{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2023:2MHRO3NJUDNSI2N2OVDG2L3GCT","short_pith_number":"pith:2MHRO3NJ","canonical_record":{"source":{"id":"2307.08813","kind":"arxiv","version":4},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.CL","submitted_at":"2023-07-17T20:01:11Z","cross_cats_sorted":["cs.LG"],"title_canon_sha256":"40241a4ba97ca766ec7eeedeac413b3f84ba77411e705058467099a66b59eefd","abstract_canon_sha256":"4455752c0cc76ba0eab97d6d1bf0a30bf4147f7e0b08890ef50689085d3c3cd9"},"schema_version":"1.0"},"canonical_sha256":"d30f176da9a0db2469ba75466d2f6614d27a95b43386fe8ee4794f5468da73fc","source":{"kind":"arxiv","id":"2307.08813","version":4},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2307.08813","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"arxiv_version","alias_value":"2307.08813v4","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2307.08813","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"pith_short_12","alias_value":"2MHRO3NJUDNS","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"pith_short_16","alias_value":"2MHRO3NJUDNSI2N2","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"pith_short_8","alias_value":"2MHRO3NJ","created_at":"2026-07-05T10:52:53Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2023:2MHRO3NJUDNSI2N2OVDG2L3GCT","target":"record","payload":{"canonical_record":{"source":{"id":"2307.08813","kind":"arxiv","version":4},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.CL","submitted_at":"2023-07-17T20:01:11Z","cross_cats_sorted":["cs.LG"],"title_canon_sha256":"40241a4ba97ca766ec7eeedeac413b3f84ba77411e705058467099a66b59eefd","abstract_canon_sha256":"4455752c0cc76ba0eab97d6d1bf0a30bf4147f7e0b08890ef50689085d3c3cd9"},"schema_version":"1.0"},"canonical_sha256":"d30f176da9a0db2469ba75466d2f6614d27a95b43386fe8ee4794f5468da73fc","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T10:52:53.241399Z","signature_b64":"hMo5l8hUrBIhsF93YETWQ78loS0TfJMI1rCxpGxQwOexwGTkTArTJDbr7EX0sdDLfDv0yrkhRu+jwuRIrs4cCg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"d30f176da9a0db2469ba75466d2f6614d27a95b43386fe8ee4794f5468da73fc","last_reissued_at":"2026-07-05T10:52:53.240949Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T10:52:53.240949Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2307.08813","source_version":4,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T10:52:53Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"6iBV5fXx6RAd/xqaQaw6v3WojuOJhONthXokw0onY3FG/fzUvoePSqEGnvhM1vGH+xpldlDjjQCPvU5X/Y58Cg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-14T18:57:24.738275Z"},"content_sha256":"3828474f7857780b7dceddec8b6713ee673e6ba177404efc1c8da36f0dc44ec3","schema_version":"1.0","event_id":"sha256:3828474f7857780b7dceddec8b6713ee673e6ba177404efc1c8da36f0dc44ec3"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2023:2MHRO3NJUDNSI2N2OVDG2L3GCT","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Comparative Performance Evaluation of Large Language Models for Extracting Molecular Interactions and Pathway Knowledge","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cs.LG"],"primary_cat":"cs.CL","authors_text":"Byung-Jun Yoon, Gilchan Park, Shantenu Jha, Shinjae Yoo, Vanessa L\\'opez-Marrero, Xihaier Luo","submitted_at":"2023-07-17T20:01:11Z","abstract_excerpt":"Background: Identification of the interactions and regulatory relations between biomolecules play pivotal roles in understanding complex biological systems and the mechanisms underlying diverse biological functions. However, the collection of such molecular interactions has heavily relied on expert curation in the past, making it labor-intensive and time-consuming. To mitigate these challenges, we propose leveraging the capabilities of large language models (LLMs) to automate genome-scale extraction of this crucial knowledge.\n  Results: In this study, we investigate the efficacy of various LLM"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2307.08813","kind":"arxiv","version":4},"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/2307.08813/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":"2026-07-05T10:52:53Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"ci06XeA+NyaeJl51k5mwuWTQMMHUghDC4CBCZdqzLSbL/zKpxVMW/QVR8mP+aesHnDRy8nMZ0ewU5bEF2ubUDQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-14T18:57:24.739306Z"},"content_sha256":"07522a7820100cb176a9a70b256dc23ba5b6021140d83a137af24eca1d91448f","schema_version":"1.0","event_id":"sha256:07522a7820100cb176a9a70b256dc23ba5b6021140d83a137af24eca1d91448f"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/2MHRO3NJUDNSI2N2OVDG2L3GCT/bundle.json","state_url":"https://pith.science/pith/2MHRO3NJUDNSI2N2