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Group: UH - Computational Biology - library [20 articles]

Recent papers posted by members of the UH - Computational Biology group
  • Non-additivity in protein-DNA binding.
    Bioinformatics, Vol. 21, No. 10. (15 May 2005), pp. 2254-2263.
    by RA O'Flanagan, G Paillard, R Lavery, AM Sengupta
    posted to binding-site-prediction bioinformatics svm by blobbybirdman to the group UH - Computational Biology on 2008-01-24 20:09:14 as *** along with 2 people nklee reidy
  • Dynamic control of positional information in the early Drosophila embryo.
    Nature, Vol. 430, No. 6997. (15 July 2004), pp. 368-371.
    by J Jaeger, S Surkova, M Blagov, H Janssens, D Kosman, KN Kozlov, Manu, E Myasnikova, CE Vanario-Alonso, M Samsonova, DH Sharp, J Reinitz
    posted to drosophila gene-regulatory-networks transcription by blobbybirdman to the group UH - Computational Biology on 2007-12-07 17:54:58 as ** along with 1 person and 2 groups wrowell Cline_lab cis-regulatory-evolution
  • A logical analysis of the Drosophila gap-gene system.
    J Theor Biol, Vol. 211, No. 2. (21 July 2001), pp. 115-141.
    by L Sánchez, D Thieffry
    posted to drosophila gene-regulatory-networks transcription by blobbybirdman to the group UH - Computational Biology on 2007-12-07 17:52:33 as ** along with 3 people and 1 group bayesian dpollard adepace EisenLab
  • Transcriptional Control in the Segmentation Gene Network of Drosophila
    PLoS Biology, Vol. 2, No. 9. (1 September 2004), e271.
    by Mark D Schroeder, Michael Pearce, John Fak, Hongqing Fan, Ulrich Unnerstall, Eldon Emberly, Nikolaus Rajewsky, Eric D Siggia, Ulrike Gaul
    posted to drosophila gene-regulatory-networks transcription-factors by blobbybirdman to the group UH - Computational Biology on 2007-12-07 17:49:59 as read along with 8 people and 2 groups balicea pradiptaray indigoviolet dpollard adepace wrowell emptyhb dlmace EisenLab Cline_lab
  • Functional Evolution of a cis-Regulatory Module
    PLoS Biology, Vol. 3, No. 4. (1 April 2005), e93.
    by Michael Z Ludwig, Arnar Palsson, Elena Alekseeva, Casey M Bergman, Janaki Nathan, Martin Kreitman
    posted to cis-regulatory-elements evolution molecular-biology-techniques non-coding-dna by blobbybirdman to the group UH - Computational Biology on 2007-10-23 15:58:18 as read along with 4 people and 2 groups emptyhb brant mimulus_99 cisevol cis-regulatory-evolution Myxo group
  • Mining Treasures from 'Junk DNA'
    Science, New Series,, Vol. 263, No. 5147. (4 February 1994), pp. 608-610.
    by Rachel Nowak
    posted to 3utrs dna junk microsatellites minisatellites satellites by firezwan to the group UH - Computational Biology on 2007-10-19 11:13:12 as read
  • Megabase deletions of gene deserts result in viable mice.
    Nature, Vol. 431, No. 7011. (21 October 2004), pp. 988-993.
    by MA Nóbrega, Y Zhu, I Plajzer-Frick, V Afzal, EM Rubin
    posted to molecular-biology-techniques mouse non-coding-dna by blobbybirdman to the group UH - Computational Biology on 2007-10-13 08:05:08 as ***** along with 3 people and 1 group ccots elzodw Stew EisenLab
  • Assessing computational tools for the discovery of transcription factor binding sites
    Nat Biotechnol, Vol. 23, No. 1. (2005), pp. 137-44.
    by M Tompa, N Li, TL Bailey, GM Church, B De Moor, E Eskin, AV Favorov, MC Frith, Y Fu, WJ Kent, VJ Makeev, AA Mironov, WS Noble, G Pavesi, G Pesole, M Regnier, N Simonis, S Sinha, G Thijs, J van Helden, M Vandenbogaert, Z Weng, C Workman, C Ye, Z Zhu
    posted to algorithms binding-site-prediction evaluation by blobbybirdman to the group UH - Computational Biology on 2007-10-11 23:24:48 as read
  • What can we learn from noncoding regions of similarity between genomes?
    BMC Bioinformatics, Vol. 5 (2004)
    by TA Down, TJ Hubbard
    posted to evolutionary-comparisons machine-learning rvm by blobbybirdman to the group UH - Computational Biology on 2007-10-11 22:23:40 as **
  • Human-mouse genome comparisons to locate regulatory sites
    Nat Genet, Vol. 26, No. 2. (2000), pp. 225-8.
    by WW Wasserman, M Palumbo, W Thompson, JW Fickett, CE Lawrence
    posted to binding-site-prediction evolutionary-comparisons h_sapiens mouse by blobbybirdman to the group UH - Computational Biology on 2007-10-11 21:59:06 as read
  • Applied bioinformatics for the identification of regulatory elements
    Nat Rev Genet, Vol. 5, No. 4. (2004), pp. 276-87.
    by WW Wasserman, A Sandelin
    posted to binding-site-prediction bioinformatics cis-regulatory-elements review by blobbybirdman to the group UH - Computational Biology on 2007-10-11 21:55:42 as read
  • Finding cis-regulatory elements using comparative genomics: Some lessons from ENCODE data.
