Merge pull request #2142 from EBISPOT/2134

Added sequencing term for #2134
EBISPOT · Nov 28, 2023 · fef631b · fef631b
2 parents 9bb7fb5 + 6d4a2be
commit fef631b
Showing 1 changed file with 15 additions and 4 deletions.
diff --git a/src/ontology/efo-edit.owl b/src/ontology/efo-edit.owl
@@ -16778,6 +16778,7 @@ Declaration(Class(efo:EFO_0022484))
 Declaration(Class(efo:EFO_0022485))
 Declaration(Class(efo:EFO_0022486))
 Declaration(Class(efo:EFO_0022487))
+Declaration(Class(efo:EFO_0022488))
 Declaration(Class(efo:EFO_0030000))
 Declaration(Class(efo:EFO_0030001))
 Declaration(Class(efo:EFO_0030002))
@@ -29075,7 +29076,7 @@ AnnotationAssertion(rdfs:label obo:RO_0001025 "located_in")
 
 AnnotationAssertion(rdfs:label obo:RO_0002104 "has_plasma_membrane_part")
 
-# Object Property: obo:RO_0002160 (only in taxon)
+# Object Property: obo:RO_0002160 (only_in_taxon)
 
 AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:20973947") obo:IAO_0000115 obo:RO_0002160 "S only_in_taxon T iff: S SubClassOf in_taxon only T")
 AnnotationAssertion(oboInOwl:hasDbXref obo:RO_0002160 "RO:0002160")
@@ -172121,12 +172122,12 @@ AnnotationAssertion(rdfs:label efo:EFO_0010021 "miniARS-seq")
 SubClassOf(efo:EFO_0010021 obo:OBI_0000070)
 SubClassOf(efo:EFO_0010021 ObjectSomeValuesFrom(obo:BFO_0000055 ObjectIntersectionOf(obo:OBI_0000275 ObjectSomeValuesFrom(obo:RO_0000081 obo:CHEBI_16991))))
 
-# Class: efo:EFO_0010022 (Smart-3Seq)
+# Class: efo:EFO_0010022 (Smart-3SEQ)
 
 AnnotationAssertion(obo:IAO_0000115 efo:EFO_0010022 "Method that accurately quantifies transcript abundance even with small amounts of total RNA and effectively characterizes small samples extracted by laser-capture microdissection (LCM) from FFPE tissue. Modified 3Seq method - omitted poly (A) enrichment and replaced dsDNA ligation with template-switching cDNA synthesis")
 AnnotationAssertion(obo:IAO_0000117 efo:EFO_0010022 "Dani Welter")
-AnnotationAssertion(Annotation(oboInOwl:hasDbXref <https://orcid.org/0000-0002-6583-8504>) Annotation(oboInOwl:hasDbXref "https://doi.org/10.1101/2022.02.14.480352") oboInOwl:hasExactSynonym efo:EFO_0010022 "Smart-seq3")
-AnnotationAssertion(rdfs:label efo:EFO_0010022 "Smart-3Seq")
+AnnotationAssertion(Annotation(efo:definition_citation "PMID:31519740") oboInOwl:hasExactSynonym efo:EFO_0010022 "Smart-3seq")
+AnnotationAssertion(rdfs:label efo:EFO_0010022 "Smart-3SEQ")
 SubClassOf(efo:EFO_0010022 obo:OBI_0000070)
 SubClassOf(efo:EFO_0010022 efo:EFO_0010184)
 SubClassOf(efo:EFO_0010022 ObjectSomeValuesFrom(obo:BFO_0000055 ObjectIntersectionOf(obo:OBI_0000275 ObjectSomeValuesFrom(obo:RO_0000081 obo:CHEBI_33697))))
@@ -202150,6 +202151,16 @@ AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0022487 "Orphanet:102369")
 AnnotationAssertion(rdfs:label efo:EFO_0022487 "rare syndromic intellectual disability"@en)
 SubClassOf(efo:EFO_0022487 <http://www.orpha.net/ORDO/Orphanet_183757>)
 
+# Class: efo:EFO_0022488 (Smart-seq3)
+
+AnnotationAssertion(Annotation(efo:definition_citation "PMID:32518404") Annotation(efo:definition_citation "PMID:37953195") obo:IAO_0000115 efo:EFO_0022488 "Smart-seq3 is an advanced single-cell RNA sequencing technology that provides full-length transcriptome coverage. It incorporates a 5' unique molecular identifier (UMI) RNA counting strategy, allowing for the in silico reconstruction of thousands of RNA molecules per cell. This method enhances transcript quantification accuracy and enables the detailed study of allele- and isoform-resolution within single cells. Smart-seq3 is particularly noted for its high sensitivity and ability to reconstruct the full-length transcripts of single cells
+
+Smart-seq3 is a continuation and improvement of the Smart-seq technology, specifically Smart-seq2.")
+AnnotationAssertion(dc:creator efo:EFO_0022488 "Zoe May Pendlington")
+AnnotationAssertion(dc:date efo:EFO_0022488 "2023-11-28T13:49:20Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:label efo:EFO_0022488 "Smart-seq3"@en)
+SubClassOf(efo:EFO_0022488 efo:EFO_0010184)
+
 # Class: efo:EFO_0030000 (STARmap)
 
 AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:29930089") Annotation(oboInOwl:hasDbXref "https://orcid.org/0000-0002-3090-9894") obo:IAO_0000115 efo:EFO_0030000 "STARmap is an image-based technology for 3D intact-tissue RNA sequencing, which integrates hydrogel-tissue chemistry, targeted signal amplification, and in situ sequencing.")