OVDG2L3GCT/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/2MHRO3NJUDNSI2N2OVDG2L3GCT/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":"2026-08-14T18:57:24Z","links":{"resolver":"https://pith.science/pith/2MHRO3NJUDNSI2N2OVDG2L3GCT","bundle":"https://pith.science/pith/2MHRO3NJUDNSI2N2OVDG2L3GCT/bundle.json","state":"https://pith.science/pith/2MHRO3NJUDNSI2N2OVDG2L3GCT/state.json","well_known_bundle":"https://pith.science/.well-known/pith/2MHRO3NJUDNSI2N2OVDG2L3GCT/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2023:2MHRO3NJUDNSI2N2OVDG2L3GCT","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":"4455752c0cc76ba0eab97d6d1bf0a30bf4147f7e0b08890ef50689085d3c3cd9","cross_cats_sorted":["cs.LG"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.CL","submitted_at":"2023-07-17T20:01:11Z","title_canon_sha256":"40241a4ba97ca766ec7eeedeac413b3f84ba77411e705058467099a66b59eefd"},"schema_version":"1.0","source":{"id":"2307.08813","kind":"arxiv","version":4}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2307.08813","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"arxiv_version","alias_value":"2307.08813v4","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2307.08813","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"pith_short_12","alias_value":"2MHRO3NJUDNS","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"pith_short_16","alias_value":"2MHRO3NJUDNSI2N2","created_at":"2026-07-05T10:52:53Z"},{"alias_kind":"pith_short_8","alias_value":"2MHRO3NJ","created_at":"2026-07-05T10:52:53Z"}],"graph_snapshots":[{"event_id":"sha256:07522a7820100cb176a9a70b256dc23ba5b6021140d83a137af24eca1d91448f","target":"graph","created_at":"2026-07-05T10:52:53Z","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/2307.08813/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Background: Identification of the interactions and regulatory relations between biomolecules play pivotal roles in understanding complex biological systems and the mechanisms underlying diverse biological functions. However, the collection of such molecular interactions has heavily relied on expert curation in the past, making it labor-intensive and time-consuming. To mitigate these challenges, we propose leveraging the capabilities of large language models (LLMs) to automate genome-scale extraction of this crucial knowledge.\n  Results: In this study, we investigate the efficacy of various LLM","authors_text":"Byung-Jun Yoon, Gilchan Park, Shantenu Jha, Shinjae Yoo, Vanessa L\\'opez-Marrero, Xihaier Luo","cross_cats":["cs.LG"],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.CL","submitted_at":"2023-07-17T20:01:11Z","title":"Comparative Performance Evaluation of Large Language Models for Extracting Molecular Interactions and Pathway Knowledge"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2307.08813","kind":"arxiv","version":4},"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":"sha256:3828474f7857780b7dceddec8b6713ee673e6ba177404efc1c8da36f0dc44ec3","target":"record","created_at":"2026-07-05T10:52:53Z","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":"4455752c0cc76ba0eab97d6d1bf0a30bf4147f7e0b08890ef50689085d3c3cd9","cross_cats_sorted":["cs.LG"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.CL","submitted_at":"2023-07-17T20:01:11Z","title_canon_sha256":"40241a4ba97ca766ec7eeedeac413b3f84ba77411e705058467099a66b59eefd"},"schema_version":"1.0","source":{"id":"2307.08813","kind":"arxiv","version":4}},"canonical_sha256":"d30f176da9a0db2469ba75466d2f6614d27a95b43386fe8ee4794f5468da73fc","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"d30f176da9a0db2469ba75466d2f6614d27a95b43386fe8ee4794f5468da73fc","first_computed_at":"2026-07-05T10:52:53.240949Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T10:52:53.240949Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"hMo5l8hUrBIhsF93YETWQ78loS0TfJMI1rCxpGxQwOexwGTkTArTJDbr7EX0sdDLfDv0yrkhRu+jwuRIrs4cCg==","signature_status":"signed_v1","signed_at":"2026-07-05T10:52:53.241399Z","signed_message":"canonical_sha256_bytes"},"source_id":"2307.08813","source_kind":"arxiv","source_version":4}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:3828474f7857780b7dceddec8b6713ee673e6ba177404efc1c8da36f0dc44ec3","sha256:07522a7820100cb176a9a70b256dc23ba5b6021140d83a137af24eca1d91448f"],"state_sha256":"cf8ec308f3efd18184709f48851ac25bf031f94d9f890f71ad34feb0237f9ff0"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"KAiFwThFo3jSUxIE4cRHJzlCFGKqtbI1XtviFJvObvLuPDpVdWEcIQLiUuQ+pRNgdOJ7ETODHP8m0p7vq2OVBg==","signed_message":"bundle_sha256_bytes","signed_at":"2026-08-14T18:57:24.758549Z","bundle_sha256":"72a7b926bfa950583b93b333329dab82fe541f5f6db07acbb881508efeced5e3"}}