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heliopais's library [479 articles]

Recent papers added to heliopais's library ordered by importance.
  • Individual mRNA expression profiles reveal the effects of specific microRNAs
    Genome Biology, Vol. 9 (16 May 2008), R82.
    by Amit Arora, David AC Simpson
    posted to microrna gene_sets by heliopais on 2008-06-11 14:54:50 as ***** along with 1 person and 1 group imtechnology microRNA
  • Altered brain microRNA biogenesis contributes to phenotypic deficits in a 22q11-deletion mouse model
    Nat Genet, Vol. 40, No. 6. (June 2008), pp. 751-760.
    by Kimberly L Stark, Bin Xu, Anindya Bagchi, Wen-Sung Lai, Hui Liu, Ruby Hsu, Xiang Wan, Paul Pavlidis, Alea A Mills, Maria Karayiorgou, Joseph A Gogos
    posted to microrna_biogenesis microrna microarray by heliopais on 2008-05-29 12:12:08 as ***** along with 1 group microRNA
  • A scoring matrix approach to detecting miRNA target sites
    Algorithms for Molecular Biology, Vol. 3 (31 March 2008), 3.
    by Simon Moxon, Vincent Moulton, Jan T Kim
    posted to microrna microrna_target_prediction by heliopais on 2008-04-09 09:54:15 as ***** along with 1 person and 1 group dquest microRNA
  • The Effect of Central Loops in miRNA:MRE Duplexes on the Efficiency of miRNA-Mediated Gene Regulation.
    PLoS ONE, Vol. 3, No. 3. (2008)
    by W Ye, Q Lv, CK Wong, S Hu, C Fu, Z Hua, G Cai, G Li, BB Yang, Y Zhang
    posted to microrna microrna_target_prediction by heliopais on 2008-03-26 13:35:39 as ***** along with 1 person and 1 group mtagaya microRNA
  • Genomic approaches to identifying transcriptional regulators of osteoblast differentiation
    Genome Biology, Vol. 4, No. 7. (1 July 2003), 222.
    by Joseph P Stains, Roberto Civitelli
    posted to bone_formation microarray by heliopais on 2008-02-26 15:36:21 as *****
  • Microarray analysis on Runx2-deficient mouse embryos reveals novel Runx2 functions and target genes during intramembranous and endochondral bone formation.
    Bone (13 June 2006)
    by Bart L T L Vaes, Patricia Ducy, Anneke M M Sijbers, José M A M Hendriks, Eugene P P van Someren, Nanning G G de Jong, Edwin R R van den Heuvel, Wiebe Olijve, Everardus J J J van Zoelen, Koen J J Dechering
    posted to chondrocyte microarray by heliopais on 2008-02-25 15:53:40 as ***** along with 1 person Schmidtc
  • Cartilage-selective genes identified in a genome-scale analysis of non-cartilage and cartilage gene expression.
    BMC Genomics, Vol. 8 (12 June 2007), 165.
    by Vincent A Funari, Allen Day, Deborah Krakow, Zachary A Cohn, Zugen Chen, Stanley F Nelson, Daniel H Cohn
    posted to chondrocyte microarray by heliopais on 2008-02-25 11:38:58 as *****
  • CARRIE web service: automated transcriptional regulatory network inference and interactive analysis.
    Nucleic Acids Res, Vol. 32, No. Web Server issue. (1 July 2004)
    by PM Haverty, MC Frith, Z Weng
    posted to microarray transcription_factor by heliopais on 2008-02-22 16:14:30 as ***** along with 2 people xwbcn dquest
  • Multievidence microarray mining.
    Trends Genet, Vol. 21, No. 10. (October 2005), pp. 553-558.
    by M Seifert, M Scherf, A Epple, T Werner
    posted to functional_annotation microarray by heliopais on 2008-02-22 13:59:50 as ***** along with 1 person and 2 groups ana structural_bioinformatics Bioinformatics
  • Significance analysis of functional categories in gene expression studies: a structured permutation approach
    Bioinformatics, Vol. 21, No. 9. (1 May 2005), pp. 1943-1949.
    by William T Barry, Andrew B Nobel, Fred A Wright
    posted to differential_expression gene_ontology by heliopais on 2008-02-19 11:50:48 as ***** along with 3 people and 1 group ealloza jdiggans nedwards BioinfoCIPF
  • Transcripts targeted by the microRNA-16 family cooperatively regulate cell cycle progression.
