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jfr library [1584 articles]

Статьи, недавно добавленные в библиотеку jfr library ordered by importance.
  • Deciphering cellular states of innate tumor drug responses.
    Genome Biol, Vol. 7, No. 3. (2006)
    by E Graudens, V Boulanger, C Mollard, R Mariage-Samson, X Barlet, G Grémy, C Couillault, M Lajémi, D Piatier-Tonneau, P Zaborski, E Eveno, C Auffray, S Imbeaud
    posted to colon_cancer gene_expression treatment by jfr on 2008-02-15 13:54:05 as ***** along with 1 person dragonrez
  • Outlier sums for differential gene expression analysis.
    Biostatistics (15 May 2006)
    by Robert Tibshirani, Trevor Hastie
    posted to bioinformatics mutations by jfr on 2006-11-03 16:29:57 as *****
  • Identification of cancer genes using a statistical framework for multiexperiment analysis of nondiscretized array CGH data.
    Nucleic acids research, Vol. 36, No. 2. (February 2008)
    by C Klijn, H Holstege, J de Ridder, X Liu, M Reinders, J Jonkers, L Wessels
    posted to breast_cancer bioinformatics array-cgh by jfr on 2008-07-10 17:03:13 as ****
  • Discovering microRNAs from deep sequencing data using miRDeep
    Nature Biotechnology, Vol. 26, No. 4., pp. 407-415.
    by Marc R Friedländer, Wei Chen, Catherine Adamidi, Jonas Maaskola, Ralf Einspanier, Signe Knespel, Nikolaus Rajewsky
    posted to mirna deep_sequencing by jfr on 2008-06-27 09:11:18 as **** along with 3 people and 1 group stajich tmmurali giovanni Berkeley Mycology
  • Comprehensive MicroRNA Profiling Reveals a Unique Human Embryonic Stem Cell Signature Dominated by a Single Seed Sequence
    Stem Cells (10 April 2008), 2007-1081.
    by Louise C Laurent, Jing Chen, Igor Ulitsky, Franz J Mueller, Christina Lu, Ron Shamir, Jian B Fan, Jeanne F Loring
    posted to stem_cell mirna by jfr on 2008-05-19 11:42:27 as **** along with 1 person and 1 group slevy03 VUMCGenomics
  • 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
  • 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 **** along with 1 person AlexanderPico
  • 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 ****
  • Building pathway clusters from Random Forests classification using class votes
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Herbert Pang, Hongyu Zhao
    posted to pathway_analysis network clustering by jfr on 2008-04-29 15:40:12 as **** along with 4 people AlexanderPico jyuh xtizon thomaskelder
  • Learning from positive examples when the negative class is undetermined- microRNA gene identification
    Algorithms for Molecular Biology, Vol. 3 (28 January 2008), 2.
    by Malik Yousef, Segun Jung, Louise C Showe, Michael K Showe
    posted to mirna_target methodology by jfr on 2008-04-28 16:23:35 as **** along with 1 person jjheck
  • Quantitative systems-level determinants of human genes targeted by successful drugs
    Genome Res. (14 December 2007), gr.6888208.
    by Lixia Yao, Andrey Rzhetsky
    posted to drug_discovery by jfr on 2008-04-22 06:54:01 as **** along with 2 people tmmurali caseybrown
  • Characterization of microRNA expression levels and their biological correlates in human cancer cell lines.
    Cancer Res, Vol. 67, No. 6. (15 March 2007), pp. 2456-2468.
    by A Gaur, DA Jewell, Y Liang, D Ridzon, JH Moore, C Chen, VR Ambros, MA Israel
    posted to mirna nci60 by jfr on 2008-04-21 09:12:26 as **** along with 2 people and 1 group ealloza elzodw BioinfoCIPF
  • Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes.
