{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2026:ON6Q3JY73RW5J62CQNJJVR3SSF","short_pith_number":"pith:ON6Q3JY7","canonical_record":{"source":{"id":"2605.24520","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.GN","submitted_at":"2026-05-23T11:15:53Z","cross_cats_sorted":["cs.LG"],"title_canon_sha256":"cd65514f7c53cef74fd57df1bc2f3194a75c8b14112adb8e90fefed2fc93baa3","abstract_canon_sha256":"72a3b32aef72e95ecf2ee6f72f63c309453a6d46761b81cf698480a21564ff6a"},"schema_version":"1.0"},"canonical_sha256":"737d0da71fdc6dd4fb4283529ac772916b34f57ef0d4f1b1cb1859ef2ac721d7","source":{"kind":"arxiv","id":"2605.24520","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2605.24520","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"arxiv_version","alias_value":"2605.24520v1","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2605.24520","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"pith_short_12","alias_value":"ON6Q3JY73RW5","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"pith_short_16","alias_value":"ON6Q3JY73RW5J62C","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"pith_short_8","alias_value":"ON6Q3JY7","created_at":"2026-05-26T01:03:44Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2026:ON6Q3JY73RW5J62CQNJJVR3SSF","target":"record","payload":{"canonical_record":{"source":{"id":"2605.24520","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.GN","submitted_at":"2026-05-23T11:15:53Z","cross_cats_sorted":["cs.LG"],"title_canon_sha256":"cd65514f7c53cef74fd57df1bc2f3194a75c8b14112adb8e90fefed2fc93baa3","abstract_canon_sha256":"72a3b32aef72e95ecf2ee6f72f63c309453a6d46761b81cf698480a21564ff6a"},"schema_version":"1.0"},"canonical_sha256":"737d0da71fdc6dd4fb4283529ac772916b34f57ef0d4f1b1cb1859ef2ac721d7","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-26T01:03:44.156747Z","signature_b64":"v1J3PTXPtVj4lef57NNFSHXWnl4qIAooz7PVWOyH06PwWtsNSnQFk51mHes5rcvKW5vwWtX9ee4fyMsp/3uyCA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"737d0da71fdc6dd4fb4283529ac772916b34f57ef0d4f1b1cb1859ef2ac721d7","last_reissued_at":"2026-05-26T01:03:44.155881Z","signature_status":"signed_v1","first_computed_at":"2026-05-26T01:03:44.155881Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2605.24520","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":"2026-05-26T01:03:44Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"Y6z5Y06mZ2QINg2Pd4s0bEkNzDT+zuDd4I7skIoezKLwHTdXTfCgtJT0GMSWgjwWFyIluB8L0dP8+UpUsHd+AA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-08T10:21:20.731815Z"},"content_sha256":"8e4e63c1024826d69f13f8c41c55538b646345d348ff62d2e4c5f470dbd60823","schema_version":"1.0","event_id":"sha256:8e4e63c1024826d69f13f8c41c55538b646345d348ff62d2e4c5f470dbd60823"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2026:ON6Q3JY73RW5J62CQNJJVR3SSF","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"AnnotateMissense: a genome-wide annotation and benchmarking framework for missense pathogenicity prediction","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cs.LG"],"primary_cat":"q-bio.GN","authors_text":"David B. Ascher, Muhammad Muneeb","submitted_at":"2026-05-23T11:15:53Z","abstract_excerpt":"Missense variant interpretation remains challenging because pathogenicity depends on heterogeneous evidence from population frequency, evolutionary conservation, transcript context, amino acid substitution severity, prior pathogenicity predictors and protein-language-model-derived features. We present AnnotateMissense, a scalable annotation, benchmarking and genome-wide prediction framework for missense variant interpretation. AnnotateMissense integrates hg38 missense variants derived from dbNSFP v5.1 with ANNOVAR annotations, dbNSFP transcript/protein descriptors, AlphaMissense scores, ESM-de"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2605.24520","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/2605.24520/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":"2026-05-26T01:03:44Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"td4Wkj0RrH+5qyfkhIYCSI22qu+43fOsDMiVHC8ZtYGmF5Rv+x+Vst8p45sHfU/dt31NIwy8t0J6f8IfDFtYAg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-08T10:21:20.732173Z"},"content_sha256":"b5e6e19c2bd55022444f64ed864c8829884b123bbced500c1cc3744586498a20","schema_version":"1.0","event_id":"sha256:b5e6e19c2bd55022444f64ed864c8829884b123bbced500c1cc3744586498a20"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/ON6Q3JY73RW5J62CQNJJVR3SSF/bundle.json","state_url":"https://pith.science/pith/ON6Q3JY