    Mol Cell Biol (22 January 2007)
    by Peter S S Linsley, Janell Schelter, Julja Burchard, Miho Kibukawa, Melissa M M Martin, Steven R R Bartz, Jason M M Johnson, Jordan M M Cummins, Christopher K K Raymond, Hongyue Dai, Nelson Chau, Michele Cleary, Aimee L L Jackson, Michael Carleton, Lee Lim
    posted to microrna microrna_microarray by heliopais on 2008-01-24 13:34:16 as ***** along with 2 people and 1 group jyuh tardigrade microRNA
  • Prediction of both conserved and nonconserved microRNA targets in animals
    Bioinformatics (29 November 2007), pp. 325-332.
    by Xiaowei Wang, Issam M El-Naqa
    edited by Alex Bateman
    posted to microrna microrna_target_prediction by heliopais on 2008-01-24 09:57:30 as ***** along with 5 people and 1 group jyuh jfr bootsy lp2 Alexander_Kanitz microRNA
  • Predicting tissue-specific enhancers in the human genome.
    Genome Research, Vol. 17, No. 2. (8 January 2007), pp. 201-211.
    by Len AA Pennacchio, Gabriela GG Loots, Marcelo AA Nobrega, Ivan Ovcharenko
    posted to enhancer genetic_regulatory_network non_coding_dna by heliopais on 2008-01-09 10:03:03 as ***** along with 5 people and 1 group indigoviolet cwbrown maximilianh roys barwil EisenLab
  • Adaptively inferring human transcriptional subnetworks.
    Mol Syst Biol, Vol. 2 (2006)
    by D Das, Z Nahlé, MQ Zhang
    posted to genetic_regulatory_network by heliopais on 2008-01-08 14:47:23 as ***** along with 4 people tmmurali wnpx Ao_Li2007 kmdaily
  • Linking the genes: inferring quantitative gene networks from microarray data.
    Trends Genet, Vol. 18, No. 8. (August 2002), pp. 395-398.
    by A de la Fuente, P Brazhnik, P Mendes
    posted to grn by heliopais on 2007-12-12 11:18:26 as ***** along with 2 people and 3 groups beapen pmendes Atopic_and_Seborrhoeic_Dermatitis Skin_Deep Applied_Bimatics
  • The Widespread Impact of Mammalian MicroRNAs on mRNA Repression and Evolution.
    Science (24 November 2005)
    by Kyle Kai-How K Farh, Andrew Grimson, Calvin Jan, Benjamin P P Lewis, Wendy K K Johnston, Lee P P Lim, Christopher B B Burge, David P P Bartel
    posted to microrna by heliopais on 2007-12-10 10:52:52 as ***** along with 12 people and 4 groups jerlich mfenner aprasad dayjm marcius eckart_bindewald dpollard mortenlindow mtagaya noano lp2 Alexander_Kanitz EisenLab microRNA BioinfoCIPF SGU-CIPF
  • MicroRNA targets in Drosophila.
    Genome Biol, Vol. 5, No. 1. (2003)
    by AJ Enright, B John, U Gaul, T Tuschl, C Sander, DS Marks
    posted to microrna by heliopais on 2007-12-10 10:51:17 as ***** along with 5 people and 1 group eckart_bindewald mortenlindow dsm Garamonfok maralena microRNA
  • microRNA-155 Regulates the Generation of Immunoglobulin Class-Switched Plasma Cells
    Immunity, Vol. In Press, Corrected Proof
    by Elena Vigorito, Kerry L Perks, Cei Abreu-Goodger, Sam Bunting, Zou Xiang, Susan Kohlhaas, Partha P Das, Eric A Miska, Antony Rodriguez, Allan Bradley, Kenneth G Smith, Cristina Rada, Anton J Enright, Kai-Michael Toellner, Ian C Maclennan, Martin Turner
    posted to microrna by heliopais on 2007-12-07 17:42:46 as ***** along with 2 people and 1 group maralena Alexander_Kanitz microRNA
  • A Mammalian microRNA Expression Atlas Based on Small RNA Library Sequencing.
