{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2026:NRVBTI6A7TRWDZ4ZNP7UDJSYS7","short_pith_number":"pith:NRVBTI6A","canonical_record":{"source":{"id":"2602.16643","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-02-18T17:32:55Z","cross_cats_sorted":["cond-mat.stat-mech"],"title_canon_sha256":"7071d4bdb222c992bce369bc4ad025355c78f45bcdd459249d917e141aca4779","abstract_canon_sha256":"f8626a743bb11113870f01889ef8dda803e7ce52fb6c1fade243380fcfe71c2d"},"schema_version":"1.0"},"canonical_sha256":"6c6a19a3c0fce361e7996bff41a65897fe1339612e726f3c02904dbf97e3a350","source":{"kind":"arxiv","id":"2602.16643","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2602.16643","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"arxiv_version","alias_value":"2602.16643v1","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2602.16643","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"pith_short_12","alias_value":"NRVBTI6A7TRW","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"pith_short_16","alias_value":"NRVBTI6A7TRWDZ4Z","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"pith_short_8","alias_value":"NRVBTI6A","created_at":"2026-06-25T01:17:50Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2026:NRVBTI6A7TRWDZ4ZNP7UDJSYS7","target":"record","payload":{"canonical_record":{"source":{"id":"2602.16643","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-02-18T17:32:55Z","cross_cats_sorted":["cond-mat.stat-mech"],"title_canon_sha256":"7071d4bdb222c992bce369bc4ad025355c78f45bcdd459249d917e141aca4779","abstract_canon_sha256":"f8626a743bb11113870f01889ef8dda803e7ce52fb6c1fade243380fcfe71c2d"},"schema_version":"1.0"},"canonical_sha256":"6c6a19a3c0fce361e7996bff41a65897fe1339612e726f3c02904dbf97e3a350","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-06-25T01:17:50.727115Z","signature_b64":"oMXT07EXG+/dZPrlA1xCfn7VAyaX2+42VwtfF5X0edaupPkNj4e/SpFTV+py6zB6fRcG9E0Pm5XkO/YMDh1RAQ==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"6c6a19a3c0fce361e7996bff41a65897fe1339612e726f3c02904dbf97e3a350","last_reissued_at":"2026-06-25T01:17:50.726628Z","signature_status":"signed_v1","first_computed_at":"2026-06-25T01:17:50.726628Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2602.16643","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":"2026-06-25T01:17:50Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"513Z/n1oQ/odyOJskgdu4WdnQMaPglKP9cw5NWkwHHBn8k5ee8q4E5JF0H6wmr4+I9p7SDVe1n0JoClpuOvDDg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-03T20:07:33.752389Z"},"content_sha256":"0c03db013b0570436705d7775cdecdddeabb024a4fb73c9a6017ff66a54657e5","schema_version":"1.0","event_id":"sha256:0c03db013b0570436705d7775cdecdddeabb024a4fb73c9a6017ff66a54657e5"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2026:NRVBTI6A7TRWDZ4ZNP7UDJSYS7","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Factorization Machine with Quadratic-Optimization Annealing for RNA Inverse Folding and Evaluation of Binary-Integer Encoding and Nucleotide Assignment","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cond-mat.stat-mech"],"primary_cat":"cs.LG","authors_text":"Shuta Kikuchi, Shu Tanaka","submitted_at":"2026-02-18T17:32:55Z","abstract_excerpt":"The RNA inverse folding problem aims to identify nucleotide sequences that preferentially adopt a given target secondary structure. While various heuristic and machine learning-based approaches have been proposed, many require a large number of sequence evaluations, which limits their applicability when experimental validation is costly. We propose a method to solve the problem using a factorization machine with quadratic-optimization annealing (FMQA). FMQA is a discrete black-box optimization method reported to obtain high-quality solutions with a limited number of evaluations. Applying FMQA "},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2602.16643","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/2602.16643/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":"2026-06-25T01:17:50Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"AeoSiBAW6nGom7JrW9THyB7IWRc0gNAy6jGdA0LM+QDbPuNpOR2BU7YQeuU5884uO3FmCjQNhtzAb+NDyL7OCw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-03T20:07:33.752896Z"},"content_sha256":"f7c8af36dcbb78c796c5effad119d3eca7a7112d5f582f474b3583a969681944","schema_version":"1.0","event_id":"sha256:f7c8af36dcbb78c796c5effad119d3eca7a7112d5f582f474b3583a969681944"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/NRVBTI6A7TRWDZ4ZNP7UDJSYS7/bundle.json","state_url":"https://pith.science/