{"record_type":"pith_number_record","schema_url":"https://pith.science/schemas/pith-number/v1.json","pith_number":"pith:2025:AMAOEW2RBUHPQVYU3BSH3URTKJ","short_pith_number":"pith:AMAOEW2R","schema_version":"1.0","canonical_sha256":"0300e25b510d0ef85714d8647dd233524da28106821b13cb0b7b316e518a749e","source":{"kind":"arxiv","id":"2502.19395","version":1},"attestation_state":"computed","paper":{"title":"Fast and Accurate Antibody Sequence Design via Structure Retrieval","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cs.LG"],"primary_cat":"q-bio.BM","authors_text":"Biaobin Jiang, Kangfei Zhao, Kun Xie, Ningqiao Huang, Peilin Zhao, Sibo Wang, Wei Liu, Xingyi Zhang","submitted_at":"2025-02-11T13:29:49Z","abstract_excerpt":"Recent advancements in protein design have leveraged diffusion models to generate structural scaffolds, followed by a process known as protein inverse folding, which involves sequence inference on these scaffolds. However, these methodologies face significant challenges when applied to hyper-variable structures such as antibody Complementarity-Determining Regions (CDRs), where sequence inference frequently results in non-functional sequences due to hallucinations. Distinguished from prevailing protein inverse folding approaches, this paper introduces Igseek, a novel structure-retrieval framewo"},"verification_status":{"content_addressed":true,"pith_receipt":true,"author_attested":false,"weak_author_claims":0,"strong_author_claims":0,"externally_anchored":false,"storage_verified":false,"citation_signatures":0,"replication_records":0,"graph_snapshot":true,"references_resolved":false,"formal_links_present":false},"canonical_record":{"source":{"id":"2502.19395","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.BM","submitted_at":"2025-02-11T13:29:49Z","cross_cats_sorted":["cs.LG"],"title_canon_sha256":"d9e84656ea6c176e411ed38a2079e50b32f63827480382f587b34b32176070a5","abstract_canon_sha256":"e715c44ce22e7480ac902ad98708ac915e3a263cc55996d415e38acd1ba3b6c6"},"schema_version":"1.0"},"receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T10:20:31.505914Z","signature_b64":"mhCoB0vLjcWqhTnGfRJsvs83UmhqPjXz7l2324QTrluqEC9Yjkt/zoCr+hKoEq+dgUKa57az59+LKgUSSS3cCA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"0300e25b510d0ef85714d8647dd233524da28106821b13cb0b7b316e518a749e","last_reissued_at":"2026-07-05T10:20:31.505403Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T10:20:31.505403Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"graph_snapshot":{"paper":{"title":"Fast and Accurate Antibody Sequence Design via Structure Retrieval","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cs.LG"],"primary_cat":"q-bio.BM","authors_text":"Biaobin Jiang, Kangfei Zhao, Kun Xie, Ningqiao Huang, Peilin Zhao, Sibo Wang, Wei Liu, Xingyi Zhang","submitted_at":"2025-02-11T13:29:49Z","abstract_excerpt":"Recent advancements in protein design have leveraged diffusion models to generate structural scaffolds, followed by a process known as protein inverse folding, which involves sequence inference on these scaffolds. However, these methodologies face significant challenges when applied to hyper-variable structures such as antibody Complementarity-Determining Regions (CDRs), where sequence inference frequently results in non-functional sequences due to hallucinations. Distinguished from prevailing protein inverse folding approaches, this paper introduces Igseek, a novel structure-retrieval framewo"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2502.19395","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/2502.19395/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"},"aliases":[{"alias_kind":"arxiv","alias_value":"2502.19395","created_at":"2026-07-05T10:20:31.505465+00:00"},{"alias_kind":"arxiv_version","alias_value":"2502.19395v1","created_at":"2026-07-05T10:20:31.505465+00:00"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2502.19395","created_at":"2026-07-05T10:20:31.505465+00:00"},{"alias_kind":"pith_short_12","alias_value":"AMAOEW2RBUHP","created_at":"2026-07-05T10:20:31.505465+00:00"},{"alias_kind":"pith_short_16","alias_value":"AMAOEW2RBUHPQVYU","created_at":"2026-07-05T10:20:31.505465+00:00"},{"alias_kind":"pith_short_8","alias_value":"AMAOEW2R","created_at":"2026-07-05T10:20:31.505465+00:00"}],"events":[],"event_summary":{},"paper_claims":[],"inbound_citations":{"count":3,"internal_anchor_count":0,"sample":[{"citing_arxiv_id":"2605.21600","citing_title":"ConTact: Contact-First Antibody CDR Design via Explicit Interface Reasoning","ref_index":123,"is_internal_anchor":false},{"citing_arxiv_id":"2605.21610","citing_title":"AgForce Enables Antigen-conditioned Generative Antibody Design","ref_index":123,"is_internal_anchor":false},{"citing_arxiv_id":"2605.21485","citing_title":"EvoStruct: Bridging Evolutionary and Structural Priors for Antibody CDR Design via Protein Language Model Adaptation","ref_index":123,"is_internal_anchor":false}]},"formal_canon":{"evidence_count":0,"sample":[],"anchors":[]},"links":{"html":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ","json":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ.json","graph_json":"https://pith.science/api/pith-number/AMAOEW2RBUHPQVYU3BSH3URTKJ/graph.json","events_json":"https://pith.science/api/pith-number/AMAOEW2RBUHPQVYU3BSH3URTKJ/events.json","paper":"https://pith.science/paper/AMAOEW2R"},"agent_actions":{"view_html":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ","download_json":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ.json","view_paper":"https://pith.science/paper/AMAOEW2R","resolve_alias":"https://pith.science/api/pith-number/resolve?arxiv=2502.19395&json=true","fetch_graph":"https://pith.science/api/pith-number/AMAOEW2RBUHPQVYU3BSH3URTKJ/graph.json","fetch_events":"https://pith.science/api/pith-number/AMAOEW2RBUHPQVYU3BSH3URTKJ/events.json","actions":{"anchor_timestamp":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ/action/timestamp_anchor","attest_storage":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ/action/storage_attestation","attest_author":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ/action/author_attestation","sign_citation":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ/action/citation_signature","submit_replication":"https://pith.science/pith/AMAOEW2RBUHPQVYU3BSH3URTKJ/action/replication_record"}},"created_at":"2026-07-05T10:20:31.505465+00:00","updated_at":"2026-07-05T10:20:31.505465+00:00"}