    Cell, Vol. 129, No. 7. (29 June 2007), pp. 1401-1414.
    by P Landgraf, M Rusu, R Sheridan, A Sewer, N Iovino, A Aravin, S Pfeffer, A Rice, AO Kamphorst, M Landthaler, C Lin, ND Socci, L Hermida, V Fulci, S Chiaretti, R Foà, J Schliwka, U Fuchs, A Novosel, RU Müller, B Schermer, U Bissels, J Inman, Q Phan, M Chien, DB Weir, R Choksi, G De Vita, D Frezzetti, HI Trompeter, V Hornung, G Teng, G Hartmann, M Palkovits, R Di Lauro, P Wernet, G Macino, CE Rogler, JW Nagle, J Ju, FN Papavasiliou, T Benzing, P Lichter, W Tam, MJ Brownstein, A Bosio, A Borkhardt, JJ Russo, C Sander, M Zavolan, T Tuschl
    posted to microrna microrna_expression by heliopais on 2007-12-06 11:03:19 as ***** along with 8 people and 2 groups delenca giovenko jyuh jfr andersbj rahulthadani xiuminyan maralena Bioinformatics microRNA
  • Hybridization interactions between probesets in short oligo microarrays lead to spurious correlations
    BMC Bioinformatics, Vol. 7 (02 June 2006), 276.
    by Michal J Okoniewski, Crispin J Miller
    posted to microarray probesets by heliopais on 2007-11-27 15:34:34 as ***** along with 4 people bertelsen jfr dquest medmhw
  • Transforming the dilemma
    Evolution, Vol. 61, No. 10. (2007), pp. 2281-2292.
    by Christine Taylor, Martin A Nowak
    posted to evolutionary_dynamics prisoners_dilemma by heliopais on 2007-11-23 19:05:38 as ***** along with 2 people qwermish S_Ray
  • Computational identification of microRNA targets
    Developmental Biology, Vol. 267, No. 2. (15 March 2004), pp. 529-535.
    by Nikolaus Rajewsky, Nicholas D Socci
    posted to microrna microrna_target_prediction by heliopais on 2007-11-23 11:06:31 as ***** along with 1 group microRNA
  • Predicting and validating microRNA targets
    Genome Biology, Vol. 5, No. 9. (2004)
    by Eric Lai
    posted to microrna microrna_target_prediction by heliopais on 2007-11-09 16:26:02 as ***** along with 2 people and 1 group natstreet maralena microRNA
  • Identification of Drosophila MicroRNA targets.
    PLoS Biol, Vol. 1, No. 3. (December 2003)
    by A Stark, J Brennecke, RB Russell, SM Cohen
    posted to microrna microrna_target_prediction by heliopais on 2007-11-09 16:21:00 as ***** along with 2 people and 2 groups eckart_bindewald lp2 Bioinformatics microRNA
  • Bias in the estimation of false discovery rate in microarray studies.
    Bioinformatics, Vol. 21, No. 20. (15 October 2005), pp. 3865-3872.
    by Y Pawitan, KR Murthy, S Michiels, A Ploner
    posted to false_discovery_rate microarray by heliopais on 2007-10-15 12:12:48 as ***** along with 1 person shigepong
  • A combined computational-experimental approach predicts human microRNA targets.
    Genes Dev, Vol. 18, No. 10. (15 May 2004), pp. 1165-1178.
    by M Kiriakidou, PT Nelson, A Kouranov, P Fitziev, C Bouyioukos, Z Mourelatos, A Hatzigeorgiou
    posted to microrna by heliopais on 2007-10-11 17:18:37 as ***** along with 3 people and 1 group eckart_bindewald tardigrade mtagaya microRNA
  • Fast and effective prediction of microRNA/target duplexes
    RNA, Vol. 10, No. 10. (Oct 2004), pp. 1507-1517.
    by Marc Rehmsmeier, Peter Steffen, Matthias Hochsmann, Robert Giegerich
    posted to microrna microrna_target_prediction by heliopais on 2007-10-03 11:16:02 as *****
  • A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes
    Cell, Vol. 126, No. 6. (Sep 2006), pp. 1203-1217.
    by Kevin C Miranda, Tien Huynh, Yvonne Tay, Yen S Ang, Wai L Tam, Andrew M Thomson, Bing Lim, Isidore Rigoutsos
    posted to microrna microrna_target_prediction rna22 by heliopais on 2007-10-03 11:16:02 as *****
  • Canalization of development by microRNAs.
