する時は次のURLでどうぞ: http://www.citeulike.org/user/jfr

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