Validation Results

Resource: intact/yeast_gong-2009-1_10.xml; different types of problem: 6

number of genes : 0 number of pathways : 0 number of interactions : 330 number of physical entities : 659
auto-fix: true; normalize:
errors/warnings: 592 - not fixed: 591; errors not fixed: 0
Modified BioPAX ("escaped" RDF in HTML; choose BioPAX or XML as return if you plan to process it)

WARNING: cardinality.violated , category: SPECIFICATION, cases: 331, not fixed: 331
Cardinality violation

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object: http://pathwaycommons.org/yeast1/ModificationFeature_d22dee5e-6dce-4799-9f9a-3170d6fe9fdc__1156085_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_d2cb1fda-99b3-4805-a0bf-74df437f15eb__1155701_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_d342118b-eebf-4fed-9af3-f79cda398529__1156012_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_d369824a-0a53-45b1-88ac-7ce2e76e195c__1156444_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_d7894c13-684e-40a0-a316-8fe3d78a3333__1156096_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_d7f6a562-08bf-4af4-8742-a5decf8f7b9a__1156457_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_d9021c15-380b-41fd-a548-6791543dc0c8__1155769_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_d98afad0-04ea-4c48-87ba-50a616ee992a__1155341_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_ddfa6040-3244-4fbd-ad68-305dd9c9e8dd__1155345_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_de44859b-aeba-46ef-a3e5-4d4c078a12b5__1156244_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_dfa00581-4f15-45c3-a109-075d9a6c154e__1155888_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_e06d8999-d1b6-4b5d-a275-07587bf3adac__1155501_
property: featureLocation requires exactly 1 value(s)
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property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_e47c3a21-75f0-402d-9c04-78bb3b315e61__1155864_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_e4f75885-1d2c-406e-97c7-398f449ce5fa__1155917_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_e5814c8e-1a2b-412f-bc2b-07e782a4ca2f__1155805_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_e5f9eea3-45db-47bf-9989-176e4c30c30a__1155936_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_e662f506-d251-459d-8d5d-b0e0fb03e5cc__1156272_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_e87b0071-01ad-4dfc-9dcf-aa98981c2e34__1155409_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_e948db2c-c515-4ad0-937f-e49f9a76452c__1156512_
property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_eb6f950a-f5de-47db-b289-34658ad5d420__1155548_
property: featureLocation requires exactly 1 value(s)
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property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_eecfd9aa-7a93-4641-8d01-1a267dc603ef__1156552_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_eefc6b24-feb4-4def-940c-69b6f7743e14__1156643_
property: featureLocation requires exactly 1 value(s)
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property: featureLocation requires exactly 1 value(s)
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property: featureLocation requires exactly 1 value(s)
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object: http://pathwaycommons.org/yeast1/ModificationFeature_f213b336-54f9-47f2-a92f-bf60d60a6a56__1155856_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f270a12e-67df-497b-8bb1-2ea5d86d1f57__1156193_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f3eb8532-c3e8-412b-82c5-214738a662b1__1155985_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f3f8094c-ac77-4d27-98d8-9a285e21a309__1156592_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f419198c-0f7c-430a-b616-353871212fdd__1155600_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f43fd982-b2c9-4fed-8164-7c7cbf814801__1156201_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f46301cf-7e91-45de-92a2-434715631696__1155592_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f5d18445-e78c-447b-9922-e57c73997d3b__1155389_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f5ebd86d-efee-40e2-a916-c0c008a9c871__1156225_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f663914e-7d4c-47f7-8316-d52192632026__1156365_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f735a288-ed11-4691-ac9d-09b3a0c615c4__1155825_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f9343aab-e2a8-4cbc-acb9-2d33aff86cb6__1156336_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_f9dfcab7-d37e-47d0-bb28-0bd12653e1ef__1155761_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_fbd2dbbe-c11e-4b2b-93c0-27f5adaf9958__1155496_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_fbd3d57f-052e-4602-bf0b-2ad66cc7b0ee__1156240_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_fc1c0ef8-5631-4293-98ea-f16aeb9f411f__1156028_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_fc35d5a4-882d-4c76-8599-42561b99ace3__1155417_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_fe163f7c-251a-4989-bd67-032d1a5cefc9__1155449_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_feaed13f-86c0-4745-85c7-4ec1f747784a__1155432_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_ff2dc6cf-dae0-42b4-9a34-28af6fc354c1__1156421_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_ff6b027c-4a82-4e3f-8b5c-f2a2305c52b7__1155688_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/ModificationFeature_ff97868a-36bf-43a2-a7e9-5a79386c9558__1156452_
property: featureLocation requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ModificationFeatureLocationCRRule)
object: http://pathwaycommons.org/yeast1/RTV_intact-secondary
property: xref requires exactly 1 value(s)
(found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)