    RNA, Vol. 11, No. 3. (March 2005), pp. 241-247.
    by S Baskerville, DP Bartel
    posted to co-expression mirna by jfr on 2008-04-21 09:09:39 as **** along with 4 people and 1 group mtagaya ealloza lp2 heliopais microRNA
  • A disattenuated correlation estimate when variables are measured with error: illustration estimating cross-platform correlations.
    Statistics in medicine, Vol. 27, No. 7. (30 March 2008), pp. 1026-1039.
    by KJ Archer, CI Dumur, GS Taylor, MD Chaplin, A Guiseppi-Elie, GA Buck, G Grant, A Ferreira-Gonzalez, CT Garrett
    posted to correlation platform_comparison by jfr on 2008-04-17 18:14:35 as **** along with 1 person jyuh
  • How large a training set is needed to develop a classifier for microarray data?
    Clinical cancer research : an official journal of the American Association for Cancer Research, Vol. 14, No. 1. (1 January 2008), pp. 108-114.
    by KK Dobbin, Y Zhao, RM Simon
    posted to classification experiment_design methodology statistics by jfr on 2008-04-14 16:46:36 as **** along with 2 people jyuh Natowicz
  • Prediction and preliminary validation of oncogene regulation by miRNAs
    BMC Molecular Biology, Vol. 8 (18 September 2007), 79.
    by Edyta Koscianska, Vesselin Baev, Konstantinia Skreka, Katerina Oikonomaki, Ventsislav Rusinov, Martin Tabler, Kriton Kalantidis
    posted to mirna by jfr on 2008-04-11 18:39:58 as ****
  • Natural selection on human microRNA binding sites inferred from SNP data.
    Nat Genet (29 October 2006)
    by Kevin Chen, Nikolaus Rajewsky
    posted to mirna by jfr on 2008-04-09 14:47:24 as **** along with 8 people and 3 groups bpcusack tardigrade andersbj mtagaya ealloza plofje Garamonfok heliopais Bioinformatics microRNA BioinfoCIPF
  • 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 ****
  • 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 ****
  • Assessment of algorithms for high throughput detection of genomic copy number variation in oligonucleotide microarray data
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Agnes Baross, Allen Delaney, Irene H Li, Tarun Nayar, Stephane Flibotte, Hong Qian, Susanna Chan, Jennifer Asano, Adrian Ally, Manqiu Cao, Patricia Birch, Mabel B John, Nicole Fernandes, Anne Go, Giulia Kennedy, Sylvie Langlois, Patrice Eydoux, J Friedman, Marco Marra
    posted to array-cgh comparison copy-number snp-arrays software by jfr on 2008-04-09 13:28:14 as **** along with 1 person niallhaslam
  • Ultraconserved Regions Encoding ncRNAs Are Altered in Human Leukemias and Carcinomas.
    Cancer Cell, Vol. 12, No. 3. (September 2007), pp. 215-229.
    by GA Calin, CG Liu, M Ferracin, T Hyslop, R Spizzo, C Sevignani, M Fabbri, A Cimmino, EJ Lee, SE Wojcik, M Shimizu, E Tili, S Rossi, C Taccioli, F Pichiorri, X Liu, S Zupo, V Herlea, L Gramantieri, G Lanza, H Alder, L Rassenti, S Volinia, TD Schmittgen, TJ Kipps, M Negrini, CM Croce
    posted to mirna non-coding by jfr on 2008-04-09 12:56:36 as **** along with 3 people and 1 group andersbj maximilianh fpattyn microRNA
  • Associations of Ki-ras proto-oncogene mutation and p53 gene overexpression in sporadic colorectal adenomas with demographic and clinicopathologic characteristics.
    Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology, Vol. 15, No. 8. (August 2006), pp. 1443-1450.
    by JG Einspahr, ME Martinez, R Jiang, CH Hsu, A Rashid, AK Bhattacharrya, DJ Ahnen, ET Jacobs, PS Houlihan, CR Webb, DS Alberts, SR Hamilton
    posted to colon_cancer kras mutations p53 by jfr on 2008-04-07 12:51:07 as ****
  • 18q loss of heterozygosity in microsatellite stable colorectal cancer is correlated positively with CpG island methylator phenotype-negative (CIMP-negative) and inversely with CIMP-low and CIMP-high
    BMC Cancer, Vol. 7 (02 May 2007), 72.
    by Shuji Ogino, Takako Kawasaki, Gregory J Kirkner, Mutsuko Ohnishi, Charles S Fuchs
    posted to 18q_loh colon_cancer methylation by jfr on 2008-03-17 16:02:42 as ****
  • 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
  • Copy Number Variants and Common Disorders: Filling the Gaps and Exploring Complexity in Genome-Wide Association Studies
    PLoS Genetics, Vol. 3, No. 10. (1 October 2007), e190.
    by Xavier Estivill, Lluís Armengol
    posted to copy-number review by jfr on 2008-02-19 15:08:06 as **** along with 1 person giovanni
  • Genome-wide, high-resolution detection of copy number, loss of heterozygosity, and genotypes from formalin-fixed, paraffin-embedded tumor tissue using microarrays.
    Cancer Res, Vol. 67, No. 6. (15 March 2007), pp. 2544-2551.
    by S Jacobs, ER Thompson, Y Nannya, G Yamamoto, R Pillai, S Ogawa, DK Bailey, IG Campbell
    posted to snp-arrays affy ffpe by jfr on 2008-02-11 16:54:39 as ****
  • Tissue handling for genome-wide expression analysis: a review of the issues, evidence, and opportunities.
    Arch Pathol Lab Med, Vol. 131, No. 12. (December 2007), pp. 1805-1816.
    by F Medeiros, CT Rigl, GG Anderson, SH Becker, KC Halling
    posted to review rna_quality by jfr on 2008-02-11 15:02:28 as ****
  • Relationship between genetic alterations and prognosis in sporadic colorectal cancer
    International Journal of Cancer, Vol. 118, No. 7. (2006), pp. 1721-1727.
    by Shih-Ching Chang, Jen-Kou Lin, Shung H Yang, Huann-Sheng Wang, Anna F Li, Chin-Wen Chi
    posted to colon_cancer mutations prognosis by jfr on 2008-02-08 14:12:17 as **** along with 1 person cpnP
  • Influence of age on adenomatous polyposis coli and p53 mutation frequency in sporadic colorectal cancer-rarity of co-occurrence of mutations in APC, K-ras, and p53 genes.
    Virchows Arch, Vol. 445, No. 5. (November 2004), pp. 465-471.
    by JM Chiang, YH Wu Chou, SC Ma, JR Chen
    posted to colon_cancer mutations progression by jfr on 2008-02-08 14:10:41 as ****
  • Molecular interactions in the Vogelstein model of colorectal carcinoma.
    J Pathol, Vol. 190, No. 4. (March 2000), pp. 412-416.
    by JW Arends
    posted to colon_cancer mutations progression review by jfr on 2008-02-08 14:07:21 as ****
  • A statistical method to incorporate biological knowledge for generating testable novel gene regulatory interactions from microarray experiments
    BMC Bioinformatics, Vol. 8 (29 August 2007), 317.
    by Peter Larsen, Eyad Almasri, Guanrao Chen, Yang Dai
    posted to gene_interaction regulation by jfr on 2008-02-04 13:33:13 as **** along with 2 people jyuh shigepong
  • Drug[mdash]target network
    Nat Biotech, Vol. 25, No. 10. (October 2007), pp. 1119-1126.
    by Muhammed A Yildirim, Kwang-Il Goh, Michael E Cusick, Albert-Laszlo Barabasi, Marc Vidal
    posted to network therapy by jfr on 2008-02-04 11:41:06 as **** along with 9 people and 1 group Yanno jyuh cannin julius grahamc cjeans zwang dejori mingzhi libr
  • Graph-based consensus clustering for class discovery from gene expression data
    Bioinformatics, Vol. 23, No. 21. (1 November 2007), pp. 2888-2896.
    by Zhiwen Yu, Hau-San Wong, Hongqiang Wang
    posted to consensus_clustering graphs methodology by jfr on 2008-01-28 15:00:30 as **** along with 3 people jyuh aviad_work dps
  • Molecular subtyping of breast cancer: opportunities for new therapeutic approaches.