73RW5J62CQNJJVR3SSF/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/ON6Q3JY73RW5J62CQNJJVR3SSF/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":"2026-06-08T10:21:20Z","links":{"resolver":"https://pith.science/pith/ON6Q3JY73RW5J62CQNJJVR3SSF","bundle":"https://pith.science/pith/ON6Q3JY73RW5J62CQNJJVR3SSF/bundle.json","state":"https://pith.science/pith/ON6Q3JY73RW5J62CQNJJVR3SSF/state.json","well_known_bundle":"https://pith.science/.well-known/pith/ON6Q3JY73RW5J62CQNJJVR3SSF/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2026:ON6Q3JY73RW5J62CQNJJVR3SSF","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":"72a3b32aef72e95ecf2ee6f72f63c309453a6d46761b81cf698480a21564ff6a","cross_cats_sorted":["cs.LG"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.GN","submitted_at":"2026-05-23T11:15:53Z","title_canon_sha256":"cd65514f7c53cef74fd57df1bc2f3194a75c8b14112adb8e90fefed2fc93baa3"},"schema_version":"1.0","source":{"id":"2605.24520","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2605.24520","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"arxiv_version","alias_value":"2605.24520v1","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2605.24520","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"pith_short_12","alias_value":"ON6Q3JY73RW5","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"pith_short_16","alias_value":"ON6Q3JY73RW5J62C","created_at":"2026-05-26T01:03:44Z"},{"alias_kind":"pith_short_8","alias_value":"ON6Q3JY7","created_at":"2026-05-26T01:03:44Z"}],"graph_snapshots":[{"event_id":"sha256:b5e6e19c2bd55022444f64ed864c8829884b123bbced500c1cc3744586498a20","target":"graph","created_at":"2026-05-26T01:03:44Z","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/2605.24520/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Missense variant interpretation remains challenging because pathogenicity depends on heterogeneous evidence from population frequency, evolutionary conservation, transcript context, amino acid substitution severity, prior pathogenicity predictors and protein-language-model-derived features. We present AnnotateMissense, a scalable annotation, benchmarking and genome-wide prediction framework for missense variant interpretation. AnnotateMissense integrates hg38 missense variants derived from dbNSFP v5.1 with ANNOVAR annotations, dbNSFP transcript/protein descriptors, AlphaMissense scores, ESM-de","authors_text":"David B. Ascher, Muhammad Muneeb","cross_cats":["cs.LG"],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.GN","submitted_at":"2026-05-23T11:15:53Z","title":"AnnotateMissense: a genome-wide annotation and benchmarking framework for missense pathogenicity prediction"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2605.24520","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":"sha256:8e4e63c1024826d69f13f8c41c55538b646345d348ff62d2e4c5f470dbd60823","target":"record","created_at":"2026-05-26T01:03:44Z","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":"72a3b32aef72e95ecf2ee6f72f63c309453a6d46761b81cf698480a21564ff6a","cross_cats_sorted":["cs.LG"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.GN","submitted_at":"2026-05-23T11:15:53Z","title_canon_sha256":"cd65514f7c53cef74fd57df1bc2f3194a75c8b14112adb8e90fefed2fc93baa3"},"schema_version":"1.0","source":{"id":"2605.24520","kind":"arxiv","version":1}},"canonical_sha256":"737d0da71fdc6dd4fb4283529ac772916b34f57ef0d4f1b1cb1859ef2ac721d7","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"737d0da71fdc6dd4fb4283529ac772916b34f57ef0d4f1b1cb1859ef2ac721d7","first_computed_at":"2026-05-26T01:03:44.155881Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-26T01:03:44.155881Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"v1J3PTXPtVj4lef57NNFSHXWnl4qIAooz7PVWOyH06PwWtsNSnQFk51mHes5rcvKW5vwWtX9ee4fyMsp/3uyCA==","signature_status":"signed_v1","signed_at":"2026-05-26T01:03:44.156747Z","signed_message":"canonical_sha256_bytes"},"source_id":"2605.24520","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:8e4e63c1024826d69f13f8c41c55538b646345d348ff62d2e4c5f470dbd60823","sha256:b5e6e19c2bd55022444f64ed864c8829884b123bbced500c1cc3744586498a20"],"state_sha256":"900187ba590eef016a70093e715f62b76546e6b13ae26ca0ef19eacae422e686"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"SODTle5QXMOzBrMIb2JltdypsKv13jWYW7g9IieA1Rjl46qcmAdEt3ITusPip2+vE6S4FDqLZHzvbxBPASOmCg==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-08T10:21:20.734105Z","bundle_sha256":"8c43f49ba87d1febc7672196e201eae50668eed2cf19578178916a1b05a911d8"}}