WARNING: illegal.cv.term , category: SPECIFICATION, cases: 2, not fixed: 2
Term is not found in the recommended controlled vocabulary (- wrong name/spelling or the identifier/accession is used instead of the term)

WARNING: illegal.cv.xref , category: SPECIFICATION, cases: 1, not fixed: 1
Unification xref cannot be resolved to a recommended term for the controlled vocabulary

WARNING: invalid.id.format , category: RECOMMENDATION, cases: 253, not fixed: 253
Xref 'id' value does not match the standard pattern for this type of db identifier. If this is due to the version of the object is embedded into the id, please use the idVersion property instead. If the database was not properly recognized (and the pattern is wrong), consider using a standard, more specific, db name (or contact the MIRIAM or identifiers.org team).

object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_A0A023PZH5
db: mint (recognized as: MINT), id: A0A023PZH5, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_O13516
db: mint (recognized as: MINT), id: O13516, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P00359
db: mint (recognized as: MINT), id: P00359, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P00924
db: mint (recognized as: MINT), id: P00924, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P00950
db: mint (recognized as: MINT), id: P00950, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P01119
db: mint (recognized as: MINT), id: P01119, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P02994
db: mint (recognized as: MINT), id: P02994, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P03962
db: mint (recognized as: MINT), id: P03962, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P04161
db: mint (recognized as: MINT), id: P04161, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P04786
db: mint (recognized as: MINT), id: P04786, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P05749
db: mint (recognized as: MINT), id: P05749, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P05755
db: mint (recognized as: MINT), id: P05755, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P06169
db: mint (recognized as: MINT), id: P06169, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P06634
db: mint (recognized as: MINT), id: P06634, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P06701
db: mint (recognized as: MINT), id: P06701, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P06785
db: mint (recognized as: MINT), id: P06785, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P06786
db: mint (recognized as: MINT), id: P06786, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P06787
db: mint (recognized as: MINT), id: P06787, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P07259
db: mint (recognized as: MINT), id: P07259, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P07266
db: mint (recognized as: MINT), id: P07266, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P07560
db: mint (recognized as: MINT), id: P07560, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P07806
db: mint (recognized as: MINT), id: P07806, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P08468
db: mint (recognized as: MINT), id: P08468, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P10591
db: mint (recognized as: MINT), id: P10591, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P10592
db: mint (recognized as: MINT), id: P10592, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P10659
db: mint (recognized as: MINT), id: P10659, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P11075
db: mint (recognized as: MINT), id: P11075, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P11484
db: mint (recognized as: MINT), id: P11484, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P11972
db: mint (recognized as: MINT), id: P11972, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P12685
db: mint (recognized as: MINT), id: P12685, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P13099
db: mint (recognized as: MINT), id: P13099, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P13382
db: mint (recognized as: MINT), id: P13382, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P14126
db: mint (recognized as: MINT), id: P14126, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P15442
db: mint (recognized as: MINT), id: P15442, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P15454
db: mint (recognized as: MINT), id: P15454, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P15703
db: mint (recognized as: MINT), id: P15703, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P17157
db: mint (recognized as: MINT), id: P17157, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P17558
db: mint (recognized as: MINT), id: P17558, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P18961
db: mint (recognized as: MINT), id: P18961, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P20052
db: mint (recognized as: MINT), id: P20052, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P22146
db: mint (recognized as: MINT), id: P22146, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P22336
db: mint (recognized as: MINT), id: P22336, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P22943
db: mint (recognized as: MINT), id: P22943, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P23337
db: mint (recognized as: MINT), id: P23337, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P23638
db: mint (recognized as: MINT), id: P23638, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_P23643
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
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(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_Q99258
db: mint (recognized as: MINT), id: Q99258, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)
object: http://pathwaycommons.org/yeast1/RelationshipXref_mint_Q99299
db: mint (recognized as: MINT), id: Q99299, pattern: ^MINT\-\d{1,7}$
(found by: org.biopax.validator.rules.XrefRule)

WARNING: no.display.name , category: RECOMMENDATION, cases: 1, all fixed!
No display name is specified. It is useful to have one for the visualization purposes

WARNING: not.allowed.xref , category: RECOMMENDATION, cases: 4, not fixed: 4
Database name in the UnificationXref (of a BioPAX element), probably, does not make sense for this type of element