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ThaleMine

General Information

ThaleMine enables you to analyze Arabidopsis thaliana genes, proteins, gene expression, protein-protein interactions, orthologs, and more. Use plain text or structured queries for interactive gene and protein reports.

Homepage https://bar.utoronto.ca/thalemine

Countries that developed this resource Canada , United Kingdom , United States

Created in 2014

Taxonomic range

Arabidopsis thaliana

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: ThaleMine; ThaleMine; DOI: https://doi.org/10.25504/FAIRsharing.0oOPKg; Last edited: Nov. 13, 2019, 6:58 a.m.; Last accessed: Jan 29 2022 1:49 p.m.

Publication for citation Araport: the Arabidopsis information portal. Krishnakumar V,Hanlon MR,Contrino S,Ferlanti ES,Karamycheva S,Kim M,Rosen BD,Cheng CY,Moreira W,Mock SA,Stubbs J,Sullivan JM,Krampis K,Miller JR,Micklem G,Vaughn M,Town CD; Nucleic Acids Res ; 2014; 10.1093/nar/gku1200;

This record is maintained by Asher ORCID and InterMineTeam

Record added: Dec. 11, 2018, 9:11 p.m.
Record updated: Nov. 13, 2019, 6:50 a.m. by Asher.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.0oOPKg' by 'Asher' at 06:50, 13 Nov 2019 (approved):

	'contactEmail' has been modified:
		Before: araport@jcvi.org
		After: nicholas.provart@utoronto.ca

	'countries' has been modified:
		Before:
			Canada
			United States
		After:
			Canada
			United Kingdom
			United States
		Added:
			United Kingdom
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.0oOPKg' by 'Asher' at 17:28, 12 Nov 2019 (approved):

	'organizations' has been modified:
		Before:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			National Science Foundation (NSF), USA|https://www.nsf.gov/|Funds
			University of Toronto, Canada|http://www.mclaughlin.utoronto.ca/|Maintains
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			National Science Foundation (NSF), USA|https://www.nsf.gov/|Funds
			Bio-Analytic Resource|http://bar.utoronto.ca/|Maintains
		Added:
			Bio-Analytic Resource|http://bar.utoronto.ca/|Maintains
		Removed:
			University of Toronto, Canada|http://www.mclaughlin.utoronto.ca/|Maintains

Edits to 'https://fairsharing.org/FAIRsharing.0oOPKg' by 'Asher' at 17:23, 12 Nov 2019 (approved):

	'supportLinks' has been modified:
		Before:
			FAQ|https://www.araport.org/help/faq#t346
			help|https://www.araport.org/thalemine/user-guide
			tess training|https://tess.elixir-europe.org/materials/thalemine-tutorials
			tess training|https://tess.elixir-europe.org/materials/intermine-user-tutorial
			tess training|https://tess.elixir-europe.org/materials/intermine-user-manual
		After:
			FAQ|https://www.araport.org/
			TeSS training|https://tess.elixir-europe.org/materials/thalemine-tutorials
			TeSS training|https://tess.elixir-europe.org/materials/intermine-user-tutorial
			TeSS training|https://tess.elixir-europe.org/materials/intermine-user-manual
		Added:
			FAQ|https://www.araport.org/
			TeSS training|https://tess.elixir-europe.org/materials/thalemine-tutorials
			TeSS training|https://tess.elixir-europe.org/materials/intermine-user-tutorial
			TeSS training|https://tess.elixir-europe.org/materials/intermine-user-manual
		Removed:
			FAQ|https://www.araport.org/help/faq#t346
			help|https://www.araport.org/thalemine/user-guide
			tess training|https://tess.elixir-europe.org/materials/thalemine-tutorials
			tess training|https://tess.elixir-europe.org/materials/intermine-user-tutorial
			tess training|https://tess.elixir-europe.org/materials/intermine-user-manual

	'accessPoints' has been modified:
		Before:
			REST|https://apps.araport.org/thalemine/api.do|Web Service Client (Perl, Python, Ruby, Java)
		After:
			REST|https://bar.utoronto.ca/thalemine/api.do|Web Service Client (Perl, Python, Ruby, Java)
		Added:
			REST|https://bar.utoronto.ca/thalemine/api.do|Web Service Client (Perl, Python, Ruby, Java)
		Removed:
			REST|https://apps.araport.org/thalemine/api.do|Web Service Client (Perl, Python, Ruby, Java)

	'homepage' has been modified:
		Before: https://apps.araport.org/thalemine
		After: https://bar.utoronto.ca/thalemine

	'organizations' has been modified:
		Before:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			J. Craig Venter Institute (JCVI), La Jolla, CA, USA|http://www.jcvi.org/|Maintains
			National Science Foundation (NSF), USA|https://www.nsf.gov/|Funds
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			National Science Foundation (NSF), USA|https://www.nsf.gov/|Funds
			University of Toronto, Canada|http://www.mclaughlin.utoronto.ca/|Maintains
		Added:
			University of Toronto, Canada|http://www.mclaughlin.utoronto.ca/|Maintains
		Removed:
			J. Craig Venter Institute (JCVI), La Jolla, CA, USA|http://www.jcvi.org/|Maintains

	'countries' has been modified:
		Before:
			United States
		After:
			Canada
			United States
		Added:
			Canada
		Removed:

In Collections

InterMine

Support

General

FAQ	ThaleMine FAQ

Additional Information

Contact

nicholas.provart@utoronto.ca

TeSS training resources

Thalemine tutorials

InterMine user tutorial

InterMine user manual

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

Applies to: Database software

GNU Lesser General Public License (LGPL) 2.1

Data Access

Search Within Genomic Regions	https://bar.utoronto.ca/thalemine/genomicRegionSearch.do
Advanced Search (Query Builder)	https://bar.utoronto.ca/thalemine/customQuery.do
Search Against A List	https://bar.utoronto.ca/thalemine/bag.do
Search Via Pre-Defined Queries	https://bar.utoronto.ca/thalemine/templates.do

REST Web Services

Web Service Client (Perl, Python, Ruby, Java)

https://bar.utoronto.ca/thalemine/api.do

Publications

Araport: the Arabidopsis information portal.

Krishnakumar V,Hanlon MR,Contrino S,Ferlanti ES,Karamycheva S,Kim M,Rosen BD,Cheng CY,Moreira W,Mock SA,Stubbs J,Sullivan JM,Krampis K,Miller JR,Micklem G,Vaughn M,Town CD
Nucleic Acids Res 2014

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Gene Ontology

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by Asher ORCID and InterMineTeam

Funds

Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
National Science Foundation (NSF), USA (Government body)

Maintains

Bio-Analytic Resource (Lab) Lead

Grant Number(s)

#DBI-1262414 (National Science Foundation (NSF), USA)
BB/L027151/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)

ThaleMine

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