{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2024:273MBBN3AJPLPQH6YPWR6NPN2S","short_pith_number":"pith:273MBBN3","canonical_record":{"source":{"id":"2402.10516","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.BM","submitted_at":"2024-02-16T09:05:02Z","cross_cats_sorted":["cs.AI","cs.LG"],"title_canon_sha256":"e767ef0f32d03065f8f1a3f0da1af37764915858c26b9068caac3dfd11a2a26d","abstract_canon_sha256":"322cda65e76201ab79f7eebfb40dfe168d7b595a28c51e5742ffc91b6adf9b6f"},"schema_version":"1.0"},"canonical_sha256":"d7f6c085bb025eb7c0fec3ed1f35edd4a5d65acd99bb5c8ca1248e36cf2a8aab","source":{"kind":"arxiv","id":"2402.10516","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2402.10516","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"arxiv_version","alias_value":"2402.10516v1","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2402.10516","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"pith_short_12","alias_value":"273MBBN3AJPL","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"pith_short_16","alias_value":"273MBBN3AJPLPQH6","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"pith_short_8","alias_value":"273MBBN3","created_at":"2026-07-05T07:45:57Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2024:273MBBN3AJPLPQH6YPWR6NPN2S","target":"record","payload":{"canonical_record":{"source":{"id":"2402.10516","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.BM","submitted_at":"2024-02-16T09:05:02Z","cross_cats_sorted":["cs.AI","cs.LG"],"title_canon_sha256":"e767ef0f32d03065f8f1a3f0da1af37764915858c26b9068caac3dfd11a2a26d","abstract_canon_sha256":"322cda65e76201ab79f7eebfb40dfe168d7b595a28c51e5742ffc91b6adf9b6f"},"schema_version":"1.0"},"canonical_sha256":"d7f6c085bb025eb7c0fec3ed1f35edd4a5d65acd99bb5c8ca1248e36cf2a8aab","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T07:45:57.335461Z","signature_b64":"dOm9QUU3hjjPZKFsaVSdKx4JYViMTVL4D99re9FDtQnNu5B5nEwqeFk+MW1y4phi9SC748tYVjyL3uCMvDWFDA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"d7f6c085bb025eb7c0fec3ed1f35edd4a5d65acd99bb5c8ca1248e36cf2a8aab","last_reissued_at":"2026-07-05T07:45:57.335002Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T07:45:57.335002Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2402.10516","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":"2026-07-05T07:45:57Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"iyS8qy4U2bXE92OGdqyEChxwMnGk7m7MUHnG4n3GJwXTjP+1VbZjrt/WnQyszUcuZ1+RcMC6flgHmvwKgFXiDA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-07T06:30:37.025839Z"},"content_sha256":"7f76a77a6d3129912a417c595244713a626de5d55666496151f18be98824c320","schema_version":"1.0","event_id":"sha256:7f76a77a6d3129912a417c595244713a626de5d55666496151f18be98824c320"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2024:273MBBN3AJPLPQH6YPWR6NPN2S","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Generative AI for Controllable Protein Sequence Design: A Survey","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cs.AI","cs.LG"],"primary_cat":"q-bio.BM","authors_text":"Chang-Yu Hsieh, Hongxia Xu, Jialu Wu, Mingze Yin, Tingjun Hou, Weize Liu, Yiheng Zhu, Yuqiang Han, Zitai Kong","submitted_at":"2024-02-16T09:05:02Z","abstract_excerpt":"The design of novel protein sequences with targeted functionalities underpins a central theme in protein engineering, impacting diverse fields such as drug discovery and enzymatic engineering. However, navigating this vast combinatorial search space remains a severe challenge due to time and financial constraints. This scenario is rapidly evolving as the transformative advancements in AI, particularly in the realm of generative models and optimization algorithms, have been propelling the protein design field towards an unprecedented revolution. In this survey, we systematically review recent a"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2402.10516","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/2402.10516/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":"2026-07-05T07:45:57Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"mm3bKorQA0yd6SyCEt5tud+1EZo1PVLkuw5hFze9KtaXXnWmlRM1UUJJSFl5ZLBmEQip6b5sM9rwy9nil0CoDw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-07T06:30:37.026497Z"},"content_sha256":"6deca9cd919803ccee518e1e1be93d24869d739b253b07ca85f877ebcade8343","schema_version":"1.0","event_id":"sha256:6deca9cd919803ccee518e1e1be93d24869d739b253b07ca85f877ebcade8343"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/273MBBN3AJPLPQH6YPWR6NPN2S/bundle.json","state_url":"https://pith.science/pith/273MBBN3AJPLPQH6YPWR6NPN2S/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/273MBBN3AJPLPQH6YPWR6NPN2S/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":"2026-07-07T06:30:37Z","links":{"resolver":"https://pith.science/pith/273MBBN3AJPLPQH6YPWR6NPN2S","bundle":"https://pith.science/pith/273MBBN3AJPLPQH6YPWR6NPN2S/bundle.json","state":"https://pith.science/pith/273MBBN3AJPLPQH6YPWR6NPN2S/state.json","well_known_bundle":"https://pith.science/.well-known/pith/273MBBN3AJPLPQH6YPWR6NPN2S/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2024:273MBBN3AJPLPQH6YPWR6NPN2S","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":"322cda65e76201ab79f7eebfb40dfe168d7b595a28c51e5742ffc91b6adf9b6f","cross_cats_sorted":["cs.AI","cs.LG"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.BM","submitted_at":"2024-02-16T09:05:02Z","title_canon_sha256":"e767ef0f32d03065f8f1a3f0da1af37764915858c26b9068caac3dfd11a2a26d"},"schema_version":"1.0","source":{"id":"2402.10516","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2402.10516","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"arxiv_version","alias_value":"2402.10516v1","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2402.10516","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"pith_short_12","alias_value":"273MBBN3AJPL","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"pith_short_16","alias_value":"273MBBN3AJPLPQH6","created_at":"2026-07-05T07:45:57Z"},{"alias_kind":"pith_short_8","alias_value":"273MBBN3","created_at":"2026-07-05T07:45:57Z"}],"graph_snapshots":[{"event_id":"sha256:6deca9cd919803ccee518e1e1be93d24869d739b253b07ca85f877ebcade8343","target":"graph","created_at":"2026-07-05T07:45:57Z","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/2402.10516/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"The design of novel protein sequences with targeted functionalities underpins a central theme in protein engineering, impacting diverse fields such as drug discovery and enzymatic engineering. However, navigating this vast combinatorial search space remains a severe challenge due to time and financial constraints. This scenario is rapidly evolving as the transformative advancements in AI, particularly in the realm of generative models and optimization algorithms, have been propelling the protein design field towards an unprecedented revolution. In this survey, we systematically review recent a","authors_text":"Chang-Yu Hsieh, Hongxia Xu, Jialu Wu, Mingze Yin, Tingjun Hou, Weize Liu, Yiheng Zhu, Yuqiang Han, Zitai Kong","cross_cats":["cs.AI","cs.LG"],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.BM","submitted_at":"2024-02-16T09:05:02Z","title":"Generative AI for Controllable Protein Sequence Design: A Survey"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2402.10516","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":"sha256:7f76a77a6d3129912a417c595244713a626de5d55666496151f18be98824c320","target":"record","created_at":"2026-07-05T07:45:57Z","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":"322cda65e76201ab79f7eebfb40dfe168d7b595a28c51e5742ffc91b6adf9b6f","cross_cats_sorted":["cs.AI","cs.LG"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.BM","submitted_at":"2024-02-16T09:05:02Z","title_canon_sha256":"e767ef0f32d03065f8f1a3f0da1af37764915858c26b9068caac3dfd11a2a26d"},"schema_version":"1.0","source":{"id":"2402.10516","kind":"arxiv","version":1}},"canonical_sha256":"d7f6c085bb025eb7c0fec3ed1f35edd4a5d65acd99bb5c8ca1248e36cf2a8aab","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"d7f6c085bb025eb7c0fec3ed1f35edd4a5d65acd99bb5c8ca1248e36cf2a8aab","first_computed_at":"2026-07-05T07:45:57.335002Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T07:45:57.335002Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"dOm9QUU3hjjPZKFsaVSdKx4JYViMTVL4D99re9FDtQnNu5B5nEwqeFk+MW1y4phi9SC748tYVjyL3uCMvDWFDA==","signature_status":"signed_v1","signed_at":"2026-07-05T07:45:57.335461Z","signed_message":"canonical_sha256_bytes"},"source_id":"2402.10516","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:7f76a77a6d3129912a417c595244713a626de5d55666496151f18be98824c320","sha256:6deca9cd919803ccee518e1e1be93d24869d739b253b07ca85f877ebcade8343"],"state_sha256":"ac114e6f17b47e77b48b5b9d33ec6b0172b08a5caeea8be602cb84a072463c9d"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"BYU0XnyHL4788WKWqxfKdqSiuVlABljY5LLUsu//+R25NWRsrVAn3gsN0V6E0ILJnparQQPi6Hr5n8JM9989Dw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-07T06:30:37.029817Z","bundle_sha256":"8b92eef90e4f60171ae4bccb7e41dc5fe55f3c673da3d6b89b80a4263aecfca8"}}