    Cell Mol Life Sci (22 October 2007)
    by P B Mullan, R C Millikan
    posted to breast_cancer review subtypes therapy by jfr on 2007-12-17 12:20:27 as ****
  • MicroRNA expression profiles for the NCI-60 cancer cell panel
    Mol Cancer Ther, Vol. 6, No. 5. (1 May 2007), pp. 1483-1491.
    by Paul E Blower, Joseph S Verducci, Shili Lin, Jin Zhou, Ji-Hyun Chung, Zunyan Dai, Chang-Gong Liu, William Reinhold, Philip L Lorenzi, Eric P Kaldjian, Carlo M Croce, John N Weinstein, Wolfgang Sadee
    posted to mirna nci60 by jfr on 2007-12-17 12:10:12 as **** along with 1 person elzodw
  • Consensus genes of the literature to predict breast cancer recurrence.
    Breast Cancer Res Treat (26 September 2007)
    by Martin Lauss, Albert Kriegner, Klemens Vierlinger, Ilhami Visne, Ahmet Yildiz, Erkan Dilaveroglu, Christa Noehammer
    posted to meta-analysis breast_cancer by jfr on 2007-12-07 13:35:34 as ****
  • Comparing the DNA hypermethylome with gene mutations in human colorectal cancer.
    PLoS Genet, Vol. 3, No. 9. (21 September 2007), pp. 1709-1723.
    by KE Schuebel, W Chen, L Cope, SC Glöckner, H Suzuki, JM Yi, TA Chan, L Van Neste, W Van Criekinge, S van den Bosch, M van Engeland, AH Ting, K Jair, W Yu, M Toyota, K Imai, N Ahuja, JG Herman, SB Baylin
    posted to colon_cancer methylation by jfr on 2007-12-07 13:10:48 as ****
  • Robust interlaboratory reproducibility of a gene expression signature measurement consistent with the needs of a new generation of diagnostic tools
    BMC Genomics, Vol. 8 (07 June 2007), 148.
    by Robert A Ach, Arno Floore, Bo Curry, Vladimir Lazar, Annuska M Glas, Rob Pover, Anya Tsalenko, Hugues Ripoche, Fatima Cardoso, Mahasti S D'assignies, Laurakay Bruhn, Laura
    posted to boutique_arrays classification microarray_technology by jfr on 2007-12-06 11:25:04 as ****
  • Human disease classification in the postgenomic era: A complex systems approach to human pathobiology
    Mol Syst Biol, Vol. 3 (10 July 2007)
    by Joseph Loscalzo, Isaac Kohane, Albert-Laszlo Barabasi
    posted to network review systems_biology by jfr on 2007-12-06 10:22:50 as **** along with 6 people and 2 groups Yanno kentsis yas dchughes zwang nolodie G4ID Genetics-of-Gambling
  • Automated Discovery of Functional Generality of Human Gene Expression Programs.
