{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2012:FQR67WW3INRHVC35G3O3NT5ZHD","short_pith_number":"pith:FQR67WW3","canonical_record":{"source":{"id":"1207.6431","kind":"arxiv","version":2},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2012-07-26T23:19:10Z","cross_cats_sorted":["physics.bio-ph"],"title_canon_sha256":"42e80ba4d43345068009ea056740ccab31ec7952a19a8c3ba42d4548ab253214","abstract_canon_sha256":"e87acc5c82e1ab80471f6e29da750f345204963bbe72f8606dcdc9c33bb056ce"},"schema_version":"1.0"},"canonical_sha256":"2c23efdadb43627a8b7d36ddb6cfb938ec524e43c7925fcdd34dad3eaaba8af6","source":{"kind":"arxiv","id":"1207.6431","version":2},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1207.6431","created_at":"2026-05-18T01:56:06Z"},{"alias_kind":"arxiv_version","alias_value":"1207.6431v2","created_at":"2026-05-18T01:56:06Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1207.6431","created_at":"2026-05-18T01:56:06Z"},{"alias_kind":"pith_short_12","alias_value":"FQR67WW3INRH","created_at":"2026-05-18T12:27:06Z"},{"alias_kind":"pith_short_16","alias_value":"FQR67WW3INRHVC35","created_at":"2026-05-18T12:27:06Z"},{"alias_kind":"pith_short_8","alias_value":"FQR67WW3","created_at":"2026-05-18T12:27:06Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2012:FQR67WW3INRHVC35G3O3NT5ZHD","target":"record","payload":{"canonical_record":{"source":{"id":"1207.6431","kind":"arxiv","version":2},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2012-07-26T23:19:10Z","cross_cats_sorted":["physics.bio-ph"],"title_canon_sha256":"42e80ba4d43345068009ea056740ccab31ec7952a19a8c3ba42d4548ab253214","abstract_canon_sha256":"e87acc5c82e1ab80471f6e29da750f345204963bbe72f8606dcdc9c33bb056ce"},"schema_version":"1.0"},"canonical_sha256":"2c23efdadb43627a8b7d36ddb6cfb938ec524e43c7925fcdd34dad3eaaba8af6","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T01:56:06.845681Z","signature_b64":"plnIlNu2fyegYUVK2v701pyx7ykQmBV/VDeVSJVWAaWDBqpfNCdr3/q2uY7JzBbvXTRElX2VOpiL138Wrq/hAw==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"2c23efdadb43627a8b7d36ddb6cfb938ec524e43c7925fcdd34dad3eaaba8af6","last_reissued_at":"2026-05-18T01:56:06.845103Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T01:56:06.845103Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"1207.6431","source_version":2,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-05-18T01:56:06Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"FyKsyUyuIKLBYpwsJDY3ij49wGxAkQ26zszqkmNqiyhrZg/ak7c/eh23Ji5ReCdlXXjPVsLMbgqn2zno5pkbCQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-28T22:50:18.385612Z"},"content_sha256":"ec9a72c87efd1d68ab514744f9f49f511764afec6ed78fbadf95d0725b5e7419","schema_version":"1.0","event_id":"sha256:ec9a72c87efd1d68ab514744f9f49f511764afec6ed78fbadf95d0725b5e7419"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2012:FQR67WW3INRHVC35G3O3NT5ZHD","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Optimal reconstruction of the folding landscape using differential energy surface analysis","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["physics.bio-ph"],"primary_cat":"q-bio.BM","authors_text":"Arthur La Porta, Michel de Messieres, Natalia A. Denesyuk","submitted_at":"2012-07-26T23:19:10Z","abstract_excerpt":"In experiments and in simulations, the free energy of a state of a system can be determined from the probability that the state is occupied. However, it is often necessary to impose a biasing potential on the system so that high energy states are sampled with sufficient frequency. The unbiased energy is typically obtained from the data using the weighted histogram analysis method (WHAM). Here we present differential energy surface analysis (DESA), in which the gradient of the energy surface, dE/dx, is extracted from data taken with a series of harmonic biasing potentials. It is shown that DESA"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1207.6431","kind":"arxiv","version":2},"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"},"verdict_id":null},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-05-18T01:56:06Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"H2ooztK8PSlQ62QcNpANBKsns5JgfYKWouTdg7/d0prTiy06D1tBtrisBjFr93ie4zj5zBNSXPYSVwyMagtfBw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-28T22:50:18.385970Z"},"content_sha256":"1bfa1f916b96a6a928eb3c63f20f1a1b8f733429f55996941116aa9ba02d42b7","schema_version":"1.0","event_id":"sha256:1bfa1f916b96a6a928eb3c63f20f1a1b8f733429f55996941116aa9ba02d42b7"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/FQR67WW3INRHVC35G3O3NT5ZHD/bundle.json","state_url":