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TASUKE specifications

Information


Unique identifier OMICS_08182
Name TASUKE
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
License MIT License
Computer skills Medium
Version 1.3.0
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline TASUKE

Information


Unique identifier OMICS_08182
Name TASUKE
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 1.3.0
Stability Stable
Maintained Yes

Maintainer


  • person_outline TASUKE

Publication for TASUKE

TASUKE citations

 (5)
library_books

Increase of Fungal Pathogenicity and Role of Plant Glutamine in Nitrogen Induced Susceptibility (NIS) To Rice Blast

2017
Front Plant Sci
PMCID: 5329020
PMID: 28293247
DOI: 10.3389/fpls.2017.00265

[…] er's instructions. Clean reads have been mapped using SOAP2 on reference genomes: Kasalath for rice and 70–15 for Magnaporthe. Annotated rice transcripts from Kasalath genome were downloaded from the TASUKE web-platform (Kumagai et al., ; Sakai et al., ). M. oryzae annotation datasets were downloaded from the Magnaporthe comparative Sequencing Project at the Broad Institute (assembly release 8; Ch […]

library_books

Genetic factors underlying boron toxicity tolerance in rice: genome wide association study and transcriptomic analysis

2016
J Exp Bot
PMCID: 5444448
PMID: 28204664
DOI: 10.1093/jxb/erw423

[…] nt genotype, were nominated for further sequence analysis. Coding sequences and 2 kb upstream sequences for a subset of 21 accessions were downloaded from the public data repositories oryzaSNP () and TASUKE () and aligned using MEGA7 software (). t-tests were performed to investigate the effect of each polymorphic SNP on phenotypic traits. […]

library_books

The Nipponbare genome and the next generation of rice genomics research in Japan

2016
PMCID: 4958085
PMID: 27447712
DOI: 10.1186/s12284-016-0107-4

[…] assive genome sequencing data in a considerable number of rice cultivars and species. To facilitate efficient visualization of rapidly emerging large-scale sequencing data, a novel web-based browser, Tasuke (http://tasuke.dna.affrc.go.jp/), with various functions to show the variation and read depth of multiple genomes, as well as annotations and SNP data of hundreds of cultivars aligned to a refe […]

call_split

Genetic dissection of ozone tolerance in rice (Oryza sativa L.) by a genome wide association study

2014
J Exp Bot
PMCID: 4265164
PMID: 25371505
DOI: 10.1093/jxb/eru419
call_split See protocol

[…] ware (). The protein motifs were searched using the InterPro database (https://www.ebi.ac.uk/interpro/, accessed September 2014). Additional genomic sequences of EREBP and RING were obtained from the TASUKE rice genome browser (http://rice50.dna.affrc.go.jp/, accessed September 2014), where the genomic sequences of 26 accessions from our mapping population were available (). […]

library_books

Construction of Pseudomolecule Sequences of the aus Rice Cultivar Kasalath for Comparative Genomics of Asian Cultivated Rice

2014
PMCID: 4131834
PMID: 24578372
DOI: 10.1093/dnares/dsu006

[…] accessions obtained in the present study by using the Kasalath pseudomolecules as a reference are accessible through our genome viewer (http://rice50ks.dna.affrc.go.jp/) developed on the basis of the TASUKE program (Supplementary Fig. S4). Figure 4. […]

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TASUKE institution(s)
Bioinformatics Research Unit, Agrogenomics Research Center, National Institute of Agrobiological Sciences, Tsukuba, Ibaraki, Japan

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