{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2025:PD47LAX24JUJMPXDQQ3CLTLCQA","short_pith_number":"pith:PD47LAX2","canonical_record":{"source":{"id":"2508.21774","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.OT","submitted_at":"2025-08-29T16:49:57Z","cross_cats_sorted":[],"title_canon_sha256":"7348c7290735af89c199a47997f4ab006833271a09f58b127b0bc1b397791728","abstract_canon_sha256":"e9d18091371bc7342e3a7bd06c84aa19a4f6cd30f599f2abdcd8ac0e60710ef3"},"schema_version":"1.0"},"canonical_sha256":"78f9f582fae268963ee3843625cd62801b7fe808b6ec64b1f28fc43ac8241f98","source":{"kind":"arxiv","id":"2508.21774","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2508.21774","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"arxiv_version","alias_value":"2508.21774v1","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2508.21774","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"pith_short_12","alias_value":"PD47LAX24JUJ","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"pith_short_16","alias_value":"PD47LAX24JUJMPXD","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"pith_short_8","alias_value":"PD47LAX2","created_at":"2026-07-05T12:01:49Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2025:PD47LAX24JUJMPXDQQ3CLTLCQA","target":"record","payload":{"canonical_record":{"source":{"id":"2508.21774","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.OT","submitted_at":"2025-08-29T16:49:57Z","cross_cats_sorted":[],"title_canon_sha256":"7348c7290735af89c199a47997f4ab006833271a09f58b127b0bc1b397791728","abstract_canon_sha256":"e9d18091371bc7342e3a7bd06c84aa19a4f6cd30f599f2abdcd8ac0e60710ef3"},"schema_version":"1.0"},"canonical_sha256":"78f9f582fae268963ee3843625cd62801b7fe808b6ec64b1f28fc43ac8241f98","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T12:01:49.451668Z","signature_b64":"C5GL/WtZayvLEEcpNHhJAy87zeA99BcCMezC0TQxJm+NesAj3QzJfX5Vc9Vq2u80KXWIrjP3P7WqqJt4+Cs3BQ==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"78f9f582fae268963ee3843625cd62801b7fe808b6ec64b1f28fc43ac8241f98","last_reissued_at":"2026-07-05T12:01:49.451153Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T12:01:49.451153Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2508.21774","source_version":1,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T12:01:49Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"7j1OiOeHrVtbABqUYYcqpiUEPbH6tpyRft2RmZDdDrnxOSd6IiwLCXtPkkY1Jz8fCk8ylTpO/eFqOPIwRwe9DQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-17T01:43:36.661130Z"},"content_sha256":"70d1bf04738ad1e1289ad8dc91ad1a67e78ee4661476a3a56b3d2807341d6f7b","schema_version":"1.0","event_id":"sha256:70d1bf04738ad1e1289ad8dc91ad1a67e78ee4661476a3a56b3d2807341d6f7b"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2025:PD47LAX24JUJMPXDQQ3CLTLCQA","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Improving Biomedical Knowledge Graph Quality: A Community Approach","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":[],"primary_cat":"q-bio.OT","authors_text":"Arjun Krishnan, Chris Mungall, Daniel Robert Korn, E. Kathleen Carter, Harry Caufield, Junxia Lin, Justin Reese, Katherina G Cortes, Keenan Manpearl, Kevin Schaper, Kushal Koirala, Lawrence E Hunter, Marcello DeLuca, Melissa Haendel, Sarah Gehrke, Shilpa Sundar","submitted_at":"2025-08-29T16:49:57Z","abstract_excerpt":"Biomedical knowledge graphs (KGs) are widely used across research and translational settings, yet their design decisions and implementation are often opaque. Unlike ontologies that more frequently adhere to established creation principles, biomedical KGs lack consistent practices for construction, documentation, and dissemination. To address this gap, we introduce a set of evaluation criteria grounded in widely accepted data standards and principles from related fields. We apply these criteria to 16 biomedical KGs, revealing that even those that appear to align with best practices often obscur"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2508.21774","kind":"arxiv","version":1},"verdict":{"id":null,"model_set":{},"created_at":null,"strongest_claim":"","one_line_summary":"","pipeline_version":null,"weakest_assumption":"","pith_extraction_headline":""},"integrity":{"clean":true,"summary":{"advisory":0,"critical":0,"by_detector":{},"informational":0},"endpoint":"/pith/2508.21774/integrity.json","findings":[],"available":true,"detectors_run":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938"},"references":{"count":0,"sample":[],"resolved_work":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","internal_anchors":0},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"author_claims":{"count":0,"strong_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"builder_version":"pith-number-builder-2026-05-17-v1"},"verdict_id":null},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T12:01:49Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"Ub+xDrd3+PNhBQ4glknv7Qe+dYHG0RFpdz/7uhIIHe0N5KsLMFwLssl1o9/teXrkrmgoQRq1zUdDrYbJj3jHAA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-17T01:43:36.661515Z"},"content_sha256":"3754e1e7cc3196638a1287e2796e3f933d51ac23156ebb9133a39978e019df66","schema_version":"1.0","event_id":"sha256:3754e1e7cc3196638a1287e2796e3f933d51ac23156ebb9133a39978e019df66"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/PD47LAX24JUJMPXDQQ3CLTLCQA/bundle.json","state_url":"https://pith.science/pith/PD47LAX24JUJMPXDQQ3CLTLCQA/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/PD47LAX24JUJMPXDQQ3CLTLCQA/bundle.json","status":"primary"}],"public_keys":[{"key_id":"pith-v1-2026-05","algorithm":"ed25519","format":"raw","public_key_b64":"stVStoiQhXFxp4s2pdzPNoqVNBMojDU/fJ2db5S3CbM=","public_key_hex":"b2d552b68890857171a78b36a5dccf368a953413288c353f7c9d9d6f94b709b3","fingerprint_sha256_b32_first128bits":"RVFV5Z2OI2J3ZUO7ERDEBCYNKS","fingerprint_sha256_hex":"8d4b5ee74e4693bcd1df2446408b0d54","rotates_at":null,"url":"https://pith.science/pith-signing-key.json","notes":"Pith uses this Ed25519 key to sign canonical record SHA-256 digests. Verify with: ed25519_verify(public_key, message=canonical_sha256_bytes, signature=base64decode(signature_b64))."}],"merge_version":"pith-open-graph-merge-v1","built_at":"2026-07-17T01:43:36Z","links":{"resolver":"https://pith.science/pith/PD47LAX24JUJMPXDQQ3CLTLCQA","bundle":"https://pith.science/pith/PD47LAX24JUJMPXDQQ3CLTLCQA/bundle.json","state":"https://pith.science/pith/PD47LAX24JUJMPXDQQ3CLTLCQA/state.json","well_known_bundle":"https://pith.science/.well-known/pith/PD47LAX24JUJMPXDQQ3CLTLCQA/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2025:PD47LAX24JUJMPXDQQ3CLTLCQA","merge_version":"pith-open-graph-merge-v1","event_count":2,"valid_event_count":2,"invalid_event_count":0,"equivocation_count":0,"current":{"canonical_record":{"metadata":{"abstract_canon_sha256":"e9d18091371bc7342e3a7bd06c84aa19a4f6cd30f599f2abdcd8ac0e60710ef3","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.OT","submitted_at":"2025-08-29T16:49:57Z","title_canon_sha256":"7348c7290735af89c199a47997f4ab006833271a09f58b127b0bc1b397791728"},"schema_version":"1.0","source":{"id":"2508.21774","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2508.21774","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"arxiv_version","alias_value":"2508.21774v1","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2508.21774","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"pith_short_12","alias_value":"PD47LAX24JUJ","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"pith_short_16","alias_value":"PD47LAX24JUJMPXD","created_at":"2026-07-05T12:01:49Z"},{"alias_kind":"pith_short_8","alias_value":"PD47LAX2","created_at":"2026-07-05T12:01:49Z"}],"graph_snapshots":[{"event_id":"sha256:3754e1e7cc3196638a1287e2796e3f933d51ac23156ebb9133a39978e019df66","target":"graph","created_at":"2026-07-05T12:01:49Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"graph_snapshot":{"author_claims":{"count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","strong_count":0},"builder_version":"pith-number-builder-2026-05-17-v1","claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"integrity":{"available":true,"clean":true,"detectors_run":[],"endpoint":"/pith/2508.21774/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Biomedical