"https://pith.science/pith/FQR67WW3INRHVC35G3O3NT5ZHD/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/FQR67WW3INRHVC35G3O3NT5ZHD/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":"2026-06-28T22:50:18Z","links":{"resolver":"https://pith.science/pith/FQR67WW3INRHVC35G3O3NT5ZHD","bundle":"https://pith.science/pith/FQR67WW3INRHVC35G3O3NT5ZHD/bundle.json","state":"https://pith.science/pith/FQR67WW3INRHVC35G3O3NT5ZHD/state.json","well_known_bundle":"https://pith.science/.well-known/pith/FQR67WW3INRHVC35G3O3NT5ZHD/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2012:FQR67WW3INRHVC35G3O3NT5ZHD","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":"e87acc5c82e1ab80471f6e29da750f345204963bbe72f8606dcdc9c33bb056ce","cross_cats_sorted":["physics.bio-ph"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2012-07-26T23:19:10Z","title_canon_sha256":"42e80ba4d43345068009ea056740ccab31ec7952a19a8c3ba42d4548ab253214"},"schema_version":"1.0","source":{"id":"1207.6431","kind":"arxiv","version":2}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1207.6431","created_at":"2026-05-18T01:56:06Z"},{"alias_kind":"arxiv_version","alias_value":"1207.6431v2","created_at":"2026-05-18T01:56:06Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1207.6431","created_at":"2026-05-18T01:56:06Z"},{"alias_kind":"pith_short_12","alias_value":"FQR67WW3INRH","created_at":"2026-05-18T12:27:06Z"},{"alias_kind":"pith_short_16","alias_value":"FQR67WW3INRHVC35","created_at":"2026-05-18T12:27:06Z"},{"alias_kind":"pith_short_8","alias_value":"FQR67WW3","created_at":"2026-05-18T12:27:06Z"}],"graph_snapshots":[{"event_id":"sha256:1bfa1f916b96a6a928eb3c63f20f1a1b8f733429f55996941116aa9ba02d42b7","target":"graph","created_at":"2026-05-18T01:56:06Z","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"},"paper":{"abstract_excerpt":"In experiments and in simulations, the free energy of a state of a system can be determined from the probability that the state is occupied. However, it is often necessary to impose a biasing potential on the system so that high energy states are sampled with sufficient frequency. The unbiased energy is typically obtained from the data using the weighted histogram analysis method (WHAM). Here we present differential energy surface analysis (DESA), in which the gradient of the energy surface, dE/dx, is extracted from data taken with a series of harmonic biasing potentials. It is shown that DESA","authors_text":"Arthur La Porta, Michel de Messieres, Natalia A. Denesyuk","cross_cats":["physics.bio-ph"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2012-07-26T23:19:10Z","title":"Optimal reconstruction of the folding landscape using differential energy surface analysis"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1207.6431","kind":"arxiv","version":2},"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:ec9a72c87efd1d68ab514744f9f49f511764afec6ed78fbadf95d0725b5e7419","target":"record","created_at":"2026-05-18T01:56:06Z","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":"e87acc5c82e1ab80471f6e29da750f345204963bbe72f8606dcdc9c33bb056ce","cross_cats_sorted":["physics.bio-ph"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2012-07-26T23:19:10Z","title_canon_sha256":"42e80ba4d43345068009ea056740ccab31ec7952a19a8c3ba42d4548ab253214"},"schema_version":"1.0","source":{"id":"1207.6431","kind":"arxiv","version":2}},"canonical_sha256":"2c23efdadb43627a8b7d36ddb6cfb938ec524e43c7925fcdd34dad3eaaba8af6","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"2c23efdadb43627a8b7d36ddb6cfb938ec524e43c7925fcdd34dad3eaaba8af6","first_computed_at":"2026-05-18T01:56:06.845103Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T01:56:06.845103Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"plnIlNu2fyegYUVK2v701pyx7ykQmBV/VDeVSJVWAaWDBqpfNCdr3/q2uY7JzBbvXTRElX2VOpiL138Wrq/hAw==","signature_status":"signed_v1","signed_at":"2026-05-18T01:56:06.845681Z","signed_message":"canonical_sha256_bytes"},"source_id":"1207.6431","source_kind":"arxiv","source_version":2}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:ec9a72c87efd1d68ab514744f9f49f511764afec6ed78fbadf95d0725b5e7419","sha256:1bfa1f916b96a6a928eb3c63f20f1a1b8f733429f55996941116aa9ba02d42b7"],"state_sha256":"8bd5ea6034ac599be1604c3999962f32341eea9d7b0526a3f0389ba208a1458e"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"n/aPd0f0LFdloML+Pm7A30BIYQ/snsenk0GbJYKTtVpBa5mtIG0KBgt41vy6P7qDRQ43doH12nsVS/jF+V2nBw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-28T22:50:18.387768Z","bundle_sha256":"b839e3dbffe3d5a69638a2883bfa44e7c72a56f958f3bf7bda09a1667ce538f5"}}