133 related articles for article (PubMed ID: 16845084)
1. FootPrinter3: phylogenetic footprinting in partially alignable sequences.
Fang F; Blanchette M
Nucleic Acids Res; 2006 Jul; 34(Web Server issue):W617-20. PubMed ID: 16845084
[TBL] [Abstract][Full Text] [Related]
2. CONREAL: conserved regulatory elements anchored alignment algorithm for identification of transcription factor binding sites by phylogenetic footprinting.
Berezikov E; Guryev V; Plasterk RH; Cuppen E
Genome Res; 2004 Jan; 14(1):170-8. PubMed ID: 14672977
[TBL] [Abstract][Full Text] [Related]
3. Combining statistical alignment and phylogenetic footprinting to detect regulatory elements.
Satija R; Pachter L; Hein J
Bioinformatics; 2008 May; 24(10):1236-42. PubMed ID: 18353788
[TBL] [Abstract][Full Text] [Related]
4. PromAn: an integrated knowledge-based web server dedicated to promoter analysis.
Lardenois A; Chalmel F; Bianchetti L; Sahel JA; Léveillard T; Poch O
Nucleic Acids Res; 2006 Jul; 34(Web Server issue):W578-83. PubMed ID: 16845074
[TBL] [Abstract][Full Text] [Related]
5. FOOTER: a web tool for finding mammalian DNA regulatory regions using phylogenetic footprinting.
Corcoran DL; Feingold E; Benos PV
Nucleic Acids Res; 2005 Jul; 33(Web Server issue):W442-6. PubMed ID: 15980508
[TBL] [Abstract][Full Text] [Related]
6. Phylogenetic footprinting: a boost for microbial regulatory genomics.
Katara P; Grover A; Sharma V
Protoplasma; 2012 Oct; 249(4):901-7. PubMed ID: 22113593
[TBL] [Abstract][Full Text] [Related]
7. CONREAL web server: identification and visualization of conserved transcription factor binding sites.
Berezikov E; Guryev V; Cuppen E
Nucleic Acids Res; 2005 Jul; 33(Web Server issue):W447-50. PubMed ID: 15980509
[TBL] [Abstract][Full Text] [Related]
8. Comparative genomics reveals unusually long motifs in mammalian genomes.
Jones NC; Pevzner PA
Bioinformatics; 2006 Jul; 22(14):e236-42. PubMed ID: 16873477
[TBL] [Abstract][Full Text] [Related]
9. MicroFootPrinter: a tool for phylogenetic footprinting in prokaryotic genomes.
Neph S; Tompa M
Nucleic Acids Res; 2006 Jul; 34(Web Server issue):W366-8. PubMed ID: 16845027
[TBL] [Abstract][Full Text] [Related]
10. An integrative and applicable phylogenetic footprinting framework for cis-regulatory motifs identification in prokaryotic genomes.
Liu B; Zhang H; Zhou C; Li G; Fennell A; Wang G; Kang Y; Liu Q; Ma Q
BMC Genomics; 2016 Aug; 17():578. PubMed ID: 27507169
[TBL] [Abstract][Full Text] [Related]
11. Whole genome human/mouse phylogenetic footprinting of potential transcription regulatory signals.
Cheremushkin E; Kel A
Pac Symp Biocomput; 2003; ():291-302. PubMed ID: 12603036
[TBL] [Abstract][Full Text] [Related]
12. Discovering transcriptional regulatory regions in Drosophila by a nonalignment method for phylogenetic footprinting.
Sosinsky A; Honig B; Mann RS; Califano A
Proc Natl Acad Sci U S A; 2007 Apr; 104(15):6305-10. PubMed ID: 17395715
[TBL] [Abstract][Full Text] [Related]
13. ConSite: web-based prediction of regulatory elements using cross-species comparison.
Sandelin A; Wasserman WW; Lenhard B
Nucleic Acids Res; 2004 Jul; 32(Web Server issue):W249-52. PubMed ID: 15215389
[TBL] [Abstract][Full Text] [Related]
14. Theatre: A software tool for detailed comparative analysis and visualization of genomic sequence.
Edwards YJ; Carver TJ; Vavouri T; Frith M; Bishop MJ; Elgar G
Nucleic Acids Res; 2003 Jul; 31(13):3510-7. PubMed ID: 12824356
[TBL] [Abstract][Full Text] [Related]
15. MultiPipMaker and supporting tools: Alignments and analysis of multiple genomic DNA sequences.
Schwartz S; Elnitski L; Li M; Weirauch M; Riemer C; Smit A; ; Green ED; Hardison RC; Miller W
Nucleic Acids Res; 2003 Jul; 31(13):3518-24. PubMed ID: 12824357
[TBL] [Abstract][Full Text] [Related]
16. MAVID multiple alignment server.
Bray N; Pachter L
Nucleic Acids Res; 2003 Jul; 31(13):3525-6. PubMed ID: 12824358
[TBL] [Abstract][Full Text] [Related]
17. Prediction of similarly acting cis-regulatory modules by subsequence profiling and comparative genomics in Drosophila melanogaster and D.pseudoobscura.
Grad YH; Roth FP; Halfon MS; Church GM
Bioinformatics; 2004 Nov; 20(16):2738-50. PubMed ID: 15145800
[TBL] [Abstract][Full Text] [Related]
18. PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny.
Siddharthan R; Siggia ED; van Nimwegen E
PLoS Comput Biol; 2005 Dec; 1(7):e67. PubMed ID: 16477324
[TBL] [Abstract][Full Text] [Related]
19. Multiple alignment of genomic sequences using CHAOS, DIALIGN and ABC.
Pöhler D; Werner N; Steinkamp R; Morgenstern B
Nucleic Acids Res; 2005 Jul; 33(Web Server issue):W532-4. PubMed ID: 15980528
[TBL] [Abstract][Full Text] [Related]
20. AGenDA: gene prediction by cross-species sequence comparison.
Taher L; Rinner O; Garg S; Sczyrba A; Morgenstern B
Nucleic Acids Res; 2004 Jul; 32(Web Server issue):W305-8. PubMed ID: 15215399
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]