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Protocols

TAIR specifications

Information


Unique identifier OMICS_01662
Name TAIR
Alternative name The Arabidopsis Information Resource
Restrictions to use None
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/The_Arabidopsis_Information_Resource

Taxon


  • Plants and Fungi
    • Arabidopsis thaliana

Maintainer


  • person_outline TAIR

Publications for The Arabidopsis Information Resource

TAIR citations

 (1712)
library_books

Auxin decreases chromatin accessibility through the TIR1/AFBs auxin signaling pathway in proliferative cells

2018
Sci Rep
PMCID: 5958073
PMID: 29773913
DOI: 10.1038/s41598-018-25963-y

[…] l replicates were analyzed. The produced bcl files were converted to fastq files by bcl2fastq (Illumina). The reads were analyzed as previously described and were mapped to the Arabidopsis reference (TAIR10) by bowtie 1.2.1 with the following parameters: ‘-all -best -strata’ (Table ). The number of reads mapped to each reference was counted. The sequencing data are deposited at DDBJ (accession num […]

library_books

SolCyc: a database hub at the Sol Genomics Network (SGN) for the manual curation of metabolic networks in Solanum and Nicotiana specific databases

2018
PMCID: 5946812
PMID: 29762652
DOI: 10.1093/database/bay035

[…] respectively. Functional annotation was performed searching annotated proteins by sequence similarity using BlastP (with a hit e-value cutoff < 1e-20) of the coding protein genes with the GenBank NR, TAIR10 and SwissProt databases (downloaded on the 21 July 2014). Additionally the protein domains were annotated using InterProScan. Functional annotations were integrated using the program AHRD v2.0. […]

library_books

Transcriptome sequencing and analysis during seed growth and development in Euryale ferox Salisb

2018
BMC Genomics
PMCID: 5944168
PMID: 29743016
DOI: 10.1186/s12864-018-4707-9

[…] igenes in the above three length ranges accounted for 59.91%, 19.16%, and 20.94% of the total (Table ). In addition, the assembled sequences were also annotated by BLASTX against Arabidopsis thaliana TAIR10 (Additional file : Table S1) and rice 7.0 proteomes (Additional file : Table S2). […]

library_books

Systematic analysis of DEMETER like DNA glycosylase genes shows lineage specific Smi miR7972 involved in SmDML1 regulation in Salvia miltiorrhiza

2018
Sci Rep
PMCID: 5940787
PMID: 29739980
DOI: 10.1038/s41598-018-25315-w

[…] The deduced amino acid sequences of four Arabidopsis DML proteins were downloaded from the TAIR database (http://www.arabidopsis.org). To predict SmDML genes, AtDMLs were used as queries to search the two databases of S. miltiorrhiza whole genome sequence,. The searches were carried out usi […]

library_books

Long non coding RNAs of switchgrass (Panicum virgatum L.) in multiple dehydration stresses

2018
BMC Plant Biol
PMCID: 5936019
PMID: 29728055
DOI: 10.1186/s12870-018-1288-3

[…] lncRNAs and mRNAs using RNAplex software [].Genes targeted by lncRNAs were annotated using NCBI Blast tools (version 2.2.8) in conjunction with the NCBI non-redundant protein sequences (nr) database, the Arabidopsis Information Resource Proteins database (release TAIR10), the maize B73 RefGen_v3 database, and the Rice Genome Annotation Project (RGAP) release 7. All target genes and differentially […]

library_books

Molecular Characterization of SQUAMOSA PROMOTER BINDING PROTEIN LIKE (SPL) Gene Family in Betula luminifera

2018
Front Plant Sci
PMCID: 5945835
PMID: 29780401
DOI: 10.3389/fpls.2018.00608

[…] The amino acid sequences of AtSPLs were retrieved from the Arabidopsis Information Resource database (TAIR version 10, http://www.arabidopsis.org/), and the sequences of Populus PtSPLs were obtained from the previous study (Li and Lu, ). To identify the g […]

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TAIR institution(s)
Department of Plant Biology, Carnegie Institution, Stanford, CA, USA

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