{"record_type":"pith_number_record","schema_url":"https://pith.science/schemas/pith-number/v1.json","pith_number":"pith:2007:5PEQ4R25G4YC6HR2E7EMRBALAS","short_pith_number":"pith:5PEQ4R25","schema_version":"1.0","canonical_sha256":"ebc90e475d37302f1e3a27c8c8840b048dd0ff9765bf66a075623ceb7584a53e","source":{"kind":"arxiv","id":"q-bio/0701036","version":1},"attestation_state":"computed","paper":{"title":"Parametrized Stochastic Grammars for RNA Secondary Structure Prediction","license":"","headline":"","cross_cats":["math.PR"],"primary_cat":"q-bio.BM","authors_text":"Robert S. Maier","submitted_at":"2007-01-24T16:58:56Z","abstract_excerpt":"We propose a two-level stochastic context-free grammar (SCFG) architecture for parametrized stochastic modeling of a family of RNA sequences, including their secondary structure. A stochastic model of this type can be used for maximum a posteriori estimation of the secondary structure of any new sequence in the family. The proposed SCFG architecture models RNA subsequences comprising paired bases as stochastically weighted Dyck-language words, i.e., as weighted balanced-parenthesis expressions. The length of each run of unpaired bases, forming a loop or a bulge, is taken to have a phase-type d"},"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":"q-bio/0701036","kind":"arxiv","version":1},"metadata":{"license":"","primary_cat":"q-bio.BM","submitted_at":"2007-01-24T16:58:56Z","cross_cats_sorted":["math.PR"],"title_canon_sha256":"c5db2c3317473fedf3529117de4f45ee42f57a248a69ab960048369857a4cdaa","abstract_canon_sha256":"7b5a3a012bb4aef375816ba9b1933a10fe5f9586eca4de0f388ca6dfa07198fb"},"schema_version":"1.0"},"receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T02:57:00.336055Z","signature_b64":"Agjh9NWeetIyQTwdDhBJW/PDpihWwE2IaW1R7MfeiNPryQ798xLp2geCkTWPoE+b5q+KmEcDBM9KUlrJTw7wCA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"ebc90e475d37302f1e3a27c8c8840b048dd0ff9765bf66a075623ceb7584a53e","last_reissued_at":"2026-05-18T02:57:00.335563Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T02:57:00.335563Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"graph_snapshot":{"paper":{"title":"Parametrized Stochastic Grammars for RNA Secondary Structure Prediction","license":"","headline":"","cross_cats":["math.PR"],"primary_cat":"q-bio.BM","authors_text":"Robert S. Maier","submitted_at":"2007-01-24T16:58:56Z","abstract_excerpt":"We propose a two-level stochastic context-free grammar (SCFG) architecture for parametrized stochastic modeling of a family of RNA sequences, including their secondary structure. A stochastic model of this type can be used for maximum a posteriori estimation of the secondary structure of any new sequence in the family. The proposed SCFG architecture models RNA subsequences comprising paired bases as stochastically weighted Dyck-language words, i.e., as weighted balanced-parenthesis expressions. The length of each run of unpaired bases, forming a loop or a bulge, is taken to have a phase-type d"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"q-bio/0701036","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":""},"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":"q-bio/0701036","created_at":"2026-05-18T02:57:00.335643+00:00"},{"alias_kind":"arxiv_version","alias_value":"q-bio/0701036v1","created_at":"2026-05-18T02:57:00.335643+00:00"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.q-bio/0701036","created_at":"2026-05-18T02:57:00.335643+00:00"},{"alias_kind":"pith_short_12","alias_value":"5PEQ4R25G4YC","created_at":"2026-05-18T12:25:55.427421+00:00"},{"alias_kind":"pith_short_16","alias_value":"5PEQ4R25G4YC6HR2","created_at":"2026-05-18T12:25:55.427421+00:00"},{"alias_kind":"pith_short_8","alias_value":"5PEQ4R25","created_at":"2026-05-18T12:25:55.427421+00:00"}],"events":[],"event_summary":{},"paper_claims":[],"inbound_citations":{"count":0,"internal_anchor_count":0,"sample":[]},"formal_canon":{"evidence_count":0,"sample":[],"anchors":[]},"links":{"html":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS","json":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS.json","graph_json":"https://pith.science/api/pith-number/5PEQ4R25G4YC6HR2E7EMRBALAS/graph.json","events_json":"https://pith.science/api/pith-number/5PEQ4R25G4YC6HR2E7EMRBALAS/events.json","paper":"https://pith.science/paper/5PEQ4R25"},"agent_actions":{"view_html":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS","download_json":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS.json","view_paper":"https://pith.science/paper/5PEQ4R25","resolve_alias":"https://pith.science/api/pith-number/resolve?arxiv=q-bio/0701036&json=true","fetch_graph":"https://pith.science/api/pith-number/5PEQ4R25G4YC6HR2E7EMRBALAS/graph.json","fetch_events":"https://pith.science/api/pith-number/5PEQ4R25G4YC6HR2E7EMRBALAS/events.json","actions":{"anchor_timestamp":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS/action/timestamp_anchor","attest_storage":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS/action/storage_attestation","attest_author":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS/action/author_attestation","sign_citation":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS/action/citation_signature","submit_replication":"https://pith.science/pith/5PEQ4R25G4YC6HR2E7EMRBALAS/action/replication_record"}},"created_at":"2026-05-18T02:57:00.335643+00:00","updated_at":"2026-05-18T02:57:00.335643+00:00"}