Record updated: Feb. 8, 2021, 8:15 p.m. by The FAIRsharing Team.

Edits to 'https://fairsharing.org/FAIRsharing.rkpmhn' by 'The FAIRsharing Team' at 20:15, 08 Feb 2021 (approved):

	'related_databases' has been modified:
		Before:
		After:
			MEROPS
			UniProt Knowledgebase
		Added:
			MEROPS
			UniProt Knowledgebase
		Removed:

	'supportLinks' has been modified:
		Before:
			online documentation|http://clipserve.clip.ubc.ca/topfind/documentation
			wikipedia|https://en.wikipedia.org/wiki/TopFIND
		After:
			email|topfind.clip@gmail.com
			online documentation|http://clipserve.clip.ubc.ca/topfind/documentation
			wikipedia|https://en.wikipedia.org/wiki/TopFIND
		Added:
			email|topfind.clip@gmail.com
		Removed:

	'description' has been modified:
		Before: TopFIND is a protein-centric database for the annotation of protein termini currently in its third version. Non-canonical protein termini can be the result of multiple different biological processes, including pre-translational processes such as alternative splicing and alternative translation initiation or post-translational protein processing by proteases that cleave proteases as part of protein maturation or as a regulatory modification. Accordingly, protein termini evidence in TopFIND is inferred from other databases such as ENSEMBL transcripts, TISdb for alternative translation initiation, MEROPS for protein cleavage by proteases, and UniProt for canonical and protein isoform start sites. Additionally, termini are annotated from user submitted lists of termini and inferred from user submitted lists of cleavage sites. As a protein-centric database, TopFIND presents a website for each protein isoform (organized around UniProt accession codes). These websites contain general protein information, such as organism, chromosome location, and proteins sequence. They then list position information such as specific termini evidences, known cleavage sites, sequence features and domains for each protein. In addition, TopFIND shows each protein in the context of the protease web, a network of proteases and their inhibitors, where a protease can cleave of other proteases and their inhibitors thus influencing their activity. All information in TopFIND can be filtered by a powerful filter engine that relies on rich annotation as to the origin of data in TopFIND. TopFIND can also be programmatically queried using the PSICQUIC or XML API. Recently, software tools were developed to enable quick access to TopFIND data for lists of termini obtained by, for example, proteomic termini screens (terminomics). TopFIND Explorer ?TopFINDer? reports position specific protein information for protein termini, such as terminus evidences, prime and non-prime sequences, and protein domains affected by cleavage. TopFINDer further reports summary statistics for protein cleavage by known proteases. PathFINDer is a second tool that reports proteolytic paths from a query protease to identified protein substrates thus enabling the differentiation between direct and indirect protease substrates and yielding mechanistic insights into pathways based on existing information.
		After: The Termini-Oriented Protein Function INferred Database (TopFIND) is an integrated knowledgebase focused on protein termini, their formation by proteases and functional implications. It contains information about the processing and the processing state of proteins and functional implications thereof derived from research literature, contributions by the scientific community and biological databases.

	'licences' has been modified:
		Before:
			TopFIND Data Policies and Disclaimer|http://clipserve.clip.ubc.ca/topfind/license|Data
			Creative Commons Attribution-NoDerivs 3.0 Unported (CC BY-ND 3.0)|https://creativecommons.org/licenses/by-nd/3.0/|Undefined
		After:
			TopFIND Data Policies and Disclaimer|https://topfind.clip.msl.ubc.ca/documentations/license|Data
			Creative Commons Attribution-NoDerivs 3.0 Unported (CC BY-ND 3.0)|https://creativecommons.org/licenses/by-nd/3.0/|Undefined
		Added:
			TopFIND Data Policies and Disclaimer|https://topfind.clip.msl.ubc.ca/documentations/license|Data
		Removed:
			TopFIND Data Policies and Disclaimer|http://clipserve.clip.ubc.ca/topfind/license|Data