    PLoS Comput Biol, Vol. 3, No. 8. (10 August 2007)
    by Georg K K Gerber, Robin D D Dowell, Tommi S S Jaakkola, David K K Gifford
    posted to class_discovery clustering nmf by jfr on 2007-12-04 17:44:49 as **** along with 2 people and 1 group Einat sebastien_vigneau structural_bioinformatics
  • Large-scale integration of cancer microarray data identifies a robust common cancer signature
    BMC Bioinformatics, Vol. 8 (30 July 2007), 275.
    by Lei Xu, Donald Geman, Raimond L Winslow
    posted to meta-analysis classification integration by jfr on 2007-12-04 15:24:37 as **** along with 1 person shigepong
  • Protein interactions and disease: computational approaches to uncover the etiology of diseases
    Brief Bioinform (16 July 2007), bbm031.
    by Maricel G Kann
    posted to network protein_interaction review by jfr on 2007-12-03 17:39:13 as **** along with 4 people jyuh tmmurali AbnerCYH barriot
  • A robust measure of correlation between two genes on a microarray
    BMC Bioinformatics, Vol. 8 (25 June 2007), 220.
    by Johanna S Hardin, Aya Mitani, Leanne Hicks, Brian Vankoten
    posted to correlation by jfr on 2007-12-03 11:21:59 as **** along with 3 people shigepong GeeSharpMinor fmenolascina
  • Molecular response to aromatase inhibitor treatment in primary breast cancer
    Breast Cancer Research, Vol. 9 (07 June 2007), R37.
    by Alan G Mackay, Ander Urruticoechea, JM Dixon, Tim Dexter, Kerry Fenwick, Alan Ashworth, Suzanne Drury, Alexey Larionov, Oliver Young, Sharon White, William R Miller, Dean B Evans, Mitch Dowsett
    posted to breast_cancer therapy by jfr on 2007-11-28 13:07:54 as ****
  • A statistical framework for genomic data fusion.
    Bioinformatics, Vol. 20, No. 16. (1 November 2004), pp. 2626-2635.
    by GR Lanckriet, T De Bie, N Cristianini, MI Jordan, WS Noble
    posted to integration by jfr on 2007-11-28 13:03:17 as **** along with 5 people ptrobajo carlk tmmurali mbeautru nedwards
  • Understanding Network Concepts in Modules
    BMC Systems Biology, Vol. 1, No. 1. (2007)
    by Jun Dong, Steve Horvath
    posted to network by jfr on 2007-11-28 11:09:25 as **** along with 3 people and 1 group kengg grahamc natstreet Bioinformatics
  • Analysis of breast cancer progression using principal component analysis and clustering.
    J Biosci, Vol. 32, No. 5. (August 2007), pp. 1027-1039.
    by G Alexe, GS Dalgin, S Ganesan, C Delisi, G Bhanot
    posted to breast_cancer class_discovery subtypes by jfr on 2007-11-27 13:26:40 as ****
  • Challenges in the stratification of breast tumors for tailored therapies.
    Bull Cancer, Vol. 93, No. 8. (1 August 2006)
    by JP Thiery, X Sastre-Garau, B Vincent-Salomon, X Sigal-Zafrani, JY Pierga, C Decraene, JP Meyniel, E Gravier, B Asselain, Y De Rycke, P Hupe, E Barillot, S Ajaz, M Faraldo, MA Deugnier, M Glukhova, D Medina,
    posted to breast_cancer class_discovery review subtypes by jfr on 2007-11-27 09:54:52 as ****
  • A mixture model approach to the tests of concordance and discordance between two large-scale experiments with two-sample groups
    Bioinformatics, Vol. 23, No. 10. (15 May 2007), pp. 1243-1250.
    by Yinglei Lai, Bao-Ling Adam, Robert Podolsky, Jin-Xiong She
    posted to integration by jfr on 2007-11-26 14:32:41 as **** along with 1 person ugengma
  • A new molecular breast cancer subclass defined from a large scale real-time quantitative RT-PCR study
    BMC Cancer, Vol. 7 (05 March 2007), 39.
    by Maia Chanrion, Helene Fontaine, Carmen Rodriguez, Vincent Negre, Frederic Bibeau, Charles Theillet, Alain Henaut, Jean-Marie Darbon
    posted to breast_cancer class_discovery rt-pcr subtypes by jfr on 2007-11-26 10:30:46 as ****
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