• Resource: panther/Alzheimer_disease_amyloid_secretase_pathway.owl; different types of problem: 16
    • number of genes : 0  number of interactions : 46  number of pathways : 2  number of physical entities : 98 
    • auto-fix: true; normalize:
    • errors/warnings: 244 - not fixed: 187;  errors not fixed: 8
    • Modified BioPAX  ("escaped" RDF in HTML; choose BioPAX or XML as return if you plan to process it)
    • ERROR: cardinality.violated , category: SPECIFICATION,  cases: 7,  not fixed: 7
      Cardinality violation
      • object: HETERODIMER_ASSOCIATION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: MODULATION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: PHYSICAL_STIMULATION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: STATE_TRANSITION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: TRANSPORT
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: TRIGGER
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)
      • object: TRUNCATION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)

    • ERROR: no.xrefs , category: RECOMMENDATION,  cases: 1,  not fixed: 1
      EntityReference does not have any xrefs
      • object: _Fe65_PROTEIN
        (found by: org.biopax.validator.rules.EntityReferenceXrefRule)

    • WARNING: cardinality.violated , category: SPECIFICATION,  cases: 13,  not fixed: 13
      Cardinality violation
      • object: _Fe65_PROTEIN
        property: organism requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ProteinReferenceOrganismRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=HETERODIMER_ASSOCIATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=STATE_TRANSITION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRANSPORT
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRUNCATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=HETERODIMER_ASSOCIATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=MODULATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=PHYSICAL_STIMULATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=STATE_TRANSITION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRANSPORT
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRIGGER
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRUNCATION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: PANTHER_GROUPING_10
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)

    • WARNING: complex.incomplete , category: SPECIFICATION,  cases: 1,  not fixed: 1
      Complex has no components, or the one without properly defined stoichiometry
      • object: HOMODIMER_ID_236
        has one component; which stoichiometry < 2.
        (found by: org.biopax.validator.rules.ComplexTwoOrMoreParticipantsRule)

    • WARNING: complex.stoichiometry.notcomponent , category: SPECIFICATION,  cases: 1,  not fixed: 1
      The value (Stoichiometry) of the componentStoichiometry property refers to a physical entity that is not among the components of the complex
      • object: HOMODIMER_ID_236
        stoichiometry: _Abeta_s173_a211_STOICHIOMETRY_ID_COMPLEX, phys.entity: HOMODIMER_ID_236, whereas component: _Abeta_s173_a211_
        (found by: org.biopax.validator.rules.ComplexTwoOrMoreParticipantsRule)

    • WARNING: illegal.conversion , category: INFORMATION,  cases: 10,  not fixed: 10
      A bio-polymer (i.e., not a complex or small molecule) is either missing or "becomes" another type on the other side of the same Conversion interaction (except for Degradation and ComplexAssembly)
      • object: _Abeta_s44_a52_
        conversion: STATE_TRANSITION_LEFT__Abeta-RIGHT__Abeta-_r50
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _APPbeta_s205_a247_
        conversion: TRUNCATION_LEFT__Complex__APP_kinesin__Microtubule_-RIGHT__Complex__kinesin_Microtubule_-_APPbeta-_C99-_r64
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _APPbeta_s41_a49_
        conversion: TRUNCATION_LEFT__Complex__APP_Fe65_-RIGHT__Complex__C99_Fe65_-_APPbeta-_r46
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _BACE_1_pro_domain_s198_a241_
        conversion: TRUNCATION_LEFT__Pro_BACE_1-RIGHT__BACE_1-_BACE_1_pro_domain-_r62
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _BACE_1_s259_a240_
        conversion: TRUNCATION_LEFT__Pro_BACE_1-RIGHT__BACE_1-_BACE_1_pro_domain-_r62
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _C99_s208_a251_
        conversion: TRUNCATION_LEFT__Complex__APP_kinesin__Microtubule_-RIGHT__Complex__kinesin_Microtubule_-_APPbeta-_C99-_r64
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _Presenilin_C_terminal_fragment_s237_a290_
        conversion: TRUNCATION_LEFT__Presenilin-RIGHT__Presenilin_N_terminal_fragment-_Presenilin_C_terminal_fragment-_r76
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _Presenilin_N_terminal_fragment_s236_a289_
        conversion: TRUNCATION_LEFT__Presenilin-RIGHT__Presenilin_N_terminal_fragment-_Presenilin_C_terminal_fragment-_r76
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _Presenilin_s231_a284_
        conversion: TRUNCATION_LEFT__Presenilin-RIGHT__Presenilin_N_terminal_fragment-_Presenilin_C_terminal_fragment-_r76
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)
      • object: _Pro_BACE_1_s196_a239_
        conversion: TRUNCATION_LEFT__Pro_BACE_1-RIGHT__BACE_1-_BACE_1_pro_domain-_r62
        (found by: org.biopax.validator.rules.SimplePhysicalEntityConversionRule)