	'dataProcesses' has been modified:
		Before:
			SQL database dump, data access, 
			file download(CSV,XML), data access, 
			download, data access, http://clipserve.clip.ubc.ca/topfind/download
			access to historical database dumps possible, data versioning, 
			no versioning, data versioning, 
			manual curation, data curation, 
			automated curation, data curation, 
			ad-hoc release, data release, 
		After:
			Protein Search, data access, https://topfind.clip.msl.ubc.ca/proteins/protsearch
			Contribute, data curation, https://topfind.clip.msl.ubc.ca/contribute/index
			download, data release, https://topfind.clip.msl.ubc.ca/documentations/download
			Search, data access, https://topfind.clip.msl.ubc.ca/
			PathFINDer, data access, https://topfind.clip.msl.ubc.ca/pathfinder
			TopFINDer, data access, https://topfind.clip.msl.ubc.ca/topfinder
		Added:
			Protein Search, data access, https://topfind.clip.msl.ubc.ca/proteins/protsearch
			Contribute, data curation, https://topfind.clip.msl.ubc.ca/contribute/index
			download, data release, https://topfind.clip.msl.ubc.ca/documentations/download
			Search, data access, https://topfind.clip.msl.ubc.ca/
			PathFINDer, data access, https://topfind.clip.msl.ubc.ca/pathfinder
			TopFINDer, data access, https://topfind.clip.msl.ubc.ca/topfinder
		Removed:
			SQL database dump, data access, 
			file download(CSV,XML), data access, 
			download, data access, http://clipserve.clip.ubc.ca/topfind/download
			access to historical database dumps possible, data versioning, 
			no versioning, data versioning, 
			manual curation, data curation, 
			automated curation, data curation, 
			ad-hoc release, data release, 

	'publications' has been modified:
		Before:
			TopFIND, a knowledgebase linking protein termini with function.|Lange PF., Overall CM., |Nature Methods|2011
			Proteome TopFIND 3.0 with TopFINDer and PathFINDer: database and analysis tools for the association of protein termini to pre- and post-translational events|Nikolaus Fortelny, Sharon Yang, Paul Pavlidis, Philipp F Lange, Christopher M Overall|Nucleic Acids Research|2014
			TopFIND 2.0linking protein termini with proteolytic processing and modifications altering protein function|Philipp F Lange, Pitter F Huesgen, Christopher M Overall|Nucleic Acids Research|2012
		After:
			TopFIND, a knowledgebase linking protein termini with function.|Lange PF., Overall CM., |Nature Methods|2011
			TopFIND 2.0linking protein termini with proteolytic processing and modifications altering protein function|Philipp F Lange, Pitter F Huesgen, Christopher M Overall|Nucleic Acids Research|2012
			Proteome TopFIND 3.0 with TopFINDer and PathFINDer: database and analysis tools for the association of protein termini to pre- and post-translational events.|Fortelny N,Yang S,Pavlidis P,Lange PF,Overall CM|Nucleic Acids Res|2014
		Added:
			Proteome TopFIND 3.0 with TopFINDer and PathFINDer: database and analysis tools for the association of protein termini to pre- and post-translational events.|Fortelny N,Yang S,Pavlidis P,Lange PF,Overall CM|Nucleic Acids Res|2014
		Removed:
			Proteome TopFIND 3.0 with TopFINDer and PathFINDer: database and analysis tools for the association of protein termini to pre- and post-translational events|Nikolaus Fortelny, Sharon Yang, Paul Pavlidis, Philipp F Lange, Christopher M Overall|Nucleic Acids Research|2014

	'homepage' has been modified:
		Before: http://clipserve.clip.ubc.ca/topfind/
		After: https://topfind.clip.msl.ubc.ca/

            

Edits to 'https://fairsharing.org/FAIRsharing.rkpmhn' by 'The FAIRsharing Team' at 10:07, 21 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Alternative splicing
			Annotation
			C-terminal amino acid residue
			Evidence
			Life Science
			Molecular interaction
			N-terminal amino acid residue
			Network model
			Protease cleavage
			Protease site
			Protein C-terminus binding
			Protein N-terminus binding
			Protein domain
			Protein modification
			Proteolytic digest
			Protocol
			Sequence annotation
			Translation initiation
		After:
			Alternative splicing
			Amino acid sequence
			Annotation
			C-terminal amino acid residue
			Evidence
			Life Science
			Molecular interaction
			N-terminal amino acid residue
			Network model
			Protease cleavage
			Protease site
			Protein C-terminus binding
			Protein N-terminus binding
			Protein domain
			Protein modification
			Proteolytic digest
			Protocol
			Sequence annotation
			Translation initiation
		Added:
			Amino acid sequence
		Removed: