• Publications
  • Influence
Multiple High-Throughput Analyses Monitor the Response of E. coli to Perturbations
TLDR
E. coli seems to use complementary strategies that result in a metabolic network robust against perturbations, and actively regulated enzyme levels to maintain a stable metabolic state in response to changes in growth rate. Expand
KEGG-Based Pathway Visualization Tool for Complex Omics Data
TLDR
A web-based resource consisting of a web-application for the visualization of complex omics data onto KEGG pathways to overview all entities in the context of cellular pathways, and databases created with the software to visualize a series of microarray data. Expand
Extremotolerant tardigrade genome and improved radiotolerance of human cultured cells by tardigrade-unique protein
TLDR
Using human cultured cells, it is demonstrated that a tardigrade-unique DNA-associating protein suppresses X-ray-induced DNA damage by ∼40% and improves radiotolerance, indicating the relevance of tardigrate-unique proteins to tolerability and tardigades could be a bountiful source of new protection genes and mechanisms. Expand
Comprehensive prediction of chromosome dimer resolution sites in bacterial genomes
TLDR
The sequence of dif sites is widely conserved among many bacterial phyla, and they can be computationally identified using a phylogenetic prediction approach based on iterated hidden Markov modeling, and the lack of correlation between dif position and the degree of GC skew suggests that replication termination does not occur strictly at dif Sites. Expand
Genome Projector: zoomable genome map with multiple views
TLDR
Genome Projector is an intuitive Web application for browsing genomics information, implemented with a zoomable user interface and tabbed browsing utilising Google Maps API and Asynchronous JavaScript and XML (AJAX) technology. Expand
De novo assembly and comparative transcriptome analysis of Euglena gracilis in response to anaerobic conditions
TLDR
An RNA-Seq analysis provided comprehensive transcriptome information on E.gracilis for the first time and indicated that paramylon and wax ester metabolic pathways are regulated at post-transcriptional rather than the transcriptional level in response to anaerobic conditions. Expand
Pathway Projector: Web-Based Zoomable Pathway Browser Using KEGG Atlas and Google Maps API
TLDR
A web-based pathway browser named Pathway Projector is implemented that provides integrated pathway maps that are based upon the KEGG Atlas, with the addition of nodes for genes and enzymes, and is implemented as a scalable, zoomable map utilizing the Google Maps API. Expand
In silico screening of archaeal tRNA-encoding genes having multiple introns with bulge-helix-bulge splicing motifs.
TLDR
By a comprehensive search for tRNA genes in 29 archaeal genomes using SPLITSX, 43 novel candidates that contain introns at noncanonical sites are found, including 15 that contained two introns and three that contained three introns within the respective putative t RNA genes. Expand
GEM System: automatic prototyping of cell-wide metabolic pathway models from genomes
TLDR
The GEM System prototypes qualitative models to reduce the labor-intensive tasks required for systems biology research and generate models of cell-wide metabolic pathways from genome sequences and other public biological information. Expand
An integrative description of Macrobiotus shonaicus sp. nov. (Tardigrada: Macrobiotidae) from Japan with notes on its phylogenetic position within the hufelandi group
TLDR
A phylogenetic analysis of available DNA sequences of the COI marker for the hufelandi group revealed that the new species clusters with the two other species that exhibit filaments on egg process discs, which may suggest that the ancestor of the five species with atypical egg processes had a mutation allowing derivations from the mushroom or inverted chalice-like shape of egg processes. Expand
...
1
2
3
4
5
...