    • WARNING: illegal.cv.term , category: SPECIFICATION,  cases: 11,  not fixed: 11
      Term is not found in the recommended controlled vocabulary (- wrong name/spelling or the identifier/accession is used instead of the term)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=HETERODIMER_ASSOCIATION
        Illegal term(s): [HETERODIMER_ASSOCIATION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=STATE_TRANSITION
        Illegal term(s): [STATE_TRANSITION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRANSPORT
        Illegal term(s): [TRANSPORT]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=TRUNCATION
        Illegal term(s): [TRUNCATION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=HETERODIMER_ASSOCIATION
        Illegal term(s): [HETERODIMER_ASSOCIATION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=MODULATION
        Illegal term(s): [MODULATION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=PHYSICAL_STIMULATION
        Illegal term(s): [PHYSICAL_STIMULATION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=STATE_TRANSITION
        Illegal term(s): [STATE_TRANSITION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRANSPORT
        Illegal term(s): [TRANSPORT]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRIGGER
        Illegal term(s): [TRIGGER]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=TRUNCATION
        Illegal term(s): [TRUNCATION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)

    • WARNING: min.cardinality.violated , category: SPECIFICATION,  cases: 15,  not fixed: 15
      Minimal cardinality violation
      • object: __alpha_7_nicotinic_br_acetylcholine_br_receptor_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _BACE_1_br_pro_domain_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _BACE_1_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Furin_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _kinesin_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _L_type_br_calcium_br_channels_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _MAPK_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Muscarinic_br_acetylcholine_br_receptors_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _PKC_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Presenilin_br_C_terminal_br_fragment_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Presenilin_br_N_terminal_br_fragment_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Presenilin_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Pro_BACE_1_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Tip60_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _X11_alpha__PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)

    • WARNING: multiple.location , category: INFORMATION,  cases: 9,  not fixed: 9
      Participants span multiple cellular locations. This may be an error e.g. if the cellular locations do not connect to each other. Check that this information makes sense
      • object: HETERODIMER_ASSOCIATION_LEFT__alpha7_nicotinic_acetylcholine_receptor-_Abeta-RIGHT__Complex__alpha7_nicotinic_acetylcholine_receptor_Abeta_-_r58
        participants: _Abeta_s44_a52_, _Complex__alpha7_nicotinic_acetylcholine_receptor_Abeta__s191_a235_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Complex__kinesin_Microtubule_-_APP-RIGHT__Complex__APP_kinesin__Microtubule_-_r68
        participants: _Complex__APP_kinesin__Microtubule__s213_a256_, _Complex__kinesin_Microtubule__s220_a268_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRUNCATION_LEFT__APP-RIGHT__APPalpha-_C83-_r48
        participants: _APPalpha_s167_a202_, _APP_s40_a184_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRUNCATION_LEFT__C83-RIGHT__p3-_AICD-_r49
        participants: _p3_s171_a206_, _AICD_s172_a208_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRUNCATION_LEFT__C99-RIGHT__Abeta-_AICD-_r65
        participants: _C99_s208_a251_, _AICD_s172_a208_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRUNCATION_LEFT__C99-RIGHT__AICD-_Abeta-_r85
        participants: _Abeta_s269_a329_, _AICD_s172_a208_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRUNCATION_LEFT__Complex__APP_Fe65_-RIGHT__Complex__C99_Fe65_-_APPbeta-_r46
        participants: _APPbeta_s41_a49_, _Complex__APP_Fe65__s154_a186_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRUNCATION_LEFT__Complex__APP_kinesin__Microtubule_-RIGHT__Complex__kinesin_Microtubule_-_APPbeta-_C99-_r64
        participants: _Complex__APP_kinesin__Microtubule__s213_a256_, _Complex__kinesin_Microtubule__s220_a268_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)
      • object: TRUNCATION_LEFT__Complex__C99_Fe65_-RIGHT__Complex__AICD_Fe65_-_Abeta-_r45
        participants: _Complex__AICD_Fe65__s161_a195_, _Abeta_s44_a52_
        (found by: org.biopax.validator.rules.InteractionParticipantsLocationRule)

