sparql-examples

A set of SPARQL examples that are used in different SIB resources

View the Project on GitHub sib-swiss/sparql-examples

neXtProt/NXQ_09064

Check there are no entries with peptide mapping annotations with evidence NOT from MassIVE, PeptideAtlas or neXtProt

Use at

PREFIX : <http://nextprot.org/rdf/>
PREFIX cv: <http://nextprot.org/rdf/terminology/>
PREFIX source: <http://nextprot.org/rdf/source/>

select distinct ?entry ?src where {
  ?entry :isoform ?iso.
  ?iso :peptideMapping /:evidence /:assignedBy ?src.
  filter ( ?src not in (source:MDATA_0004_2011,
source:MDATA_0023_2012,
source:MDATA_0033_2013,
source:PMID_20797634,
source:PMID_20140087,
source:PMID_20570859,
source:PMID_20687582,
source:PMID_20972266,
source:PMID_21139048,
source:PMID_21645671,
source:PMID_21890473,
source:PMID_22148984,
source:PMID_22865923,
source:PMID_23236377,
source:PMID_23266961,
source:PMID_23584533,
source:PMID_23955771,
source:PMID_24129315,
source:PMID_25038526,
source:PMID_25218447,
source:PeptideAtlas_human_Adrenal_Gland,
source:PeptideAtlas_human_Blood_Cells,
source:PeptideAtlas_human_Blood_Plasma,
source:PeptideAtlas_human_Brain,
source:PeptideAtlas_human_Breast,
source:PeptideAtlas_human_Cerebrospinal_Fluid,
source:PeptideAtlas_human_Digestive_System,
source:PeptideAtlas_human_Eye,
source:PeptideAtlas_human_Heart,
source:PeptideAtlas_human_Kidney,
source:PeptideAtlas_human_Liver,
source:PeptideAtlas_human_Lung,
source:PeptideAtlas_human_Non_Cancer_Cell_Lines,
source:PeptideAtlas_human_Olfactory_System,
source:PeptideAtlas_human_Oocyte,
source:PeptideAtlas_human_Other_Anatomical_Entities,
source:PeptideAtlas_human_Other_Female_Reproductive_Organ,
source:PeptideAtlas_human_Other_Gestational_Structure,
source:PeptideAtlas_human_Other_Male_Reproductive_Organ,
source:PeptideAtlas_human_Other_Respiratory_Organ,
source:PeptideAtlas_human_Ovary,
source:PeptideAtlas_human_Pancreas,
source:PeptideAtlas_human_Pituitary_Gland,
source:PeptideAtlas_human_Placenta,
source:PeptideAtlas_human_Skin,
source:PeptideAtlas_human_Sperm,
source:PeptideAtlas_human_Spleen,
source:PeptideAtlas_human_Testis,
source:PeptideAtlas_human_Thyroid_Gland,
source:PeptideAtlas_human_Urinary_Bladder,
source:PeptideAtlas_human_Urine,
source:PeptideAtlas_human_Ureter,
source:PeptideAtlas_human_Cancer_Adrenal_Gland,
source:PeptideAtlas_human_Cancer_Brain,
source:PeptideAtlas_human_Cancer_Breast,
source:PeptideAtlas_human_Cancer_Digestive_System,
source:PeptideAtlas_human_Cancer_Kidney,
source:PeptideAtlas_human_Cancer_Liver,
source:PeptideAtlas_human_Cancer_Lung,
source:PeptideAtlas_human_Cancer_Other_Anatomical_Entities,
source:PeptideAtlas_human_Cancer_Other_Female_Reproductive_Organ,
source:PeptideAtlas_human_Cancer_Other_Male_Reproductive_Organ,
source:PeptideAtlas_human_Cancer_Ovary,
source:PeptideAtlas_human_Cancer_Pancreas,
source:PeptideAtlas_human_Cancer_Skin,
source:PeptideAtlas_human_Cancer_Urinary_Bladder,
source:PeptideAtlas_human_Cancer_Cell_Lines_Blood,
