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Ключевое слово footprinting [32 articles]

Recent papers classified by the tag footprinting.
  • Performance and Scalability of Discriminative Metrics for Comparative Gene Identification in 12 Drosophila Genomes
    PLoS Comput Biol, Vol. 4, No. 4. (18 April 2008), e1000067.
    by Michael F Lin, Ameya N Deoras, Matthew D Rasmussen, Manolis Kellis
    posted to footprinting by xili03 on 2008-10-08 08:20:40 as **
  • Discovering regulatory motifs in the Plasmodium genome using comparative genomics.
    Bioinformatics (Oxford, England) (8 July 2008)
    by Jie Wu, Douglas H H Sieglaff, Joshua Gervin, Xiaohui S S Xie
    posted to footprinting by xili03 on 2008-10-07 07:27:57 as ** along with 4 people APRegier semrich Neeperando neils
  • Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution
    BMC Bioinformatics, Vol. 9 (23 January 2008), 37.
    by Rekin's Janky, Jacques van Helden
    posted to footprinting by xili03 on 2008-08-11 08:58:36 as ** along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Cracking the genome's second code: enhancer detection by combined phylogenetic footprinting and transgenic fish and frog embryos.
    Methods, Vol. 39, No. 3. (July 2006), pp. 212-219.
    by ML Allende, M Manzanares, JJ Tena, CG Feijóo, JL Gómez-Skarmeta
    posted to cis-regulatory fish footprinting frog phlyogenetic prediction by Stew on 2007-09-18 01:19:46 as read along with 1 group EisenLab
  • Discovering transcriptional regulatory regions in Drosophila by a nonalignment method for phylogenetic footprinting.
    Proc Natl Acad Sci U S A (29 March 2007)
    by Alona Sosinsky, Barry Honig, Richard S S Mann, Andrea Califano
    posted to cis-regulatory drosophila footprinting phlyogenetic prediction by Stew on 2007-10-19 00:42:18 as ** along with 4 people and 2 groups dpollard maximilianh cisevol isimpson EisenLab cis-regulatory-evolution
  • Combining Statistical Alignment and Phylogenetic Footprinting to Detect Regulatory Elements.
    Bioinformatics (18 March 2008)
    by R Satija, L Pachter, J Hein
    posted to alignment cis-regulatory drosophila footprinting phylogenetic prediction regulatory by Stew on 2008-06-06 08:24:29 as **** along with 5 people druvus eckart_bindewald maximilianh gjuggler Ema
  • CSMET: Comparative Genomic Motif Detection via Multi-Resolution Phylogenetic Shadowing
    PLoS Comput Biol, Vol. 4, No. 6. (6 June 2008), e1000090.
    by Pradipta Ray, Suyash Shringarpure, Mladen Kolar, Eric P Xing
    posted to comparative detection footprinting genomics motif phylogenetic by Stew on 2008-06-14 14:43:13 as ***** along with 4 people and 1 group xili03 djkt cisevol Ema cis-regulatory-evolution
  • Footprint of the sigma protein: A re-examination
    Biochemical and Biophysical Research Communications, Vol. 177, No. 1. (31 May 1991), pp. 140-144.
    by Arthur Wellman, Claude F Meares
    posted to footprinting sigma by shana on 2008-05-03 23:43:51 as *****
  • Transcriptional analysis of the hmw gene cluster of Mycoplasma pneumoniae.
    Journal of bacteriology, Vol. 181, No. 16. (August 1999), pp. 4978-4985.
    by RH Waldo, PL Popham, CE Romero-Arroyo, EA Mothershed, KK Lee, DC Krause
    posted to footprinting mycoplasma primer_extension promoters transcription by shana on 2008-06-24 03:29:48 as ****
  • Close sequence comparisons are sufficient to identify human cis-regulatory elements.