    • WARNING: no.display.name , category: RECOMMENDATION,  cases: 56,  all fixed!
      No display name is specified. It is useful to have one for the visualization purposes
      • [FIXED!]  object: http://identifiers.org/uniprot/O15264
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/O60840
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/O96018
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P05129
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P05771
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P08172
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P08173
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P08912
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P09958
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P11229
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P16519
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P17252
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P20309
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P24723
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P27361
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P28482
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P29120
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P29122
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P31152
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P36544
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P41743
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P45983
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P45984
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P49768
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P49810
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P53778
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P53779
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P56817
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q01668
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q02156
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q02410
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q02641
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q04759
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q05513
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q05655
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q07866
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q08289
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q13164
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q13698
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q13936
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q15759
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q16512
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q16513
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q16539
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q16549
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q16659
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q494W8
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q6P597
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q6P5Z2
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q6UW60
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q8TD08
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q92993
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q99767
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q9H0B6
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q9NSK0
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q9Y5Z0
        (found by: org.biopax.validator.rules.DisplayNameRule)

    • WARNING: no.xref.cv.terms , category: RECOMMENDATION,  cases: 1,  all fixed!
      Controlled vocabulary(-ies) without unification xrefs for some of the (valid) terms
      • [FIXED!]  object: PANTHER_GROUPING_10
        terms: {By Homology=[OntologyTermImpl{acc='MI:2163', name='by homology'}]}; MI:2163 added!; info: [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)

    • WARNING: no.xrefs , category: RECOMMENDATION,  cases: 15,  not fixed: 15
      EntityReference does not have any xrefs
      • object: __alpha_7_nicotinic_br_acetylcholine_br_receptor_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _BACE_1_br_pro_domain_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _BACE_1_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Furin_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _kinesin_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _L_type_br_calcium_br_channels_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _MAPK_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Muscarinic_br_acetylcholine_br_receptors_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _PKC_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Presenilin_br_C_terminal_br_fragment_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Presenilin_br_N_terminal_br_fragment_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Presenilin_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Pro_BACE_1_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Tip60_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _X11_alpha__PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)

    • WARNING: null.entity.reference , category: RECOMMENDATION,  cases: 2,  not fixed: 2
      A Protein, SmallMolecule, etc. (but not a complex) has neither 'entityReference' (highly recommended) nor 'memberPhysicalEntity' values set
      • object: _Microtubule_s12_sa20_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)
      • object: _Microtubule_s32_sa18_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)

    • WARNING: participant.location.changed , category: RECOMMENDATION,  cases: 4,  not fixed: 4
      Physical entity changes its cellular location (either it is different on the left and right sides of the reaction or not specified on one side). Consider using a TransportWithBiochemicalReaction instead
      • object: TRUNCATION_LEFT__APP-RIGHT__APPalpha-_C83-_r48
        left: _APP_s40_a184_, right: _APPalpha_s167_a202_
        (found by: org.biopax.validator.rules.BiochemReactParticipantsLocationRule)
      • object: TRUNCATION_LEFT__C83-RIGHT__p3-_AICD-_r49
        left: _C83_s168_a203_, right: _p3_s171_a206_
        (found by: org.biopax.validator.rules.BiochemReactParticipantsLocationRule)
      • object: TRUNCATION_LEFT__C99-RIGHT__Abeta-_AICD-_r65
        left: _C99_s208_a251_, right: _AICD_s172_a208_
        (found by: org.biopax.validator.rules.BiochemReactParticipantsLocationRule)
      • object: TRUNCATION_LEFT__C99-RIGHT__AICD-_Abeta-_r85
        left: _C99_s272_a334_, right: _AICD_s172_a208_
        (found by: org.biopax.validator.rules.BiochemReactParticipantsLocationRule)

