176 related articles for article (PubMed ID: 22113593)
1. 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]
2. 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]
3. 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]
4. 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]
5. 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]
6. Discovery of regulatory elements by a computational method for phylogenetic footprinting.
Blanchette M; Tompa M
Genome Res; 2002 May; 12(5):739-48. PubMed ID: 11997340
[TBL] [Abstract][Full Text] [Related]
7. Predicting cis-acting elements of Lactobacillus plantarum by comparative genomics with different taxonomic subgroups.
Wels M; Francke C; Kerkhoven R; Kleerebezem M; Siezen RJ
Nucleic Acids Res; 2006; 34(7):1947-58. PubMed ID: 16614445
[TBL] [Abstract][Full Text] [Related]
8. 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]
9. Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution.
Janky R; van Helden J
BMC Bioinformatics; 2008 Jan; 9():37. PubMed ID: 18215291
[TBL] [Abstract][Full Text] [Related]
10. 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]
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. Molecular and structural considerations of TF-DNA binding for the generation of biologically meaningful and accurate phylogenetic footprinting analysis: the LysR-type transcriptional regulator family as a study model.
Oliver P; Peralta-Gil M; Tabche ML; Merino E
BMC Genomics; 2016 Aug; 17(1):686. PubMed ID: 27567672
[TBL] [Abstract][Full Text] [Related]
13. Algorithms for phylogenetic footprinting.
Blanchette M; Schwikowski B; Tompa M
J Comput Biol; 2002; 9(2):211-23. PubMed ID: 12015878
[TBL] [Abstract][Full Text] [Related]
14. Phylogenetic footprinting to find functional DNA elements.
Ganley AR; Kobayashi T
Methods Mol Biol; 2007; 395():367-80. PubMed ID: 17993686
[TBL] [Abstract][Full Text] [Related]
15. 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]
16. FootPrinter: A program designed for phylogenetic footprinting.
Blanchette M; Tompa M
Nucleic Acids Res; 2003 Jul; 31(13):3840-2. PubMed ID: 12824433
[TBL] [Abstract][Full Text] [Related]
17. More robust detection of motifs in coexpressed genes by using phylogenetic information.
Monsieurs P; Thijs G; Fadda AA; De Keersmaecker SC; Vanderleyden J; De Moor B; Marchal K
BMC Bioinformatics; 2006 Mar; 7():160. PubMed ID: 16549017
[TBL] [Abstract][Full Text] [Related]
18. Discovery of regulatory elements in vertebrates through comparative genomics.
Prakash A; Tompa M
Nat Biotechnol; 2005 Oct; 23(10):1249-56. PubMed ID: 16211068
[TBL] [Abstract][Full Text] [Related]
19. Identification of conserved regulatory elements by comparative genome analysis.
Lenhard B; Sandelin A; Mendoza L; Engström P; Jareborg N; Wasserman WW
J Biol; 2003; 2(2):13. PubMed ID: 12760745
[TBL] [Abstract][Full Text] [Related]
20. Factors influencing the identification of transcription factor binding sites by cross-species comparison.
McCue LA; Thompson W; Carmack CS; Lawrence CE
Genome Res; 2002 Oct; 12(10):1523-32. PubMed ID: 12368244
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
