BridgeDb Datasources 20240925

bridgedb · Sep 29, 2024 · 5b2a6d8 · 5b2a6d8
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diff --git a/org.bridgedb.bio/resources/org/bridgedb/bio/datasources.tsv b/org.bridgedb.bio/resources/org/bridgedb/bio/datasources.tsv
@@ -55,7 +55,6 @@ Illumina	Il	http://www.illumina.com/		ILMN_5668	probe		0	Il	ILMN_\d+	Illumina		i
 InChIKey	Ik	http://inchi.org/		QTBSBXVTEAMEQO-UHFFFAOYSA-N	metabolite		1	urn:miriam:inchikey	^[A-Z]{14}\-[A-Z]{10}(\-[A-Z])?	Standard InChIKey	P235	inchikey	metabolite
 IntAct	Ia	http://www.ebi.ac.uk/intact/	http://www.ebi.ac.uk/intact/pages/details/details.xhtml?interactionAc=$id	EBI-2307691	interaction		1	urn:miriam:intact	^EBI\-[0-9]+$	IntAct		intact	interaction
 InterPro	I	http://www.ebi.ac.uk/interpro/	https://www.ebi.ac.uk/interpro/entry/InterPro/$id	IPR000100	protein		1	urn:miriam:interpro	^IPR\d{6}$	InterPro	P2926	interpro	protein
-IPI	Ip	http://www.ebi.ac.uk/IPI	http://www.ebi.ac.uk/cgi-bin/dbfetch?db=IPI&id=$id&format=default	IPI00000001	protein		1		^IPI\d{8}$	IPI		interpro	protein
 IRGSP Gene	Ir	http://rgp.dna.affrc.go.jp/IRGSP/	https://rapdb.dna.affrc.go.jp/viewer/gbrowse_details/irgsp1?name=$id	Os12g0561000	gene		1	Ir	Os\d{2}g\d+	IRGSP Gene		rapdb.locus	gene
 ISBN	isbn	http://isbndb.com/	http://isbndb.com/search-all.html?kw=$id	9781584885658	publication		1	urn:miriam:isbn	^(ISBN)?(-13|-10)?[:]?[ ]?(\d{2,3}[ -]?)?\d{1,5}[ -]?\d{1,7}[ -]?\d{1,6}[ -]?(\d|X)$	ISBN	P212	isbn	publication
 ISSN	issn	https://portal.issn.org	https://portal.issn.org/resource/ISSN/$id	1776-3045	publication		1	urn:miriam:issn	^\d{4}-\d{3}[\dX]$	ISSN	P236	issn	publication

diff --git a/org.bridgedb.bio/resources/org/bridgedb/bio/organisms.tsv b/org.bridgedb.bio/resources/org/bridgedb/bio/organisms.tsv
@@ -40,10 +40,11 @@ Plasmodium	falciparum	Malaria parasite	Pf	5833
 Prymnesium	parvum		Pp	97485
 Populus	trichocarpa	Western Balsam Poplar	Pi	3694
 Rattus	norvegicus	Rat	Rn	10116
+Rosmarinus	officinalis	Rosemary	Ro	39367
 Saccharomyces	cerevisiae	Yeast	Sc	4932
 Skeletonema	marinoi		Sm	267567
 Solanum	lycopersicum	Tomato	Sl	4081
-Solanum tuberosum		St	4113
+Solanum	tuberosum		St	4113
 Sorex	araneus	Shrew	Sa	42254
 Sorghum	bicolor	Sorghum	Sb	4558
 Sus	scrofa	Pig	Ss	9823

diff --git a/org.bridgedb.bio/src/main/resources/org/bridgedb/bio/datasources.tsv b/org.bridgedb.bio/src/main/resources/org/bridgedb/bio/datasources.tsv
@@ -55,7 +55,6 @@ Illumina	Il	http://www.illumina.com/		ILMN_5668	probe		0	Il	ILMN_\d+	Illumina		i
 InChIKey	Ik	http://inchi.org/		QTBSBXVTEAMEQO-UHFFFAOYSA-N	metabolite		1	urn:miriam:inchikey	^[A-Z]{14}\-[A-Z]{10}(\-[A-Z])?	Standard InChIKey	P235	inchikey	metabolite
 IntAct	Ia	http://www.ebi.ac.uk/intact/	http://www.ebi.ac.uk/intact/pages/details/details.xhtml?interactionAc=$id	EBI-2307691	interaction		1	urn:miriam:intact	^EBI\-[0-9]+$	IntAct		intact	interaction
 InterPro	I	http://www.ebi.ac.uk/interpro/	https://www.ebi.ac.uk/interpro/entry/InterPro/$id	IPR000100	protein		1	urn:miriam:interpro	^IPR\d{6}$	InterPro	P2926	interpro	protein
-IPI	Ip	http://www.ebi.ac.uk/IPI	http://www.ebi.ac.uk/cgi-bin/dbfetch?db=IPI&id=$id&format=default	IPI00000001	protein		1		^IPI\d{8}$	IPI		interpro	protein
 IRGSP Gene	Ir	http://rgp.dna.affrc.go.jp/IRGSP/	https://rapdb.dna.affrc.go.jp/viewer/gbrowse_details/irgsp1?name=$id	Os12g0561000	gene		1	Ir	Os\d{2}g\d+	IRGSP Gene		rapdb.locus	gene
 ISBN	isbn	http://isbndb.com/	http://isbndb.com/search-all.html?kw=$id	9781584885658	publication		1	urn:miriam:isbn	^(ISBN)?(-13|-10)?[:]?[ ]?(\d{2,3}[ -]?)?\d{1,5}[ -]?\d{1,7}[ -]?\d{1,6}[ -]?(\d|X)$	ISBN	P212	isbn	publication
 ISSN	issn	https://portal.issn.org	https://portal.issn.org/resource/ISSN/$id	1776-3045	publication		1	urn:miriam:issn	^\d{4}-\d{3}[\dX]$	ISSN	P236	issn	publication

diff --git a/org.bridgedb.bio/src/main/resources/org/bridgedb/bio/organisms.tsv b/org.bridgedb.bio/src/main/resources/org/bridgedb/bio/organisms.tsv
@@ -40,10 +40,11 @@ Plasmodium	falciparum	Malaria parasite	Pf	5833
 Prymnesium	parvum		Pp	97485
 Populus	trichocarpa	Western Balsam Poplar	Pi	3694
 Rattus	norvegicus	Rat	Rn	10116
+Rosmarinus	officinalis	Rosemary	Ro	39367
 Saccharomyces	cerevisiae	Yeast	Sc	4932
 Skeletonema	marinoi		Sm	267567
 Solanum	lycopersicum	Tomato	Sl	4081
-Solanum tuberosum		St	4113
+Solanum	tuberosum		St	4113
 Sorex	araneus	Shrew	Sa	42254
 Sorghum	bicolor	Sorghum	Sb	4558
 Sus	scrofa	Pig	Ss	9823