    Nat Genet, Vol. 38 Suppl 1 (June 2006)
    by E Hornstein, N Shomron
    posted to microrna by heliopais on 2008-06-24 10:22:35 as **** along with 3 people and 1 group balabu andersbj mtagaya microRNA
  • The global transcriptional regulatory network for metabolism in Escherichia coli exhibits few dominant functional states.
    Proc Natl Acad Sci U S A, Vol. 102, No. 52. (27 December 2005), pp. 19103-19108.
    by CL Barrett, CD Herring, JL Reed, BO Palsson
    posted to genetic_regulatory_network by heliopais on 2008-06-06 09:09:16 as **** along with 3 people alexg madhadron comb
  • Understanding individual human mobility patterns
    Nature, Vol. 453, No. 7196. (5 June 2008), pp. 779-782.
    by Marta C Gonzalez, Cesar A Hidalgo, Albert-Laszlo Barabasi
    posted to modelling human_mobility by heliopais on 2008-06-05 09:57:48 as **** along with 11 people tnhh sen_cheng krisl skumagai carsonr elsantosneto Rohrpost haveuheard sjc balicea deanmalmgren
  • Gene expression network analysis and applications to immunology
    Bioinformatics, Vol. 23, No. 7. (1 April 2007), pp. 850-858.
    by Nacu, Serban, Critchley-Thorne, Rebecca, Lee, Peter, Holmes, Susan
    posted to gene_sets by heliopais on 2008-05-16 14:52:36 as ****
  • Identification of transcriptional regulators using binding site enrichment analysis.
    In Silico Biol, Vol. 6, No. 6. (2006), pp. 531-544.
    by TM Kim, MH Jung
    posted to transcription_factor by heliopais on 2008-05-15 16:03:14 as **** along with 1 person yevishere
  • Factor analysis for gene regulatory networks and transcription factor activity profiles
    BMC Bioinformatics, Vol. 8 (23 February 2007), 61.
    by Iosifina Pournara, Lorenz Wernisch
    posted to secondary_targets by heliopais on 2008-04-24 16:17:08 as **** along with 6 people ihpark jyuh shigepong lp2 hms kyriakos
  • Non-transcriptional pathway features reconstructed from secondary effects of RNA interference
    Bioinformatics, Vol. 21, No. 21. (1 November 2005), pp. 4026-4032.
    by Florian Markowetz, Jacques Bloch, Rainer Spang
    posted to secondary_targets by heliopais on 2008-04-24 16:07:39 as **** along with 1 person czeller
  • Improving gene set analysis of microarray data by SAM-GS
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Irina Dinu, John Potter, Thomas Mueller, Qi Liu, Adeniyi Adewale, Gian Jhangri, Gunilla Einecke, Konrad Famulski, Philip Halloran, Yutaka Yasui
    posted to gene_sets by heliopais on 2008-04-24 09:37:59 as **** along with 7 people and 1 group jfr ealloza shigepong ghattem GeeSharpMinor waghsk LuigiAugugliaro BioinfoCIPF
  • miRiad Roles for the miR-17-92 Cluster in Development and Disease
    Cell, Vol. 133, No. 2. (18 April 2008), pp. 217-222.
    by Joshua T Mendell
    posted to review microrna by heliopais on 2008-04-23 15:51:48 as **** along with 1 person and 1 group maralena microRNA
  • Multilevel Regulation of Gene Expression by MicroRNAs
    Science, Vol. 319, No. 5871. (28 March 2008), pp. 1789-1790.
    by Eugene V Makeyev, Tom Maniatis
    posted to microrna review by heliopais on 2008-03-28 15:04:10 as **** along with 3 people and 1 group giovenko ealloza emptyhb microRNA
  • Gene Regulation by Transcription Factors and MicroRNAs
    Science, Vol. 319, No. 5871. (28 March 2008), pp. 1785-1786.
    by Oliver Hobert
    posted to microrna review by heliopais on 2008-03-28 15:00:58 as **** along with 6 people and 1 group bootsy ealloza zwang biomcgary emptyhb maralena microRNA
  • Empirical Bayes models for multiple probe type microarrays at the probe level
    BMC Bioinformatics, Vol. 9 (20 March 2008), 156.
    by Magnus Astrand, Petter Mostad, Mats Rudemo
    posted to differential_expression microarray by heliopais on 2008-03-26 09:43:29 as **** along with 3 people jyuh jfr ptrobajo
  • Discovery of microRNA-mRNA modules via population-based probabilistic learning.