    • WARNING: too.long.display.name , category: RECOMMENDATION,  cases: 96,  not fixed: 96
      'displayName' exceeds the recommended maximum. These names should be kept short so they can easily be displayed, e.g., in a pathway diagram
      • object: __alpha_7_nicotinic_br_acetylcholine_br_receptor_PROTEIN
        alpha7 nicotinic acetylcholine receptor, length=39 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _alpha7_nicotinic_acetylcholine_receptor_s187_a229_
        alpha7 nicotinic acetylcholine receptor, length=39 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _alpha7_nicotinic_acetylcholine_receptor_s18_sa14_
        alpha7 nicotinic acetylcholine receptor, length=39 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__AICD_Fe65__Tip60__s180_a219_
        Complex (AICD/Fe65/ Tip60), length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__alpha7_nicotinic_acetylcholine_receptor_Abeta__s191_a235_
        Complex (alpha7 nicotinic acetylcholine receptor/Abeta), length=55 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__APP_kinesin__Microtubule__s213_a256_
        Complex (APP/kinesin/ Microtubule), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__kinesin_Microtubule__s220_a268_
        Complex (kinesin/Microtubule), length=29 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment__s253_a311_
        Complex (Nicastrin/Aph-1/ Pen-2/Presenilin N-terminal fragment/ Presenilin C-terminal fragment), length=95 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment__s254_a313_
        Complex (Nicastrin/Aph-1/ Pen-2/Presenilin N-terminal fragment/ Presenilin C-terminal fragment), length=95 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment__s260_a310_
        Complex (Nicastrin/Aph-1/ Pen-2/Presenilin N-terminal fragment/ Presenilin C-terminal fragment), length=95 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Muscarinic_acetylcholine_receptors_s184_a225_
        Muscarinic acetylcholine receptors, length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Muscarinic_br_acetylcholine_br_receptors_PROTEIN
        Muscarinic acetylcholine receptors, length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_br_C_terminal_br_fragment_PROTEIN
        Presenilin C-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_br_N_terminal_br_fragment_PROTEIN
        Presenilin N-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_C_terminal_fragment_s17_sa32_
        Presenilin C-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_C_terminal_fragment_s237_a290_
        Presenilin C-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_C_terminal_fragment_s25_sa42_
        Presenilin C-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_C_terminal_fragment_s42_sa27_
        Presenilin C-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_N_terminal_fragment_s16_sa31_
        Presenilin N-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_N_terminal_fragment_s236_a289_
        Presenilin N-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_N_terminal_fragment_s24_sa41_
        Presenilin N-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Presenilin_N_terminal_fragment_s38_sa26_
        Presenilin N-terminal fragment, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__alpha7_nicotinic_acetylcholine_receptor-_Abeta-RIGHT__Complex__alpha7_nicotinic_acetylcholine_receptor_Abeta_-_r58
        HETERODIMER_ASSOCIATION_LEFT__alpha7_nicotinic_acetylcholine_receptor-_Abeta-RIGHT__Complex__alpha7_nicotinic_acetylcholine_receptor_Abeta_-_r58, length=144 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__APP-_Fe65-RIGHT__Complex__APP_Fe65_-_r43
        HETERODIMER_ASSOCIATION_LEFT__APP-_Fe65-RIGHT__Complex__APP_Fe65_-_r43, length=70 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__APP-_X11alpha-RIGHT__Complex__X11alpha_APP_-_r47
        HETERODIMER_ASSOCIATION_LEFT__APP-_X11alpha-RIGHT__Complex__X11alpha_APP_-_r47, length=78 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Complex__kinesin_Microtubule_-_APP-RIGHT__Complex__APP_kinesin__Microtubule_-_r68
        HETERODIMER_ASSOCIATION_LEFT__Complex__kinesin_Microtubule_-_APP-RIGHT__Complex__APP_kinesin__Microtubule_-_r68, length=111 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Presenilin_N_terminal_fragment-_Nicastrin-_Aph_1-_Presenilin_C_terminal_fragment-_Pen_2-RIGHT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-_r77
        HETERODIMER_ASSOCIATION_LEFT__Presenilin_N_terminal_fragment-_Nicastrin-_Aph_1-_Presenilin_C_terminal_fragment-_Pen_2-RIGHT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-_r77, length=225 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: HETERODIMER_ASSOCIATION_LEFT__Tip60-_Complex__AICD_Fe65_-RIGHT__Complex__AICD_Fe65__Tip60_-_r51
        HETERODIMER_ASSOCIATION_LEFT__Tip60-_Complex__AICD_Fe65_-RIGHT__Complex__AICD_Fe65__Tip60_-_r51, length=95 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/panther.pathway/P00003
        Alzheimer disease-amyloid secretase pathway, length=43 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/O15264
        Mitogen-activated protein kinase 13(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/O60840
        Voltage-dependent L-type calcium channel subunit alpha-1F(auto-created form other names!), length=57 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/O96018