    Genome Res (12 June 2006)
    by Shyam Prabhakar, Francis Poulin, Malak Shoukry, Veena Afzal, Edward M M Rubin, Olivier Couronne, Len A A Pennacchio
    posted to alignment annotation conserved constraint evolution footprinting human mammal mammals no-tag prediction rate selection tfbs transcription turnover by samal on 2006-08-22 05:18:32 as ** along with 8 people and 2 groups indigoviolet dpollard nickluscombe olympos emptyhb bpcusack mariakmejia kcrawlik EisenLab EBI-regulation
  • Functional genomics via metabolic footprinting: monitoring metabolite secretion by
    Comparative and Functional Genomics, Vol. 4, No. 4. (18 July 2003), pp. 376-391.
    by Naheed N Kaderbhai, David I Broadhurst, David I Ellis, Royston Goodacre, Douglas B Kell
    posted to footprinting metabolic metabolomics by rmj001 on 2005-01-19 11:40:20 as **** along with 1 person die95
  • Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes.
    Nucleic Acids Res, Vol. 29, No. 3. (1 February 2001), pp. 774-782.
    by L McCue, W Thompson, C Carmack, MP Ryan, JS Liu, V Derbyshire, CE Lawrence
    posted to bacteria footprinting motif phylogeny prokaryote regulation tfbs by pradiptaray on 2008-08-07 16:23:07 as ** along with 3 people and 1 group dquest adepace nklee EisenLab
  • Prediction of synergistic transcription factors by function conservation
    Genome Biology, Vol. 8, No. 12. (2007)
    by Zihua Hu, Boyu Hu, James Collins
    posted to footprinting by nklee on 2007-12-19 21:16:32 as ** along with 3 people and 1 group cjeans maximilianh ale cis-regulatory-evolution
  • A novel approach to identifying regulatory motifs in distantly related genomes
    Genome Biology, Vol. 6, No. 13. (2005)
    by Ruth Van Hellemont, Pieter Monsieurs, Gert Thijs, Bart De Moor, Yves Van de Peer, Kathleen Marchal
    posted to clustering comparative footprinting genomic by nklee on 2008-01-31 04:19:31 as ***
  • Algorithms for phylogenetic footprinting.
    J Comput Biol, Vol. 9, No. 2. (2002), pp. 211-223.
    by M Blanchette, B Schwikowski, M Tompa
    posted to genomic footprinting comparative by nklee on 2008-09-30 04:43:53 as ** along with 2 people chad_davis dquest
  • Multi-species sequence comparison: the next frontier in genome annotation
    Genome Biology, Vol. 4, No. 12. (2003)
    by Inna Dubchak, Kelly Frazer
    posted to footprinting by nklee on 2008-02-19 23:06:17 as **
  • PhyloScan: Identification of transcription factor binding sites using cross-species evidence
    Algorithms for Molecular Biology, Vol. 2 (23 January 2007), 1.
    by Steven C Carmack, Lee A Mccue, Lee A Newberg, Charles E Lawrence
    posted to footprinting by nklee on 2007-11-27 06:16:56 as ** along with 3 people and 1 group dpollard dquest lusk EisenLab
  • A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome.
    J Mol Biol, Vol. 284, No. 2. (27 November 1998), pp. 241-254.
    by K Robison, AM McGuire, GM Church
    posted to comparative ecoli footprinting genomic by nklee on 2008-01-02 23:09:01 as ** along with 1 person kaarsinogen
  • Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis.
    Genome Res, Vol. 11, No. 7. (July 2001), pp. 1175-1186.
    by PF Cliften, LW Hillier, L Fulton, T Graves, T Miner, WR Gish, RH Waterston, M Johnston
    posted to footprinting yeast by nklee on 2007-10-29 05:16:18 as ** along with 2 people evaf kaarsinogen
  • Web-Based Identification of Evolutionary Conserved DNA cis-Regulatory Elements.
    Methods Mol Biol, Vol. 395 (2007), pp. 425-436.
    by PV Benos, DL Corcoran, E Feingold
    posted to alignment cns footprinting scanning by maximilianh on 2007-11-27 13:02:58 as **
  • Comparative Genomics-Based Orthologous Promoter Analysis Using the DoOP Database and the DoOPSearch Web Tool.
    Methods Mol Biol, Vol. 395 (2007), pp. 319-328.
    by E Barta
    posted to alignment conserved footprinting scanning by maximilianh on 2007-11-27 13:04:18 as **
  • FootPrinter: A program designed for phylogenetic footprinting.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3840-3842.
    by M Blanchette, M Tompa
    posted to factor footprinting phylogenetic transcription by kaur on 2005-10-09 17:10:05 as read along with 2 people chad_davis balajis
  • The OhrR repressor senses organic hydroperoxides by reversible formation of a cysteine-sulfenic acid derivative
    Proceedings of the National Academy of Sciences, Vol. 99, No. 10. (14 May 2002), pp. 6690-6695.
    by Mayuree Fuangthong, John D Helmann
    posted to footprinting method by icq242500260 on 2008-07-01 10:33:38 as **
  • Cooperative binding of [lambda] repressors to sites separated by integral turns of the DNA helix
    Cell, Vol. 44, No. 5. (14 March 1986), pp. 681-687.
    by A Hochschild, M Ptashne
    posted to footprinting dna-loop by icq242500260 on 2008-09-12 17:15:48 as **
  • DNA sequencing by the chemical method: a 10 minute procedure for the G+A reaction
    Trends in Genetics, Vol. 9, No. 10. (October 1993), pp. 337-338.
    by Andrés F Muro, Gustavo C Pesce, Alberto R Kornblibhtt
    posted to footprinting method by icq242500260 on 2008-07-01 11:02:06 as **
  • Nuclease activity of 1,10-phenanthroline-copper: sequence-specific targeting
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 83, No. 19., pp. 7147-7151.
    by CH Chen, DS Sigman
    posted to footprinting by icq242500260 on 2008-08-14 12:50:06 as **
  • Constitutive Nucleosome Depletion and Ordered Factor Assembly at the GRP78 Promoter Revealed by Single Molecule Footprinting
    PLoS Genetics, Vol. 2, No. 9. (1 October 2006), e160.
    by Einav N Gal-Yam, Shinwu Jeong, Amos Tanay, Gerda Egger, Amy S Lee, Peter A Jones
    posted to footprinting molecule single by brant to the group EisenLab on 2006-10-11 16:23:49 as **
  • High-throughput classification of yeast mutants for functional genomics using metabolic footprinting.
    Nat Biotechnol, Vol. 21, No. 6. (June 2003), pp. 692-696.
    by J Allen, HM Davey, D Broadhurst, JK Heald, JJ Rowland, SG Oliver, DB Kell
    posted to footprinting metabolic metabolomics by dbk to the group streptomyces on 2004-11-13 13:16:32 along with 3 people and 2 groups irenas raiyar katerinakal dbk-lab steinmetzlab
  • Discrimination of modes of action of antifungal substances by use of metabolic footprinting.
    Appl Environ Microbiol, Vol. 70, No. 10. (October 2004), pp. 6157-6165.
    by J Allen, HM Davey, D Broadhurst, JJ Rowland, SG Oliver, DB Kell
    posted to footprinting metabolic metabolomics by dbk to the group streptomyces on 2004-11-11 23:37:22 along with 1 group dbk-lab
  • High-throughput single-nucleotide structural mapping by capillary automated footprinting analysis
    Nucl. Acids Res., Vol. 36, No. 11. (1 June 2008), e63.
    by Somdeb Mitra, Inna V Shcherbakova, Russ B Altman, Michael Brenowitz, Alain Laederach
    posted to analysis footprinting by fpattyn on 2008-06-24 16:28:01 as **
  • Chromatin structure at the flanking regions of the human beta-globin locus control region DNase I hypersensitive site-2: proposed nucleosome positioning by DNA-binding proteins including GATA-1.
    Biochim Biophys Acta, Vol. 1679, No. 3. (17 September 2004), pp. 201-213.
    by N Davies, J Freebody, V Murray
    posted to b-globin footprinting human by forluvoft on 2005-03-03 00:42:21 as ****
  • FOOTER: a web tool for finding mammalian DNA regulatory regions using phylogenetic footprinting.
    Nucleic acids research, Vol. 33, No. Web Server issue. (1 July 2005)
    by DL Corcoran, E Feingold, PV Benos
    posted to regulatory regions phylogenetic footprinting dna by bryankr on 2008-09-02 12:46:41 as **
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