    Bioinformatics, Vol. 23, No. 9. (9 March 2007), pp. 1141-1447.
    by Je-Gun Joung, Kyu-Baek Hwang, Jin-Wu Nam, Soo-Jin Kim, Byoung-Tak Zhang
    posted to microrna microrna_target_prediction by heliopais on 2008-03-04 14:01:49 as **** along with 3 people and 3 groups andersbj ealloza lp2 Bioinformatics microRNA BioinfoCIPF
  • Transcriptome analysis of fetal metatarsal long bones by microarray, as a model for endochondral bone formation
    Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, Vol. 1763, No. 10. (October 2006), pp. 1031-1039.
    by Rachael V Sugars, Elerin Karner, Ulrika Petersson, Bernhard Ganss, Mikael Wendel
    posted to bone_formation microarray by heliopais on 2008-02-26 15:11:14 as ****
  • Genome wide prediction of HNF4alpha functional binding sites by the use of local and global sequence context
    Genome Biology, Vol. 9 (21 February 2008), R36.
    by Alexander E Kel, Monika Niehof, Volker Matys, Rudiger Zemlin, Jurgen Borlak
    posted to binding_site_prediction transcription_factor by heliopais on 2008-02-26 14:08:18 as **** along with 2 people caseybrown ptrobajo
  • Statistical tools for synthesizing lists of differentially expressed features in related experiments
    Genome Biology, Vol. 8 (11 April 2007), R54.
    by Marta Blangiardo, Sylvia Richardson
    posted to differential_expression microarray by heliopais on 2008-02-19 14:07:10 as **** along with 4 people jyuh jfr dayjm ajgentles
  • Microarray data analysis: from disarray to consolidation and consensus
    Nature Reviews Genetics, Vol. 7, No. 1. (January 2006), pp. 55-65.
    by David B Allison, Xiangqin Cui, Grier P Page, Mahyar Sabripour
    posted to microarray by heliopais on 2008-02-19 11:35:33 as **** along with 21 people and 2 groups jo_davies giovenko jyuh barry textoris jfr Ayest balicea sterovetta lhonigberg acidwizard ronaldozhou vpschulz rmk schuylrp Garamonfok debasis GeeSharpMinor dimatura shikin minostro structural_bioinformatics Bioinformatics
  • VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Hans Kestler, Andre Muller, Johann Kraus, Malte Buchholz, Thomas Gress, Hongfang Liu, David Kane, Barry Zeeberg, John Weinstein
    posted to gene_ontology microarray by heliopais on 2008-01-30 09:53:27 as **** along with 2 people jyuh barriot
  • Global analysis of microRNA target gene expression reveals that miRNA targets are lower expressed in mature mouse and Drosophila tissues than in the embryos
    Nucleic Acids Research, Vol. 35, No. 1. (January 2007), pp. 152-164.
    by Yu, Zhenbao, Jian, Zhaofeng, Shen, Shi-Hsiang, Purisima, Enrico, Wang, Edwin
    posted to microrna by heliopais on 2008-01-15 14:37:43 as **** along with 1 person and 1 group sdyxz microRNA
  • Abundance of microRNA target motifs in the 3'-UTRs of 20527 human genes.
    FEBS Lett (4 April 2007)
    by Hisakazu Iwama, Tsutomu Masaki, Shigeki Kuriyama
    posted to microrna by heliopais on 2008-01-15 10:09:06 as **** along with 3 people and 2 groups tardigrade andersbj jianrong Bioinformatics microRNA
  • A biochemical approach to identifying microRNA targets
    Proceedings of the National Academy of Sciences (27 November 2007), 0709971104.
    by Fedor V Karginov, Cecilia Conaco, Zhenyu Xuan, Bryan H Schmidt, Joel S Parker, Gail Mandel, Gregory J Hannon
    posted to microrna microrna_target_prediction by heliopais on 2008-01-15 09:38:50 as **** along with 5 people and 1 group jyuh jfr fpattyn wsjames maralena microRNA
  • Natural selection on human microRNA binding sites inferred from SNP data.
    Nat Genet (29 October 2006)
    by Kevin Chen, Nikolaus Rajewsky
    posted to microrna by heliopais on 2008-01-14 12:14:37 as **** along with 7 people and 3 groups jfr tardigrade andersbj mtagaya ealloza plofje Garamonfok Bioinformatics microRNA BioinfoCIPF
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