Zobrazeno 1 - 10
of 14
pro vyhledávání: '"Douglas W. Raiford"'
Autor:
Dan E. Krane, Douglas W. Raiford, Esley M. Heizer, Michael L. Raymer, Travis E. Doom, Robert V. Miller
Publikováno v:
Journal of Molecular Evolution. 74:206-216
Metabolic efficiency, as a selective force shaping proteomes, has been shown to exist in Escherichia coli and Bacillus subtilis and in a small number of organisms with photoautotrophic and thermophilic lifestyles. Earlier attempts at larger-scale ana
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5143cb3ab34f7c659c2d5ebd6c7deb35
https://doi.org/10.1007/s00239-012-9500-9
https://doi.org/10.1007/s00239-012-9500-9
Autor:
Douglas W. Raiford, Hiroshi Akashi, Dan E. Krane, Esley M. Heizer, Michael L. Raymer, Robert V. Miller
Publikováno v:
Journal of Molecular Evolution. 67:621-630
Prokaryotic organisms preferentially utilize less energetically costly amino acids in highly expressed genes. Studies have shown that the proteome of Saccharomyces cerevisiae also exhibits this behavior, but only in broad terms. This study examines t
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::561ba6d96984bd3cfe8e0780853ff498
https://doi.org/10.1007/s00239-008-9162-9
https://doi.org/10.1007/s00239-008-9162-9
Autor:
Jean-Marc Lanchy, J. Stephen Lodmell, Douglas W. Raiford, Mary Ellenbecker, Alec Sundet, Jeremy St. Goddard
Publikováno v:
Computational biology and chemistry. 58
Display Omitted A family of RNA aptamers selected for their ability to bind to a viral protein, but whose secondary structures were uncharacterized, was folded and numerically scored in silico.The predicted structural characteristics of randomly gene
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d04511cac3521dd767a7b594cb6a6d56
https://pubmed.ncbi.nlm.nih.gov/26141677
https://pubmed.ncbi.nlm.nih.gov/26141677
Autor:
Robert V. Miller, Michael L. Raymer, Douglas W. Raiford, Dan E. Krane, Esley M. Heizer, Travis E. Doom
Publikováno v:
Molecular Biology and Evolution. 23:1670-1680
For most prokaryotic organisms, amino acid biosynthesis represents a significant portion of their overall energy budget. The difference in the cost of synthesis between amino acids can be striking, differing by as much as 7-fold. Two prokaryotic orga
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::800f948cbddd5e76f6eb640744e5231c
https://doi.org/10.1093/molbev/msl029
https://doi.org/10.1093/molbev/msl029
Halophilic archaea accumulate molar concentrations of KCl in their cytoplasm as an osmoprotectant and have evolved highly acidic proteomes that function only at high salinity. We examined osmoprotection in the photosynthetic Proteobacteria Halorhodos
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6633323b3b414764d11f580d02762ef0
https://europepmc.org/articles/PMC3537055/
https://europepmc.org/articles/PMC3537055/
Publikováno v:
IEEE/ACM transactions on computational biology and bioinformatics. 8(2)
The study of codon usage bias is an important research area that contributes to our understanding of molecular evolution, phylogenetic relationships, respiratory lifestyle, and other characteristics. Translational efficiency bias is perhaps the most
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a50c215fd107cbab389fea2b778bf10d
https://pubmed.ncbi.nlm.nih.gov/21233519
https://pubmed.ncbi.nlm.nih.gov/21233519
Publikováno v:
Bioinformatics (Oxford, England). 26(18)
Motivation: As next generation sequencing is rapidly adding new genomes, their correct placement in the taxonomy needs verification. However, the current methods for confirming classification of a taxon or suggesting revision for a potential misplace
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f534e4d3dc5d481e901f8821e48ebb09
https://pubmed.ncbi.nlm.nih.gov/20624777
https://pubmed.ncbi.nlm.nih.gov/20624777
Publikováno v:
IEEE/ACM transactions on computational biology and bioinformatics. 7(2)
Genomic sequencing projects are an abundant source of information for biological studies ranging from the molecular to the ecological in scale; however, much of the information present may yet be hidden from casual analysis. One such information doma
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3081811120ad5b034b2c42d335d55440
https://pubmed.ncbi.nlm.nih.gov/20431144
https://pubmed.ncbi.nlm.nih.gov/20431144
Publikováno v:
CIBCB
Phylogenetic tree analysis using molecular sequences continues to expand beyond the 16S rRNA marker. By addressing the multi-copy issue known as the intra-heterogeneity, this paper restores the focus in using the 16S rRNA marker. Through use of a nov
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::63b8074f08049a7ea1b23437dd719b3d
https://doi.org/10.1109/cibcb.2010.5510472
https://doi.org/10.1109/cibcb.2010.5510472
Publikováno v:
2009 Ohio Collaborative Conference on Bioinformatics.
Amino acid biosynthetic pathways are highly conserved throughout all domains of life. Biosynthesis of amino acid requires the diversion of resources from energy production to amino acid production. The consequent energy-cost of producing an individua
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::a9fdda3c9bc837741787fd416a84254d
https://doi.org/10.1109/occbio.2009.22
https://doi.org/10.1109/occbio.2009.22