source:PeptideAtlas_human_Cancer_Cell_Lines_Bone,
source:PeptideAtlas_human_Cancer_Cell_Lines_Brain,
source:PeptideAtlas_human_Cancer_Cell_Lines_Breast,
source:PeptideAtlas_human_Cancer_Cell_Lines_Digestive_System,
source:PeptideAtlas_human_Cancer_Cell_Lines_Kidney,
source:PeptideAtlas_human_Cancer_Cell_Lines_Liver,
source:PeptideAtlas_human_Cancer_Cell_Lines_Lung,
source:PeptideAtlas_human_Cancer_Cell_Lines_Other_Anatomical_Entities,
source:PeptideAtlas_human_Cancer_Cell_Lines_Other_Female_Reproductive_Organ,
source:PeptideAtlas_human_Cancer_Cell_Lines_Other_Male_Reproductive_Organ,
source:PeptideAtlas_human_Cancer_Cell_Lines_Ovary,
source:PeptideAtlas_human_Cancer_Cell_Lines_Pancreas,
source:PeptideAtlas_human_Cancer_Cell_Lines_Skin,
source:PeptideAtlas_human_Cancer_Cell_Lines_Urinary_Bladder,
source:PeptideAtlas_human_Cancer_and_Non_Cancer_Cell_Lines,
source:PeptideAtlas_human_phosphoproteome,
source:MassIVE, # To be removed (phantom)
source:MassIVE_human_Adrenal_Gland,
source:MassIVE_human_Blood_Cells,
source:MassIVE_human_Blood_Plasma,
source:MassIVE_human_Blood_Vessel,
source:MassIVE_human_Bone,
source:MassIVE_human_Brain,
source:MassIVE_human_Breast,
source:MassIVE_human_Cerebrospinal_Fluid,
source:MassIVE_human_Digestive_System,
source:MassIVE_human_Eye,
source:MassIVE_human_Heart,
source:MassIVE_human_Kidney,
source:MassIVE_human_Liver,
source:MassIVE_human_Lung,
source:MassIVE_human_Muscle,
source:MassIVE_human_Non_Cancer_Cell_Lines,
source:MassIVE_human_Olfactory_System,
source:MassIVE_human_Other_Anatomical_Entities,
source:MassIVE_human_Other_Female_Reproductive_Organ,
source:MassIVE_human_Other_Gestational_Structure,
source:MassIVE_human_Other_Male_Reproductive_Organ,
source:MassIVE_human_Other_Respiratory_Organ,
source:MassIVE_human_Ovary,
source:MassIVE_human_Pancreas,
source:MassIVE_human_Pituitary_Gland,
source:MassIVE_human_Placenta,
source:MassIVE_human_Skin,
source:MassIVE_human_Sperm,
source:MassIVE_human_Spleen,
source:MassIVE_human_Testis,
source:MassIVE_human_Thyroid_Gland,
source:MassIVE_human_Ureter,
source:MassIVE_human_Urinary_Bladder,
source:MassIVE_human_Urine,
source:MassIVE_human_Cancer_Blood_Cells,
source:MassIVE_human_Cancer_Bone,
source:MassIVE_human_Cancer_Breast,
source:MassIVE_human_Cancer_Digestive_System,
source:MassIVE_human_Cancer_Lung,
source:MassIVE_human_Cancer_Other_Male_Reproductive_Organ,
source:MassIVE_human_Cancer_Ovary,
source:MassIVE_human_Cancer_Skin,
source:MassIVE_human_Cancer_Cell_Lines_Blood,
source:MassIVE_human_Cancer_Cell_Lines_Bone,
source:MassIVE_human_Cancer_Cell_Lines_Brain,
source:MassIVE_human_Cancer_Cell_Lines_Breast,
source:MassIVE_human_Cancer_Cell_Lines_Digestive_System,
source:MassIVE_human_Cancer_Cell_Lines_Liver,
source:MassIVE_human_Cancer_Cell_Lines_Lung,
source:MassIVE_human_Cancer_Cell_Lines_Other_Anatomical_Entities,
source:MassIVE_human_Cancer_Cell_Lines_Other_Female_Reproductive_Organ,
source:MassIVE_human_Cancer_Cell_Lines_Ovary,
source:MassIVE_human_Cancer_Cell_Lines_Skin))
}