    Genome Res, Vol. 17, No. 6. (June 2007), pp. 775-786.
    by DC King, J Taylor, Y Zhang, Y Cheng, HA Lawson, J Martin, , F Chiaromonte, W Miller, RC Hardison
    posted to no-tag by blobbybirdman to the group UH - Computational Biology on 2007-10-11 15:05:41 as **** along with 3 people and 1 group ghattem Garamonfok Stew Bioinformatics
  • A supervised hidden Markov model framework for efficiently segmenting tiling array data in transcriptional and ChIP-chip experiments: systematically incorporating validated biological knowledge.
    Bioinformatics (12 October 2006)
    by Jiang Du, Joel S S Rozowsky, Jan O O Korbel, Zhengdong D D Zhang, Thomas E E Royce, Martin H H Schultz, Michael Snyder, Mark Gerstein
    posted to binding-site-prediction chip-chip hmm integration by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:49:26 as **** along with 7 people and 1 group xingxu miguel tuck eckart_bindewald djkt SeungjoonOh inesdesantiago Bioinformatics
  • Mapping of transcription factor binding regions in mammalian cells by ChIP: Comparison of array- and sequencing-based technologies
    Genome Res., Vol. 17, No. 6. (1 June 2007), pp. 898-909.
    by Ghia M Euskirchen, Joel S Rozowsky, Chia-Lin Wei, Wah H Lee, Zhengdong D Zhang, Stephen Hartman, Olof Emanuelsson, Viktor Stolc, Sherman Weissman, Mark B Gerstein, Yijun Ruan, Michael Snyder
    posted to binding-site-prediction chip-chip chip-seq genomics microarray by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:47:15 as **** along with 6 people and 3 groups isimpson kengg jtaylor ghattem epigenetics idonaldson Bioinformatics Plantandetc BergmanLab
  • Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.
    Nature, Vol. 447, No. 7146. (14 June 2007), pp. 799-816.
    by
    posted to encode functional-annotation genomics by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:45:08 as *** along with 9 people and 1 group jyuh jfr chad_davis kengg olympos shikin fpattyn yevishere elfar Bioinformatics
  • ENCODE and our very busy genome
    Nature Genetics, Vol. 39, No. 7., pp. 817-818.
    by Steven Henikoff
    posted to encode genomics by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:44:12 as *** along with 2 people and 2 groups grahamc yezq Bioinformatics ParkinsonLab_at_MaRS
  • ENCODE: More genomic empowerment.
    Genome Res, Vol. 17, No. 6. (June 2007), pp. 667-668.
    by GM Weinstock
    posted to encode genomics by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:43:21 as *** along with 4 people and 3 groups dchughes ghattem wenhan maximilianh Bioinformatics G4ID Genetics-of-Gambling
  • Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions
    Genome Res., Vol. 17, No. 6. (1 June 2007), pp. 787-797.
    by Zhengdong D Zhang, Alberto Paccanaro, Yutao Fu, Sherman Weissman, Zhiping Weng, Joseph Chang, Michael Snyder, Mark B Gerstein
    posted to chip-chip cis-regulatory-elements encode genomics h_sapiens by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:40:47 as **** along with 7 people and 3 groups inesdesantiago jasonflannick ana Borelli kengg ghattem epigenetics structural_bioinformatics Bioinformatics Plantandetc
  • The ENCODE Project at UC Santa Cruz.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by DJ Thomas, KR Rosenbloom, H Clawson, AS Hinrichs, H Trumbower, BJ Raney, D Karolchik, GP Barber, RA Harte, J Hillman-Jackson, RM Kuhn, BL Rhead, KE Smith, A Thakkapallayil, AS Zweig, , D Haussler, WJ Kent
    posted to encode functional-annotation genomics h_sapiens by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:35:57 as **** along with 1 group Bioinformatics
  • Genome-Wide Mapping of in Vivo Protein-DNA Interactions
    Science (31 May 2007), 1141319.
    by David S Johnson, Ali Mortazavi, Richard M Myers, Barbara Wold
    posted to chip-seq cis-regulatory-elements genomics by blobbybirdman to the group UH - Computational Biology on 2007-10-11 14:31:19 as **** along with 18 people and 4 groups dquest aalibes balicea andersbj JeremyZucker aswin kengg giovanni cjeans ghattem zwang epigenetics biomcgary george_g cabbagezs Jporci caseybrown emptyhb Bioinformatics microRNA Marcotte_Lab Myxo group
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