FAIRsharing is now available for record creation, update, and search at https://beta.fairsharing.org, please visit us there! Replacement of this read-only version of the legacy site with the new version of FAIRsharing is planned for early January 2022.

T-psi-C

Abbreviation:tpsic

General Information

T-psi-C is a database of tRNA sequences and 3D tRNA structures. The T-psi-C database can be continuously updated by any member of the scientific community.

Homepage http://tpsic.igcz.poznan.pl/

Countries that developed this resource Poland

Created in 2019

Taxonomic range

All

Knowledge Domains

Subjects

User-defined Tags

Mitochondrial tRNA

How to cite this record FAIRsharing.org: tpsic; T-psi-C; DOI: https://doi.org/10.25504/FAIRsharing.83jovl; Last edited: Jan. 21, 2020, 11:02 a.m.; Last accessed: Nov 27 2021 11:13 p.m.

Publication for citation T-psi-C: user friendly database of tRNA sequences and structures Sajek MP, Woźniak T, Sprinzl M, Jaruzelska J, Barciszewski J; Nucleic Acids Research ; 2019; 10.1093/nar/gkz922;

This record is maintained by MSajek

Record added: Dec. 10, 2019, 1:11 p.m.
Record updated: Dec. 12, 2019, 2:25 p.m. by MSajek.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.83jovl' by 'MSajek' at 14:25, 12 Dec 2019 (approved):

	'related_databases' has been modified:
		Before:
			MODOMICS
			Protein Data Bank
		After:
			MODOMICS
			Nucleic Acids Database
			Protein Data Bank
		Added:
			Nucleic Acids Database
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.83jovl' by 'The FAIRsharing Team' at 13:40, 12 Dec 2019 (approved):

	'organizations' has been modified:
		Before:
			Institute of Human Genetics, Polish Academy of Sciences|http://igcz.poznan.pl/|Maintains
			Institute of Bioorganic Chemistry, Polish Academy of Sciences|https://www.ibch.poznan.pl/|Undefined
		After:
			Institute of Human Genetics, Polish Academy of Sciences|http://igcz.poznan.pl/|Maintains
			Institute of Bioorganic Chemistry, Polish Academy of Sciences|https://www.ibch.poznan.pl/|Maintains
		Added:
			Institute of Bioorganic Chemistry, Polish Academy of Sciences|https://www.ibch.poznan.pl/|Maintains
		Removed:
			Institute of Bioorganic Chemistry, Polish Academy of Sciences|https://www.ibch.poznan.pl/|Undefined

	'related_databases' has been modified:
		Before:
			MODOMICS
		After:
			MODOMICS
			Protein Data Bank
		Added:
			Protein Data Bank
		Removed:

	'supportLinks' has been modified:
		Before:
		After:
			online documentation|http://tpsic.igcz.poznan.pl/info/about/
		Added:
			online documentation|http://tpsic.igcz.poznan.pl/info/about/
		Removed:

	'description' has been modified:
		Before: tRNAs have been widely studied for their role as genetic code decoders in the ribosome during translation, but have recently received new attention due to the discovery of novel roles beyond decoding, often in connection with human diseases. Yet, existing tRNA databases have not been updated for more than a decade, so they do not contain this new functional information and have not kept pace with the rate of discovery in this field. Therefore, a regularly updated database that contains information about newly discovered characteristics of tRNA molecules and can be regularly updated is strongly needed. Here, we report the creation of the T-psi-C database (http://tpsic.igcz.poznan.pl), an up-to-date collection of tRNA sequences. This database also contains 3D tRNA structures obtained from Protein Data Bank and generated using homology modeling. The T-psi-C database can be continuously updated by any member of the scientific community, and contains its own application programming interface (API), which allows users to retrieve or upload data in JSON format. Altogether, T-psi-C is user-friendly, easy to develop and an up-to-date source of knowledge about tRNAs.
		After: T-psi-C is a database of tRNA sequences and 3D tRNA structures. The T-psi-C database can be continuously updated by any member of the scientific community.

	'user_defined_tags' has been modified:
		Before:
			Mitochondrial tRNA
			tRNA
		After:
			Mitochondrial tRNA
		Added:
		Removed:
			tRNA

	'onto_disciplines' has been modified:
		Before:
		After:
			Structural Biology
		Added:
			Structural Biology
		Removed:

	'dataProcesses' has been modified:
		Before:
		After:
			Browse
			Submit
		Added:
			Browse
			Submit
		Removed:

	'onto_domains' has been modified:
		Before:
			tRNA
		After:
			Nucleic acid sequence
			RNA sequence
			Structure
			structure
			tRNA
		Added:
			Nucleic acid sequence
			RNA sequence
			Structure
			structure
		Removed:

	'taxonomies' has been modified:
		Before:
			Not applicable
		After:
			All
		Added:
			All
		Removed:
			Not applicable

In Collections

RDA Covid-19 WG Resources

Support

General

online documentation

About

Additional Information

Contact

Marcin Sajek ORCID

Tools

Elasticsearch	https://www.elastic.co/	-
BLAST+	ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST	2.7.1
RNAlib	https://www.tbi.univie.ac.at/RNA/ViennaRNA/doc/html/wrappers.html	2.4.14

Access / Retrieve Data

Conditions of Use

Data Curation

Submit

http://tpsic.igcz.poznan.pl/trna/trna-deposition/

Data Access

Browse

http://tpsic.igcz.poznan.pl/trna/?is_model=1

Publications

T-psi-C: user friendly database of tRNA sequences and structures

Sajek MP, Woźniak T, Sprinzl M, Jaruzelska J, Barciszewski J
Nucleic Acids Research 2019

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

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 MSajek

Maintains

Institute of Human Genetics, Polish Academy of Sciences (Research institute) Lead
Institute of Bioorganic Chemistry, Polish Academy of Sciences (Research institute)

T-psi-C

We need your help!

Developed by

Contact Us

About FAIRsharing