{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2023:CI4A4ELLJDSINJ634DSR52C4MK","short_pith_number":"pith:CI4A4ELL","canonical_record":{"source":{"id":"2312.05273","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.QM","submitted_at":"2023-12-07T23:34:03Z","cross_cats_sorted":["cs.AI","q-bio.BM"],"title_canon_sha256":"6617603d101bf894e59f8f025341ac118cf837a1f66b0036721b522e8a4c14ed","abstract_canon_sha256":"5ae93b4e8f94769c352b20a6289fa2957c6cab0cd7623aee1ccf7caeee814862"},"schema_version":"1.0"},"canonical_sha256":"12380e116b48e486a7dbe0e51ee85c62a4d5e053d5cd20660145678cab939030","source":{"kind":"arxiv","id":"2312.05273","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2312.05273","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"arxiv_version","alias_value":"2312.05273v1","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2312.05273","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"pith_short_12","alias_value":"CI4A4ELLJDSI","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"pith_short_16","alias_value":"CI4A4ELLJDSINJ63","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"pith_short_8","alias_value":"CI4A4ELL","created_at":"2026-07-05T07:22:02Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2023:CI4A4ELLJDSINJ634DSR52C4MK","target":"record","payload":{"canonical_record":{"source":{"id":"2312.05273","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.QM","submitted_at":"2023-12-07T23:34:03Z","cross_cats_sorted":["cs.AI","q-bio.BM"],"title_canon_sha256":"6617603d101bf894e59f8f025341ac118cf837a1f66b0036721b522e8a4c14ed","abstract_canon_sha256":"5ae93b4e8f94769c352b20a6289fa2957c6cab0cd7623aee1ccf7caeee814862"},"schema_version":"1.0"},"canonical_sha256":"12380e116b48e486a7dbe0e51ee85c62a4d5e053d5cd20660145678cab939030","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T07:22:02.420924Z","signature_b64":"NrllUQYs4UjeWV7dwqPoURX/gb/a/Zr5grZla1R/D2PhFOhllSxH547xfUlmnqQvfLyd/Geo5qoqaGDqXGQ0Aw==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"12380e116b48e486a7dbe0e51ee85c62a4d5e053d5cd20660145678cab939030","last_reissued_at":"2026-07-05T07:22:02.420393Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T07:22:02.420393Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2312.05273","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":"2026-07-05T07:22:02Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"aprTN7zlQtV9n41fvwK3NGEBncNZ3BeO3epb2zCjdRU8W92qWwJhYjID3MDKhRp8gZAdMtFL3gAPFoXGDEyjDQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-06T04:15:05.156991Z"},"content_sha256":"ab62ceecf8369be05f04ec9c8d2ece6dc58a663a4b7cfb929525037dcfe01976","schema_version":"1.0","event_id":"sha256:ab62ceecf8369be05f04ec9c8d2ece6dc58a663a4b7cfb929525037dcfe01976"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2023:CI4A4ELLJDSINJ634DSR52C4MK","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Evaluating Zero-Shot Scoring for In Vitro Antibody Binding Prediction with Experimental Validation","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cs.AI","q-bio.BM"],"primary_cat":"q-bio.QM","authors_text":"Amir Shanehsazzadeh, Divya Nori, Simon V. Mathis","submitted_at":"2023-12-07T23:34:03Z","abstract_excerpt":"The success of therapeutic antibodies relies on their ability to selectively bind antigens. AI-based antibody design protocols have shown promise in generating epitope-specific designs. Many of these protocols use an inverse folding step to generate diverse sequences given a backbone structure. Due to prohibitive screening costs, it is key to identify candidate sequences likely to bind in vitro. Here, we compare the efficacy of 8 common scoring paradigms based on open-source models to classify antibody designs as binders or non-binders. We evaluate these approaches on a novel surface plasmon r"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2312.05273","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/2312.05273/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":"2026-07-05T07:22:02Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"UlcLxvMFTKqa4tea5s8J47gZKKIu+eQDjyNW4o3XzuArXbr8RjMP0lrFwLhN7462iCC14z1lNhP/0EqU2Y/SCw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-06T04:15:05.157601Z"},"content_sha256":"6b9501ef09612a8256b1206cd5385dbd6f819ea06a739e5881922b710cb72d3a","schema_version":"1.0","event_id":"sha256:6b9501ef09612a8256b1206cd5385dbd6f819ea06a739e5881922b710cb72d3a"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/CI4A4ELLJDSINJ634DSR52C4MK/bundle.json","state_url":"https://pith.science/pith/CI4A4ELLJDSINJ634DSR52C4MK/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/CI4A4ELLJDSINJ634DSR52C4MK/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":"2026-08-06T04:15:05Z","links":{"resolver":"https://pith.science/pith/CI4A4ELLJDSINJ634DSR52C4MK","bundle":"https://pith.science/pith/CI4A4ELLJDSINJ634DSR52C4MK/bundle.json","state":"https://pith.science/pith/CI4A4ELLJDSINJ634DSR52C4MK/state.json","well_known_bundle":"https://pith.science/.well-known/pith/CI4A4ELLJDSINJ634DSR52C4MK/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2023:CI4A4ELLJDSINJ634DSR52C4MK","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":"5ae93b4e8f94769c352b20a6289fa2957c6cab0cd7623aee1ccf7caeee814862","cross_cats_sorted":["cs.AI","q-bio.BM"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.QM","submitted_at":"2023-12-07T23:34:03Z","title_canon_sha256":"6617603d101bf894e59f8f025341ac118cf837a1f66b0036721b522e8a4c14ed"},"schema_version":"1.0","source":{"id":"2312.05273","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2312.05273","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"arxiv_version","alias_value":"2312.05273v1","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2312.05273","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"pith_short_12","alias_value":"CI4A4ELLJDSI","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"pith_short_16","alias_value":"CI4A4ELLJDSINJ63","created_at":"2026-07-05T07:22:02Z"},{"alias_kind":"pith_short_8","alias_value":"CI4A4ELL","created_at":"2026-07-05T07:22:02Z"}],"graph_snapshots":[{"event_id":"sha256:6b9501ef09612a8256b1206cd5385dbd6f819ea06a739e5881922b710cb72d3a","target":"graph","created_at":"2026-07-05T07:22:02Z","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/2312.05273/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"The success of therapeutic antibodies relies on their ability to selectively bind antigens. AI-based antibody design protocols have shown promise in generating epitope-specific designs. Many of these protocols use an inverse folding step to generate diverse sequences given a backbone structure. Due to prohibitive screening costs, it is key to identify candidate sequences likely to bind in vitro. Here, we compare the efficacy of 8 common scoring paradigms based on open-source models to classify antibody designs as binders or non-binders. We evaluate these approaches on a novel surface plasmon r","authors_text":"Amir Shanehsazzadeh, Divya Nori, Simon V. Mathis","cross_cats":["cs.AI","q-bio.BM"],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.QM","submitted_at":"2023-12-07T23:34:03Z","title":"Evaluating Zero-Shot Scoring for In Vitro Antibody Binding Prediction with Experimental Validation"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2312.05273","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:ab62ceecf8369be05f04ec9c8d2ece6dc58a663a4b7cfb929525037dcfe01976","target":"record","created_at":"2026-07-05T07:22:02Z","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":"5ae93b4e8f94769c352b20a6289fa2957c6cab0cd7623aee1ccf7caeee814862","cross_cats_sorted":["cs.AI","q-bio.BM"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.QM","submitted_at":"2023-12-07T23:34:03Z","title_canon_sha256":"6617603d101bf894e59f8f025341ac118cf837a1f66b0036721b522e8a4c14ed"},"schema_version":"1.0","source":{"id":"2312.05273","kind":"arxiv","version":1}},"canonical_sha256":"12380e116b48e486a7dbe0e51ee85c62a4d5e053d5cd20660145678cab939030","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"12380e116b48e486a7dbe0e51ee85c62a4d5e053d5cd20660145678cab939030","first_computed_at":"2026-07-05T07:22:02.420393Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T07:22:02.420393Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"NrllUQYs4UjeWV7dwqPoURX/gb/a/Zr5grZla1R/D2PhFOhllSxH547xfUlmnqQvfLyd/Geo5qoqaGDqXGQ0Aw==","signature_status":"signed_v1","signed_at":"2026-07-05T07:22:02.420924Z","signed_message":"canonical_sha256_bytes"},"source_id":"2312.05273","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:ab62ceecf8369be05f04ec9c8d2ece6dc58a663a4b7cfb929525037dcfe01976","sha256:6b9501ef09612a8256b1206cd5385dbd6f819ea06a739e5881922b710cb72d3a"],"state_sha256":"02eafbb526644fcf0e2a18519144489e47fc52a3450986bfef01cc3b63611fbf"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"7/4rIW5HMf+xYVvQqva/2UqF3YJTfGE6h51GryHuZs/BPt/dz5pVzMxa+UYk9UBHSgTtdoDADVI5t9Ks5ZpOBA==","signed_message":"bundle_sha256_bytes","signed_at":"2026-08-06T04:15:05.163288Z","bundle_sha256":"11f3ec7abbc67a62dff5349699736c5caed1ef0a9a1828af798b898a9e99ad85"}}