pith/NRVBTI6A7TRWDZ4ZNP7UDJSYS7/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/NRVBTI6A7TRWDZ4ZNP7UDJSYS7/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":"2026-07-03T20:07:33Z","links":{"resolver":"https://pith.science/pith/NRVBTI6A7TRWDZ4ZNP7UDJSYS7","bundle":"https://pith.science/pith/NRVBTI6A7TRWDZ4ZNP7UDJSYS7/bundle.json","state":"https://pith.science/pith/NRVBTI6A7TRWDZ4ZNP7UDJSYS7/state.json","well_known_bundle":"https://pith.science/.well-known/pith/NRVBTI6A7TRWDZ4ZNP7UDJSYS7/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2026:NRVBTI6A7TRWDZ4ZNP7UDJSYS7","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":"f8626a743bb11113870f01889ef8dda803e7ce52fb6c1fade243380fcfe71c2d","cross_cats_sorted":["cond-mat.stat-mech"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-02-18T17:32:55Z","title_canon_sha256":"7071d4bdb222c992bce369bc4ad025355c78f45bcdd459249d917e141aca4779"},"schema_version":"1.0","source":{"id":"2602.16643","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2602.16643","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"arxiv_version","alias_value":"2602.16643v1","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2602.16643","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"pith_short_12","alias_value":"NRVBTI6A7TRW","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"pith_short_16","alias_value":"NRVBTI6A7TRWDZ4Z","created_at":"2026-06-25T01:17:50Z"},{"alias_kind":"pith_short_8","alias_value":"NRVBTI6A","created_at":"2026-06-25T01:17:50Z"}],"graph_snapshots":[{"event_id":"sha256:f7c8af36dcbb78c796c5effad119d3eca7a7112d5f582f474b3583a969681944","target":"graph","created_at":"2026-06-25T01:17:50Z","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/2602.16643/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"The RNA inverse folding problem aims to identify nucleotide sequences that preferentially adopt a given target secondary structure. While various heuristic and machine learning-based approaches have been proposed, many require a large number of sequence evaluations, which limits their applicability when experimental validation is costly. We propose a method to solve the problem using a factorization machine with quadratic-optimization annealing (FMQA). FMQA is a discrete black-box optimization method reported to obtain high-quality solutions with a limited number of evaluations. Applying FMQA ","authors_text":"Shuta Kikuchi, Shu Tanaka","cross_cats":["cond-mat.stat-mech"],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-02-18T17:32:55Z","title":"Factorization Machine with Quadratic-Optimization Annealing for RNA Inverse Folding and Evaluation of Binary-Integer Encoding and Nucleotide Assignment"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2602.16643","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":"sha256:0c03db013b0570436705d7775cdecdddeabb024a4fb73c9a6017ff66a54657e5","target":"record","created_at":"2026-06-25T01:17:50Z","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":"f8626a743bb11113870f01889ef8dda803e7ce52fb6c1fade243380fcfe71c2d","cross_cats_sorted":["cond-mat.stat-mech"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-02-18T17:32:55Z","title_canon_sha256":"7071d4bdb222c992bce369bc4ad025355c78f45bcdd459249d917e141aca4779"},"schema_version":"1.0","source":{"id":"2602.16643","kind":"arxiv","version":1}},"canonical_sha256":"6c6a19a3c0fce361e7996bff41a65897fe1339612e726f3c02904dbf97e3a350","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"6c6a19a3c0fce361e7996bff41a65897fe1339612e726f3c02904dbf97e3a350","first_computed_at":"2026-06-25T01:17:50.726628Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-06-25T01:17:50.726628Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"oMXT07EXG+/dZPrlA1xCfn7VAyaX2+42VwtfF5X0edaupPkNj4e/SpFTV+py6zB6fRcG9E0Pm5XkO/YMDh1RAQ==","signature_status":"signed_v1","signed_at":"2026-06-25T01:17:50.727115Z","signed_message":"canonical_sha256_bytes"},"source_id":"2602.16643","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:0c03db013b0570436705d7775cdecdddeabb024a4fb73c9a6017ff66a54657e5","sha256:f7c8af36dcbb78c796c5effad119d3eca7a7112d5f582f474b3583a969681944"],"state_sha256":"06b200e3a20599b552d950bd709abe33aef6e26ef344d840d163afd8d2ca4980"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"7XWiWeMH/4EWxkZHn3GwLNhxc//xkiz0T2a5/8qhqhW/3/QGZMYW43+K/1nRkuN/lFb5YILvj7vmshDGL42RCQ==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-03T20:07:33.755092Z","bundle_sha256":"627f8a5417f100a45256fe69b2e7027598b3180ab68d9ce561f25905226ced6b"}}