graph TD
classDef projected fill:lightgreen;
classDef literal fill:orange;
classDef iri fill:yellow;
  v2("?entry"):::projected 
  v3("?iso")
  v1("?src"):::projected 
  a1((" "))
  a2((" "))
  f0[["?src != ':source/MDATA_0004_2011'?src != ':source/MDATA_0023_2012'?src != ':source/MDATA_0033_2013'?src != ':source/PMID_20797634'?src != ':source/PMID_20140087'?src != ':source/PMID_20570859'?src != ':source/PMID_20687582'?src != ':source/PMID_20972266'?src != ':source/PMID_21139048'?src != ':source/PMID_21645671'?src != ':source/PMID_21890473'?src != ':source/PMID_22148984'?src != ':source/PMID_22865923'?src != ':source/PMID_23236377'?src != ':source/PMID_23266961'?src != ':source/PMID_23584533'?src != ':source/PMID_23955771'?src != ':source/PMID_24129315'?src != ':source/PMID_25038526'?src != ':source/PMID_25218447'?src != ':source/PeptideAtlas_human_Adrenal_Gland'?src != ':source/PeptideAtlas_human_Blood_Cells'?src != ':source/PeptideAtlas_human_Blood_Plasma'?src != ':source/PeptideAtlas_human_Brain'?src != ':source/PeptideAtlas_human_Breast'?src != ':source/PeptideAtlas_human_Cerebrospinal_Fluid'?src != ':source/PeptideAtlas_human_Digestive_System'?src != ':source/PeptideAtlas_human_Eye'?src != ':source/PeptideAtlas_human_Heart'?src != ':source/PeptideAtlas_human_Kidney'?src != ':source/PeptideAtlas_human_Liver'?src != ':source/PeptideAtlas_human_Lung'?src != ':source/PeptideAtlas_human_Non_Cancer_Cell_Lines'?src != ':source/PeptideAtlas_human_Olfactory_System'?src != ':source/PeptideAtlas_human_Oocyte'?src != ':source/PeptideAtlas_human_Other_Anatomical_Entities'?src != ':source/PeptideAtlas_human_Other_Female_Reproductive_Organ'?src != ':source/PeptideAtlas_human_Other_Gestational_Structure'?src != ':source/PeptideAtlas_human_Other_Male_Reproductive_Organ'?src != ':source/PeptideAtlas_human_Other_Respiratory_Organ'?src != ':source/PeptideAtlas_human_Ovary'?src != ':source/PeptideAtlas_human_Pancreas'?src != ':source/PeptideAtlas_human_Pituitary_Gland'?src != ':source/PeptideAtlas_human_Placenta'?src != ':source/PeptideAtlas_human_Skin'?src != ':source/PeptideAtlas_human_Sperm'?src != ':source/PeptideAtlas_human_Spleen'?src != ':source/PeptideAtlas_human_Testis'?src != ':source/PeptideAtlas_human_Thyroid_Gland'?src != ':source/PeptideAtlas_human_Urinary_Bladder'?src != ':source/PeptideAtlas_human_Urine'?src != ':source/PeptideAtlas_human_Ureter'?src != ':source/PeptideAtlas_human_Cancer_Adrenal_Gland'?src != ':source/PeptideAtlas_human_Cancer_Brain'?src != ':source/PeptideAtlas_human_Cancer_Breast'?src != ':source/PeptideAtlas_human_Cancer_Digestive_System'?src != ':source/PeptideAtlas_human_Cancer_Kidney'?src != ':source/PeptideAtlas_human_Cancer_Liver'?src != ':source/PeptideAtlas_human_Cancer_Lung'?src != ':source/PeptideAtlas_human_Cancer_Other_Anatomical_Entities'?src != ':source/PeptideAtlas_human_Cancer_Other_Female_Reproductive_Organ'?src != ':source/PeptideAtlas_human_Cancer_Other_Male_Reproductive_Organ'?src != ':source/PeptideAtlas_human_Cancer_Ovary'?src != ':source/PeptideAtlas_human_Cancer_Pancreas'?src != ':source/PeptideAtlas_human_Cancer_Skin'?src != ':source/PeptideAtlas_human_Cancer_Urinary_Bladder'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Blood'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Bone'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Brain'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Breast'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Digestive_System'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Kidney'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Liver'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Lung'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Other_Anatomical_Entities'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Other_Female_Reproductive_Organ'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Other_Male_Reproductive_Organ'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Ovary'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Pancreas'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Skin'?src != ':source/PeptideAtlas_human_Cancer_Cell_Lines_Urinary_Bladder'?src != ':source/PeptideAtlas_human_Cancer_and_Non_Cancer_Cell_Lines'?src != ':source/PeptideAtlas_human_phosphoproteome'?src != ':source/MassIVE'?src != ':source/MassIVE_human_Adrenal_Gland'?src != ':source/MassIVE_human_Blood_Cells'?src != ':source/MassIVE_human_Blood_Plasma'?src != ':source/MassIVE_human_Blood_Vessel'?src != ':source/MassIVE_human_Bone'?src != ':source/MassIVE_human_Brain'?src != ':source/MassIVE_human_Breast'?src != ':source/MassIVE_human_Cerebrospinal_Fluid'?src != ':source/MassIVE_human_Digestive_System'?src != ':source/MassIVE_human_Eye'?src != ':source/MassIVE_human_Heart'?src != ':source/MassIVE_human_Kidney'?src != ':source/MassIVE_human_Liver'?src != ':source/MassIVE_human_Lung'?src != ':source/MassIVE_human_Muscle'?src != ':source/MassIVE_human_Non_Cancer_Cell_Lines'?src != ':source/MassIVE_human_Olfactory_System'?src != ':source/MassIVE_human_Other_Anatomical_Entities'?src != ':source/MassIVE_human_Other_Female_Reproductive_Organ'?src != ':source/MassIVE_human_Other_Gestational_Structure'?src != ':source/MassIVE_human_Other_Male_Reproductive_Organ'?src != ':source/MassIVE_human_Other_Respiratory_Organ'?src != ':source/MassIVE_human_Ovary'?src != ':source/MassIVE_human_Pancreas'?src != ':source/MassIVE_human_Pituitary_Gland'?src != ':source/MassIVE_human_Placenta'?src != ':source/MassIVE_human_Skin'?src != ':source/MassIVE_human_Sperm'?src != ':source/MassIVE_human_Spleen'?src != ':source/MassIVE_human_Testis'?src != ':source/MassIVE_human_Thyroid_Gland'?src != ':source/MassIVE_human_Ureter'?src != ':source/MassIVE_human_Urinary_Bladder'?src != ':source/MassIVE_human_Urine'?src != ':source/MassIVE_human_Cancer_Blood_Cells'?src != ':source/MassIVE_human_Cancer_Bone'?src != ':source/MassIVE_human_Cancer_Breast'?src != ':source/MassIVE_human_Cancer_Digestive_System'?src != ':source/MassIVE_human_Cancer_Lung'?src != ':source/MassIVE_human_Cancer_Other_Male_Reproductive_Organ'?src != ':source/MassIVE_human_Cancer_Ovary'?src != ':source/MassIVE_human_Cancer_Skin'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Blood'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Bone'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Brain'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Breast'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Digestive_System'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Liver'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Lung'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Other_Anatomical_Entities'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Other_Female_Reproductive_Organ'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Ovary'?src != ':source/MassIVE_human_Cancer_Cell_Lines_Skin'"]]
  f0 --> v1
  v2 --":isoform"-->  v3
  v3 --":peptideMapping"-->  a1
  a1 --":evidence"-->  a2
  a2 --":assignedBy"-->  v1