MachiBase specifications


Unique identifier OMICS_01878
Name MachiBase
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes


  • Invertebrates
    • Drosophila melanogaster


  • person_outline Shinichi Morishita

Publication for MachiBase

MachiBase citations


FlyBase at 25: looking to the future

Nucleic Acids Res
PMCID: 5210523
PMID: 27799470
DOI: 10.1093/nar/gkw1016

[…] files of small RNA species, and ChIP studies of mesodermal transcription factor binding and histone modification enrichment. The RNA-Seq profiles of capped mRNA 5′-ends originate from the RAMPAGE and MachiBase studies (,), providing data for 43 different developmental stage ranges. The RNA-Seq profiles of small RNA (miRNA, piRNA and siRNA) were kindly provided by Eric Lai's group, who reanalyzed d […]


Expression of distinct RNAs from 3′ untranslated regions

Nucleic Acids Res
PMCID: 3064787
PMID: 21075793
DOI: 10.1093/nar/gkq1158

[…] ome Browser (). Human and mouse capped analysis gene expression (CAGE) retrieved from RIKEN ( and fruity fly Serial Analysis of Gene Expression (SAGE) tags retrieved from MachiBase () were mapped to the genome with ZOOM requiring exact and unique matches (). Syntenic locations of mouse 3′UTR CAGE tags in the human genome were identified using the LiftOver utility (). M […]

MachiBase institution(s)
Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Japan; Japan Science and Technology Agency (JST), Tokyo, Japan; Department of Molecular Preventive Medicine, School of Medicine, The University of Tokyo, Tokyo, Japan; Department of Biological Sciences, Tokyo Metropolitan University, Hachioji, Japan
MachiBase funding source(s)
Supported by Scientific Research on Priority Areas (C) from the Ministry of Education, Culture, Sports, Science and Technology of Japan partially, Bioinformatics Research and Development (BIRD) and the Japan Science and Technology Agency (JST).

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