Development of database technologies for genome editing and functional genomics by bioinformatic approach


  • Identification of Key Uric Acid Synthesis Pathway in a Unique Mutant Silkworm Bombyx mori Model of Parkinson’s Disease DOI: 10.1371/journal.pone.0069130
  • GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts. DOI: 10.1093/nar/gks448
  • Tutorial videos of bioinformatics resources: online distribution trial in Japan named TogoTV. DOI: 10.1093/bib/bbr039
  • Gene expression profiling in multipotent DFAT cells derived from mature adipocytes. DOI: 10.1016/j.bbrc.2011.03.063
  • Allie: a database and a search service of abbreviations and long forms. DOI: 10.1093/database/bar013
  • Id4, a new candidate gene for senile osteoporosis, acts as a molecular switch promoting osteoblast differentiation. DOI: 10.1371/journal.pgen.1001019
  • Gendoo: functional profiling of gene and disease features using MeSH vocabulary. DOI: 10.1093/nar/gkp483
  • Identification of novel PPARgamma target genes by integrated analysis of ChIP-on-chip and microarray expression data during adipocyte differentiation. DOI: 10.1016/j.bbrc.2008.05.037
  • BioCompass: a novel functional inference tool that utilizes MeSH hierarchy to analyze groups of genes. PMID: 18430990
  • Identification of novel steroid target genes through the combination of bioinformatics and functional analysis of hormone response elements. DOI: 10.1016/j.bbrc.2005.10.188
  • The study of metabolic pathways in tumors based on the transcriptome. DOI: 10.1016/j.semcancer.2005.04.008
  • SayaMatcher: Genome scale organization and systematic analysis of nuclear receptor response elements ISSN: 0378-1119
  • Identification and functional analysis of consensus androgen response elements in human prostate cancer cells. DOI: 10.1016/j.bbrc.2004.10.174
  • Integrative annotation of 21,037 human genes validated by full-length cDNA clones. DOI: 10.1371/journal.pbio.0020162
  • Identification of unique transcripts from a mouse full-length, subtracted inner ear cDNA library. DOI: 10.1016/j.ygeno.2004.01.006
  • Gene discovery in genetically labeled single dopaminergic neurons of the retina. DOI: 10.1073/pnas.0400913101
  • MaXML: mouse annotation XML. PMID: 15089750
  • Molecular basis of constitutive production of basement membrane components. Gene expression profiles of Engelbreth-Holm-Swarm tumor and F9 embryonal carcinoma cells. DOI: 10.1074/jbc.M304985200
  • Gene expression profile of normal lungs predicts genetic predisposition to lung cancer in mice. DOI: 10.1093/carcin/bgg133

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Co-workers & collaborators

Kakeru Yokoi

Kiyoshi Kimura

Hiromasa Ono

Project Assistant Professor - DBCLS, Mishima, Japan

Hideki Sezutsu

kiyoshi kimura

Yuki Naito

Hidemasa Bono's public data