Research Topics
Species | Todd D TaylorSummaryAffiliation: RIKEN Brain Science Institute Country: Japan Publications
| Collaborators
|
Detail Information
Publications
After 'completion': the changing face of human chromosomes 21 and 22Todd Duane Taylor
RIKEN Genomic Sciences Center, Human Genome Research Group, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama, Kanagawa 230 0045, Japan
Genome Biol 5:111. 2004..There is now considerably more gene-expression evidence to support predicted genes, and the annotation of functions for previously unknown genes, including those implicated in disease, is gradually improving...
Human chromosome 11 DNA sequence and analysis including novel gene identificationTodd D Taylor
RIKEN Genomic Sciences Center, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama, Kanagawa 230 0045, Japan
Nature 440:497-500. 2006..5 million base pairs representing 99.8% coverage of the euchromatic sequence--provide scientists with a solid foundation for understanding the genetic basis of these disorders and other biological phenomena...- Acetate-producing bifidobacteria protect the host from enteropathogenic infection via carbohydrate transportersShinji Fukuda
Laboratory for Epithelial Immunobiology, RIKEN Research Center for Allergy and Immunology, Yokohama, Japan
Gut Microbes 3:449-54. 2012..As demonstrated here, our multi-omics approach provides a powerful strategy for evaluation of host-microbial interactions in the complex gut ecosystem... - Fast and accurate taxonomic assignments of metagenomic sequences using MetaBinVineet K Sharma
Laboratory for MetaSystems Research, Quantitative Biology Center, RIKEN, Yokohama, Kanagawa, Japan
PLoS ONE 7:e34030. 2012..MetaBin web server and a standalone version for high-throughput analysis are available freely at http://metabin.riken.jp/... - Comparative analysis of chimpanzee and human Y chromosomes unveils complex evolutionary pathwayYoko Kuroki
RIKEN Genomic Sciences Center, Yokohama 230-0045, Japan
Nat Genet 38:158-67. 2006..Reconstruction of the common ancestral Y chromosome reflects the dynamic changes in our genomes in the 5-6 million years since speciation... 
Complete genome sequences of rat and mouse segmented filamentous bacteria, a potent inducer of th17 cell differentiationTulika Prakash
Laboratory for MetaSystems Research, Quantitative Biology Center, RIKEN, Yokohama, Kanagawa, Japan
Cell Host Microbe 10:273-84. 2011..However, SFB lack most of the clostridial virulence-related genes. Comparative analysis with clostridial genomes suggested possible mechanisms for host responses and specific adaptations in the intestine...- Expression of conjoined genes: another mechanism for gene regulation in eukaryotesTulika Prakash
MetaSystems Research Team, Computational Systems Biology Research Group, Advanced Computational Sciences Department, RIKEN Advanced Science Institute, Yokohama, Japan
PLoS ONE 5:e13284. 2010..In summary, our findings reveal new insights about the functionality of CGs in terms of another possible mechanism for gene regulation and genomic evolution and the mechanism leading to their formation... - Construction and analysis of a human-chimpanzee comparative clone mapAsao Fujiyama
RIKEN Genomic Sciences Center, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama, Kanagawa 230 0045, Japan
Science 295:131-4. 2002..We detected candidate positions, including two clusters on human chromosome 21 that suggest large, nonrandom regions of difference between the two genomes... - Comparative genomic sequence analysis of the human chromosome 21 Down syndrome critical regionAtsushi Toyoda
Human Genome Research Group, Genomic Sciences Center, RIKEN Yokohama Institute, 1 7 22, Suehiro cho, Tsurumi ku, Yokohama, Kanagawa, Japan
Genome Res 12:1323-32. 2002..Gene prediction programs give different results when used to analyze the well-conserved regions between mouse and human sequences. Our findings have implications for evolution and for modeling the genetic basis of DS in mice... - Genome of an endosymbiont coupling N2 fixation to cellulolysis within protist cells in termite gutYuichi Hongoh
Ecomolecular Biorecycling Science Research Team, RIKEN Advanced Science Institute, Saitama 351 0198, Japan
Science 322:1108-9. 2008..Thus, nitrogen fixation and cellulolysis are coupled within the protist's cells. This highly evolved symbiotic system probably underlies the ability of the worldwide pest termites Coptotermes to use wood as their sole food... - MetaBioME: a database to explore commercially useful enzymes in metagenomic datasetsVineet K Sharma
MetaSystems Research Team, Computational Systems Biology Research Group, Advanced Computational Sciences Department, Advanced Science Institute, RIKEN, Yokohama, Kanagawa 230 0045, Japan
Nucleic Acids Res 38:D468-72. 2010..Using MetaBioME, we have identified several novel homologues to known CUEs that can potentially serve as leads for further experimental verification... - Functional assignment of metagenomic data: challenges and applicationsTulika Prakash
Laboratory for MetaSystems Research at RIKEN, Japan
Brief Bioinform 13:711-27. 2012..Finally, we provide some examples of applications from recent metagenomic studies which have been successfully conducted in spite of the known difficulties... - Bifidobacteria can protect from enteropathogenic infection through production of acetateShinji Fukuda
Laboratory for Epithelial Immunobiology, RIKEN Research Center for Allergy and Immunology, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama, Kanagawa 230 0045, Japan
Nature 469:543-7. 2011..We propose that acetate produced by protective bifidobacteria improves intestinal defence mediated by epithelial cells and thereby protects the host against lethal infection... - Complete genome sequence of the wild-type commensal Escherichia coli strain SE15, belonging to phylogenetic group B2Hidehiro Toh
Advanced Science Institute, RIKEN, Yokohama, Kanagawa, Japan
J Bacteriol 192:1165-6. 2010..coli phylogenetic group B2, which includes the majority of extraintestinal pathogenic E. coli. Here, we report the finished and annotated genome sequence of this organism...