Finding functional features in Saccharomyces genomes by phylogenetic footprinting.
作者： Paul Cliften , Priya Sudarsanam , Ashwin Desikan , Lucinda Fulton , Bob Fulton
关键词:
摘要: The sifting and winnowing of DNA sequence that occur during evolution cause nonfunctional sequences to diverge, leaving phylogenetic footprints functional elements in comparisons genome sequences. We searched for such among the six Saccharomyces species identified potentially Comparison these allowed us revise catalog yeast genes identify motifs may be targets transcriptional regulatory proteins. Some conserved reside upstream with similar annotations or expression patterns those bound by same transcription factor are thus good candidates
sciencemag.org
harvard.edu
unirioja.es参考文章(34)
Charles Elkan, Timothy L. Bailey, The value of prior knowledge in discovering motifs with MEME. intelligent systems in molecular biology. ,vol. 3, pp. 21- 29 ,(1995)
Michael Primig, Roy M. Williams, Elizabeth A. Winzeler, Gela G. Tevzadze, Andrew R. Conway, Seung Y. Hwang, Ronald W. Davis, Rochelle Easton Esposito, The core meiotic transcriptome in budding yeasts Nature Genetics. ,vol. 26, pp. 415- 423 ,(2000) , 10.1038/82539
G. Fischer, S. A. James, I. N. Roberts, S. G. Oliver, E. J. Louis, Chromosomal evolution in Saccharomyces Nature. ,vol. 405, pp. 451- 454 ,(2000) , 10.1038/35013058
Ross C. Hardison, John Oeltjen, Webb Miller, Long Human–Mouse Sequence Alignments Reveal Novel Regulatory Elements: A Reason to Sequence the Mouse Genome Genome Research. ,vol. 7, pp. 959- 966 ,(1997) , 10.1101/GR.7.10.959
Eric S. Lander, Michael S. Waterman, Genomic mapping by fingerprinting random clones: A mathematical analysis Genomics. ,vol. 2, pp. 231- 239 ,(1988) , 10.1016/0888-7543(88)90007-9
Kasper Møller, Bjarke Christensen, Jochen Förster, Jure Piškur, Jens Nielsen, Lisbeth Olsson, Aerobic glucose metabolism of Saccharomyces kluyveri: growth, metabolite production, and quantification of metabolic fluxes. Biotechnology and Bioengineering. ,vol. 77, pp. 186- 193 ,(2002) , 10.1002/BIT.10122
C. Lawrence, S. Altschul, M. Boguski, J. Liu, A. Neuwald, J. Wootton, Detecting Subtle Sequence Signals: A Gibbs Sampling Strategy for Multiple Alignment Science. ,vol. 262, pp. 208- 214 ,(1993) , 10.1126/SCIENCE.8211139
G. Z. Hertz, G. D. Stormo, Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. international conference on bioinformatics. ,vol. 15, pp. 563- 577 ,(1999) , 10.1093/BIOINFORMATICS/15.7.563
Kevin Struhl, YEAST TRANSCRIPTIONAL REGULATORY MECHANISMS Annual Review of Genetics. ,vol. 29, pp. 651- 674 ,(1995) , 10.1146/ANNUREV.GE.29.120195.003251
V L Singer, C R Wobbe, K Struhl, A wide variety of DNA sequences can functionally replace a yeast TATA element for transcriptional activation. Genes & Development. ,vol. 4, pp. 636- 645 ,(1990) , 10.1101/GAD.4.4.636