knowledge graphs (KGs) are widely used across research and translational settings, yet their design decisions and implementation are often opaque. Unlike ontologies that more frequently adhere to established creation principles, biomedical KGs lack consistent practices for construction, documentation, and dissemination. To address this gap, we introduce a set of evaluation criteria grounded in widely accepted data standards and principles from related fields. We apply these criteria to 16 biomedical KGs, revealing that even those that appear to align with best practices often obscur","authors_text":"Arjun Krishnan, Chris Mungall, Daniel Robert Korn, E. Kathleen Carter, Harry Caufield, Junxia Lin, Justin Reese, Katherina G Cortes, Keenan Manpearl, Kevin Schaper, Kushal Koirala, Lawrence E Hunter, Marcello DeLuca, Melissa Haendel, Sarah Gehrke, Shilpa Sundar","cross_cats":[],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.OT","submitted_at":"2025-08-29T16:49:57Z","title":"Improving Biomedical Knowledge Graph Quality: A Community Approach"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2508.21774","kind":"arxiv","version":1},"verdict":{"created_at":null,"id":null,"model_set":{},"one_line_summary":"","pipeline_version":null,"pith_extraction_headline":"","strongest_claim":"","weakest_assumption":""}},"verdict_id":null}}],"author_attestations":[],"timestamp_anchors":[],"storage_attestations":[],"citation_signatures":[],"replication_records":[],"corrections":[],"mirror_hints":[],"record_created":{"event_id":"sha256:70d1bf04738ad1e1289ad8dc91ad1a67e78ee4661476a3a56b3d2807341d6f7b","target":"record","created_at":"2026-07-05T12:01:49Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"attestation_state":"computed","canonical_record":{"metadata":{"abstract_canon_sha256":"e9d18091371bc7342e3a7bd06c84aa19a4f6cd30f599f2abdcd8ac0e60710ef3","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.OT","submitted_at":"2025-08-29T16:49:57Z","title_canon_sha256":"7348c7290735af89c199a47997f4ab006833271a09f58b127b0bc1b397791728"},"schema_version":"1.0","source":{"id":"2508.21774","kind":"arxiv","version":1}},"canonical_sha256":"78f9f582fae268963ee3843625cd62801b7fe808b6ec64b1f28fc43ac8241f98","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"78f9f582fae268963ee3843625cd62801b7fe808b6ec64b1f28fc43ac8241f98","first_computed_at":"2026-07-05T12:01:49.451153Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T12:01:49.451153Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"C5GL/WtZayvLEEcpNHhJAy87zeA99BcCMezC0TQxJm+NesAj3QzJfX5Vc9Vq2u80KXWIrjP3P7WqqJt4+Cs3BQ==","signature_status":"signed_v1","signed_at":"2026-07-05T12:01:49.451668Z","signed_message":"canonical_sha256_bytes"},"source_id":"2508.21774","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:70d1bf04738ad1e1289ad8dc91ad1a67e78ee4661476a3a56b3d2807341d6f7b","sha256:3754e1e7cc3196638a1287e2796e3f933d51ac23156ebb9133a39978e019df66"],"state_sha256":"eb9656f1e215a2ab9d003f53891b438a26865ab78c0df48cf8799558657924b9"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"1nZpF127zTBI3hfU8zXCcBZEV8uZjenKoguJJKqV8zZeVPczu6rW9vyKZFV4oidwiA/PUxGs9v+r/piisCHIDw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-17T01:43:36.663916Z","bundle_sha256":"3655b9a91d8276f635585f42af8b9eb50e40878fd1aba70cc351a79dc6dbadb4"}}