        Amyloid beta A4 precursor protein-binding family A member 3(auto-created form other names!), length=59 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P05129
        Protein kinase C gamma type(auto-created form other names!), length=27 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P05771
        Protein kinase C beta type(auto-created form other names!), length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P08172
        Muscarinic acetylcholine receptor M2(auto-created form other names!), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P08173
        Muscarinic acetylcholine receptor M4(auto-created form other names!), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P08912
        Muscarinic acetylcholine receptor M5(auto-created form other names!), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P11229
        Muscarinic acetylcholine receptor M1(auto-created form other names!), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P16519
        Neuroendocrine convertase 2(auto-created form other names!), length=27 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P17252
        Protein kinase C alpha type(auto-created form other names!), length=27 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P20309
        Muscarinic acetylcholine receptor M3(auto-created form other names!), length=36 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P27361
        Mitogen-activated protein kinase 3(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P28482
        Mitogen-activated protein kinase 1(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P29120
        Neuroendocrine convertase 1(auto-created form other names!), length=27 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P29122
        Proprotein convertase subtilisin/kexin type 6(auto-created form other names!), length=45 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P31152
        Mitogen-activated protein kinase 4(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P36544
        Neuronal acetylcholine receptor subunit alpha-7(auto-created form other names!), length=47 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P41743
        Protein kinase C iota type(auto-created form other names!), length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P45983
        Mitogen-activated protein kinase 8(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P45984
        Mitogen-activated protein kinase 9(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P53778
        Mitogen-activated protein kinase 12(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P53779
        Mitogen-activated protein kinase 10(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q01668
        Voltage-dependent L-type calcium channel subunit alpha-1D(auto-created form other names!), length=57 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q02156
        Protein kinase C epsilon type(auto-created form other names!), length=29 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q02410
        Amyloid beta A4 precursor protein-binding family A member 1(auto-created form other names!), length=59 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q02641
        Voltage-dependent L-type calcium channel subunit beta-1(auto-created form other names!), length=55 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q04759
        Protein kinase C theta type(auto-created form other names!), length=27 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q05513
        Protein kinase C zeta type(auto-created form other names!), length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q05655
        Protein kinase C delta type(auto-created form other names!), length=27 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q08289
        Voltage-dependent L-type calcium channel subunit beta-2(auto-created form other names!), length=55 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q13164
        Mitogen-activated protein kinase 7(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q13698
        Voltage-dependent L-type calcium channel subunit alpha-1S(auto-created form other names!), length=57 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q13936
        Voltage-dependent L-type calcium channel subunit alpha-1C(auto-created form other names!), length=57 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q15759
        Mitogen-activated protein kinase 11(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q16512
        Serine/threonine-protein kinase N1(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q16513
        Serine/threonine-protein kinase N2(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q16539
        Mitogen-activated protein kinase 14(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q16549
        Proprotein convertase subtilisin/kexin type 7(auto-created form other names!), length=45 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q16659
        Mitogen-activated protein kinase 6(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q494W8
        CHRNA7-FAM7A fusion protein(auto-created form other names!), length=27 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q6P5Z2
        Serine/threonine-protein kinase N3(auto-created form other names!), length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q6UW60
        Proprotein convertase subtilisin/kexin type 4(auto-created form other names!), length=45 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q8TD08
