{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2025:T4NNSLFJOQTNDLGVEMUUPB7HDC","short_pith_number":"pith:T4NNSLFJ","canonical_record":{"source":{"id":"2506.17857","kind":"arxiv","version":2},"metadata":{"license":"http://creativecommons.org/licenses/by-nc-sa/4.0/","primary_cat":"q-bio.BM","submitted_at":"2025-06-21T23:34:46Z","cross_cats_sorted":["cs.LG"],"title_canon_sha256":"a1bbc575d71f111cf493a1754ce4fb65ae67c398381a594bfb4b6ebde350d56f","abstract_canon_sha256":"5c109883d8c59ca9691293bdb81f2be4d3e625a790972bcbbfbdd1269fb667dd"},"schema_version":"1.0"},"canonical_sha256":"9f1ad92ca97426d1acd523294787e7188defbefb2541853db3c072749abdeb37","source":{"kind":"arxiv","id":"2506.17857","version":2},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2506.17857","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"arxiv_version","alias_value":"2506.17857v2","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2506.17857","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"pith_short_12","alias_value":"T4NNSLFJOQTN","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"pith_short_16","alias_value":"T4NNSLFJOQTNDLGV","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"pith_short_8","alias_value":"T4NNSLFJ","created_at":"2026-07-05T11:53:04Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2025:T4NNSLFJOQTNDLGVEMUUPB7HDC","target":"record","payload":{"canonical_record":{"source":{"id":"2506.17857","kind":"arxiv","version":2},"metadata":{"license":"http://creativecommons.org/licenses/by-nc-sa/4.0/","primary_cat":"q-bio.BM","submitted_at":"2025-06-21T23:34:46Z","cross_cats_sorted":["cs.LG"],"title_canon_sha256":"a1bbc575d71f111cf493a1754ce4fb65ae67c398381a594bfb4b6ebde350d56f","abstract_canon_sha256":"5c109883d8c59ca9691293bdb81f2be4d3e625a790972bcbbfbdd1269fb667dd"},"schema_version":"1.0"},"canonical_sha256":"9f1ad92ca97426d1acd523294787e7188defbefb2541853db3c072749abdeb37","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T11:53:04.638346Z","signature_b64":"X7zlJ3FVcjod2RwauK3KR/ikthWsH2tg3nnqkMXSj14EAUWMwK4qjWdBA9wSy8fxueHO8nbfxw9AJS7z3hddDg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"9f1ad92ca97426d1acd523294787e7188defbefb2541853db3c072749abdeb37","last_reissued_at":"2026-07-05T11:53:04.637793Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T11:53:04.637793Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2506.17857","source_version":2,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T11:53:04Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"RhoevDX4cgRNK8gaalmpqXOA+tNsNHygrK/uRYU0/e0XkyPWVXzbIJhfbcwqoTD8HUsqMTY4t3O9ld7gaoEZDA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-05T15:59:15.033674Z"},"content_sha256":"3011d2a42361f68fba20a96bc8cd419b52d607c8683d8cf3261950d4bd297248","schema_version":"1.0","event_id":"sha256:3011d2a42361f68fba20a96bc8cd419b52d607c8683d8cf3261950d4bd297248"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2025:T4NNSLFJOQTNDLGVEMUUPB7HDC","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"AbRank: A Benchmark Dataset and Metric-Learning Framework for Antibody-Antigen Affinity Ranking","license":"http://creativecommons.org/licenses/by-nc-sa/4.0/","headline":"","cross_cats":["cs.LG"],"primary_cat":"q-bio.BM","authors_text":"Andrew C.R. Martin, Aurelien Pelissier, Brooks Paige, Chunan Liu, Lilian Denzler, Mar\\'ia Rodr\\'iguez Mart\\'inez, Yanjun Shao","submitted_at":"2025-06-21T23:34:46Z","abstract_excerpt":"Accurate prediction of antibody-antigen (Ab-Ag) binding affinity is essential for therapeutic design and vaccine development, yet the performance of current models is limited by noisy experimental labels, heterogeneous assay conditions, and poor generalization across the vast antibody and antigen sequence space. We introduce AbRank, a large-scale benchmark and evaluation framework that reframes affinity prediction as a pairwise ranking problem. AbRank aggregates over 380,000 binding assays from nine heterogeneous sources, spanning diverse antibodies, antigens, and experimental conditions, and "},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2506.17857","kind":"arxiv","version":2},"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/2506.17857/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":"2026-07-05T11:53:04Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"+ZGiZFs7HJO4PaiGL66bRiMrzAIILjy0F38T7pEfybIeBfNdZkA6Tuf7OZkE+cq2AEHH7pV0u/AwZ5DTdfIoAg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-05T15:59:15.034069Z"},"content_sha256":"99dd32ee2e62ff3a0211ca6911c4f0b51db133bd810d22b325fd19f45b39af1c","schema_version":"1.0","event_id":"sha256:99dd32ee2e62ff3a0211ca6911c4f0b51db133bd810d22b325fd19f45b39af1c"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/T4NNSLFJOQTNDLGVEMUUPB7HDC/bundle.json","state_url":"https://pith.science/pith/T4NNSLFJOQTNDLGVEMUUPB7HDC/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/T4NNSLFJOQTNDLGVEMUUPB7HDC/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":"2026-08-05T15:59:15Z","links":{"resolver":"https://pith.science/pith/T4NNSLFJOQTNDLGVEMUUPB7HDC","bundle":"https://pith.science/pith/T4NNSLFJOQTNDLGVEMUUPB7HDC/bundle.json","state":"https://pith.science/pith/T4NNSLFJOQTNDLGVEMUUPB7HDC/state.json","well_known_bundle":"https://pith.science/.well-known/pith/T4NNSLFJOQTNDLGVEMUUPB7HDC/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2025:T4NNSLFJOQTNDLGVEMUUPB7HDC","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":"5c109883d8c59ca9691293bdb81f2be4d3e625a790972bcbbfbdd1269fb667dd","cross_cats_sorted":["cs.LG"],"license":"http://creativecommons.org/licenses/by-nc-sa/4.0/","primary_cat":"q-bio.BM","submitted_at":"2025-06-21T23:34:46Z","title_canon_sha256":"a1bbc575d71f111cf493a1754ce4fb65ae67c398381a594bfb4b6ebde350d56f"},"schema_version":"1.0","source":{"id":"2506.17857","kind":"arxiv","version":2}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2506.17857","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"arxiv_version","alias_value":"2506.17857v2","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2506.17857","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"pith_short_12","alias_value":"T4NNSLFJOQTN","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"pith_short_16","alias_value":"T4NNSLFJOQTNDLGV","created_at":"2026-07-05T11:53:04Z"},{"alias_kind":"pith_short_8","alias_value":"T4NNSLFJ","created_at":"2026-07-05T11:53:04Z"}],"graph_snapshots":[{"event_id":"sha256:99dd32ee2e62ff3a0211ca6911c4f0b51db133bd810d22b325fd19f45b39af1c","target":"graph","created_at":"2026-07-05T11:53:04Z","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/2506.17857/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Accurate prediction of antibody-antigen (Ab-Ag) binding affinity is essential for therapeutic design and vaccine development, yet the performance of current models is limited by noisy experimental labels, heterogeneous assay conditions, and poor generalization across the vast antibody and antigen sequence space. We introduce AbRank, a large-scale benchmark and evaluation framework that reframes affinity prediction as a pairwise ranking problem. AbRank aggregates over 380,000 binding assays from nine heterogeneous sources, spanning diverse antibodies, antigens, and experimental conditions, and ","authors_text":"Andrew C.R. Martin, Aurelien Pelissier, Brooks Paige, Chunan Liu, Lilian Denzler, Mar\\'ia Rodr\\'iguez Mart\\'inez, Yanjun Shao","cross_cats":["cs.LG"],"headline":"","license":"http://creativecommons.org/licenses/by-nc-sa/4.0/","primary_cat":"q-bio.BM","submitted_at":"2025-06-21T23:34:46Z","title":"AbRank: A Benchmark Dataset and Metric-Learning Framework for Antibody-Antigen Affinity Ranking"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2506.17857","kind":"arxiv","version":2},"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":"sha256:3011d2a42361f68fba20a96bc8cd419b52d607c8683d8cf3261950d4bd297248","target":"record","created_at":"2026-07-05T11:53:04Z","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":"5c109883d8c59ca9691293bdb81f2be4d3e625a790972bcbbfbdd1269fb667dd","cross_cats_sorted":["cs.LG"],"license":"http://creativecommons.org/licenses/by-nc-sa/4.0/","primary_cat":"q-bio.BM","submitted_at":"2025-06-21T23:34:46Z","title_canon_sha256":"a1bbc575d71f111cf493a1754ce4fb65ae67c398381a594bfb4b6ebde350d56f"},"schema_version":"1.0","source":{"id":"2506.17857","kind":"arxiv","version":2}},"canonical_sha256":"9f1ad92ca97426d1acd523294787e7188defbefb2541853db3c072749abdeb37","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"9f1ad92ca97426d1acd523294787e7188defbefb2541853db3c072749abdeb37","first_computed_at":"2026-07-05T11:53:04.637793Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T11:53:04.637793Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"X7zlJ3FVcjod2RwauK3KR/ikthWsH2tg3nnqkMXSj14EAUWMwK4qjWdBA9wSy8fxueHO8nbfxw9AJS7z3hddDg==","signature_status":"signed_v1","signed_at":"2026-07-05T11:53:04.638346Z","signed_message":"canonical_sha256_bytes"},"source_id":"2506.17857","source_kind":"arxiv","source_version":2}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:3011d2a42361f68fba20a96bc8cd419b52d607c8683d8cf3261950d4bd297248","sha256:99dd32ee2e62ff3a0211ca6911c4f0b51db133bd810d22b325fd19f45b39af1c"],"state_sha256":"cdebf78a7a590c61bcd1d36ba3583f44400bcefbce7d14a5c67568f484e7bff4"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"1FJ5A3l2wBMmOK50Ob96esZvdjKRiGSAqiFlShtvGRrgHDwWlEQ7zqCRoALcqqEpoCDcdOyicX6irJ6SEtrSDA==","signed_message":"bundle_sha256_bytes","signed_at":"2026-08-05T15:59:15.036578Z","bundle_sha256":"664201eb872c3151ac86dac26368ea91f1d4fb3aff29bcbb797574623f82c4be"}}