        Mitogen-activated protein kinase 15(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q92993
        Histone acetyltransferase KAT5(auto-created form other names!), length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q99767
        Amyloid beta A4 precursor protein-binding family A member 2(auto-created form other names!), length=59 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: r71
        STATE_TRANSITION_LEFT__Complex__X11alpha_APP_-RIGHT__a269_degraded-_r71, length=71 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__Abeta-RIGHT__Abeta-_r50
        STATE_TRANSITION_LEFT__Abeta-RIGHT__Abeta-_r50, length=46 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__L_type_calcium_channels-RIGHT__L_type_calcium_channels-_re29
        STATE_TRANSITION_LEFT__L_type_calcium_channels-RIGHT__L_type_calcium_channels-_re29, length=83 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__MAPK-RIGHT__MAPK-_r56
        STATE_TRANSITION_LEFT__MAPK-RIGHT__MAPK-_r56, length=44 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__PKC-RIGHT__PKC-_r53
        STATE_TRANSITION_LEFT__PKC-RIGHT__PKC-_r53, length=42 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__TACE-RIGHT__TACE-_r54
        STATE_TRANSITION_LEFT__TACE-RIGHT__TACE-_r54, length=44 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__BACE_1-RIGHT__BACE_1-_r89
        TRANSPORT_LEFT__BACE_1-RIGHT__BACE_1-_r89, length=41 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Ca2_PLUS_-RIGHT__Ca2_PLUS_-_r42
        TRANSPORT_LEFT__Ca2_PLUS_-RIGHT__Ca2_PLUS_-_r42, length=47 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__AICD_Fe65_-RIGHT__Complex__AICD_Fe65_-_r87
        TRANSPORT_LEFT__Complex__AICD_Fe65_-RIGHT__Complex__AICD_Fe65_-_r87, length=67 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-RIGHT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-_r90
        TRANSPORT_LEFT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-RIGHT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-_r90, length=219 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRANSPORT_LEFT__Complex__X11alpha_APP_-RIGHT__Complex__X11alpha_APP_-_r86
        TRANSPORT_LEFT__Complex__X11alpha_APP_-RIGHT__Complex__X11alpha_APP_-_r86, length=73 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__APP-RIGHT__APPalpha-_C83-_r48
        TRUNCATION_LEFT__APP-RIGHT__APPalpha-_C83-_r48, length=46 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__APP-RIGHT__APPbeta-_C99-_r84
        TRUNCATION_LEFT__APP-RIGHT__APPbeta-_C99-_r84, length=45 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__C83-RIGHT__p3-_AICD-_r49
        TRUNCATION_LEFT__C83-RIGHT__p3-_AICD-_r49, length=41 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__C99-RIGHT__Abeta-_AICD-_r65
        TRUNCATION_LEFT__C99-RIGHT__Abeta-_AICD-_r65, length=44 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__C99-RIGHT__AICD-_Abeta-_r85
        TRUNCATION_LEFT__C99-RIGHT__AICD-_Abeta-_r85, length=44 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__Complex__APP_Fe65_-RIGHT__Complex__C99_Fe65_-_APPbeta-_r46
        TRUNCATION_LEFT__Complex__APP_Fe65_-RIGHT__Complex__C99_Fe65_-_APPbeta-_r46, length=75 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__Complex__APP_kinesin__Microtubule_-RIGHT__Complex__kinesin_Microtubule_-_APPbeta-_C99-_r64
        TRUNCATION_LEFT__Complex__APP_kinesin__Microtubule_-RIGHT__Complex__kinesin_Microtubule_-_APPbeta-_C99-_r64, length=107 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__Complex__C99_Fe65_-RIGHT__Complex__AICD_Fe65_-_Abeta-_r45
        TRUNCATION_LEFT__Complex__C99_Fe65_-RIGHT__Complex__AICD_Fe65_-_Abeta-_r45, length=74 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__Presenilin-RIGHT__Presenilin_N_terminal_fragment-_Presenilin_C_terminal_fragment-_r76
        TRUNCATION_LEFT__Presenilin-RIGHT__Presenilin_N_terminal_fragment-_Presenilin_C_terminal_fragment-_r76, length=102 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: TRUNCATION_LEFT__Pro_BACE_1-RIGHT__BACE_1-_BACE_1_pro_domain-_r62
        TRUNCATION_LEFT__Pro_BACE_1-RIGHT__BACE_1-_BACE_1_pro_domain-_r62, length=65 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)

    • WARNING: too.long.id , category: INFORMATION,  cases: 2,  not fixed: 2
      Too long IDs (URIs) are allowed but not desirable, for it may cause various performance issues and errors in software that consumes BioPAX data. Also, if we look beyond a trivial data exchange use case, it is generally more difficult for a pathway data provider to support such verbose URIs, to keep it consistent from one release to another (note: ideally, a URI would be possible to resolve to a URL, with some data or summary - on that page)
      • object: HETERODIMER_ASSOCIATION_LEFT__Presenilin_N_terminal_fragment-_Nicastrin-_Aph_1-_Presenilin_C_terminal_fragment-_Pen_2-RIGHT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-_r77
        length=273 (exceeds 256)
        (found by: org.biopax.validator.rules.BiopaxElementIdLengthRule)
      • object: TRANSPORT_LEFT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-RIGHT__Complex__Nicastrin_Aph_1__Pen_2_Presenilin_N_terminal_fragment__Presenilin_C_terminal_fragment_-_r90
        length=267 (exceeds 256)
        (found by: org.biopax.validator.rules.BiopaxElementIdLengthRule)