{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2020:ND5ZQVP5GIOEGI2NVLSXHOUF63","short_pith_number":"pith:ND5ZQVP5","canonical_record":{"source":{"id":"2004.05052","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.soft","submitted_at":"2020-04-10T14:35:27Z","cross_cats_sorted":["cond-mat.mes-hall"],"title_canon_sha256":"816bcc9969c436900023aa4fbd9a43e7d9d0c33e03a07c233cedb7e290aa4183","abstract_canon_sha256":"8568bd83aa3742429cf318ecc5738159af17a548746097fb6903cd53580ec4fb"},"schema_version":"1.0"},"canonical_sha256":"68fb9855fd321c43234daae573ba85f6d62a52558c076c911e20d3ac2fb16293","source":{"kind":"arxiv","id":"2004.05052","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2004.05052","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"arxiv_version","alias_value":"2004.05052v1","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2004.05052","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"pith_short_12","alias_value":"ND5ZQVP5GIOE","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"pith_short_16","alias_value":"ND5ZQVP5GIOEGI2N","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"pith_short_8","alias_value":"ND5ZQVP5","created_at":"2026-07-05T11:43:04Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2020:ND5ZQVP5GIOEGI2NVLSXHOUF63","target":"record","payload":{"canonical_record":{"source":{"id":"2004.05052","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.soft","submitted_at":"2020-04-10T14:35:27Z","cross_cats_sorted":["cond-mat.mes-hall"],"title_canon_sha256":"816bcc9969c436900023aa4fbd9a43e7d9d0c33e03a07c233cedb7e290aa4183","abstract_canon_sha256":"8568bd83aa3742429cf318ecc5738159af17a548746097fb6903cd53580ec4fb"},"schema_version":"1.0"},"canonical_sha256":"68fb9855fd321c43234daae573ba85f6d62a52558c076c911e20d3ac2fb16293","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T11:43:04.383658Z","signature_b64":"YmozGY5O69V2TzaZXjPN1mxVfZNdqbX5S8RDyIVrAojYPeR0Pi+Npb0pQSCLvvDHbcJ9P5jHcspgnYDQ+s0NDg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"68fb9855fd321c43234daae573ba85f6d62a52558c076c911e20d3ac2fb16293","last_reissued_at":"2026-07-05T11:43:04.383074Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T11:43:04.383074Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2004.05052","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":"2026-07-05T11:43:04Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"HyHng4r3getHx35Znf8CQeiY6yFhvnTX8Mwvdu2tnmN2datHDLfU9XO9v2yCsrBoyefXFj1Ug6zRSwlmRf/LDA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-06T15:06:36.835393Z"},"content_sha256":"765001e778818446133eedd7192d8acff8e95212b66f52654570fdd3878fae23","schema_version":"1.0","event_id":"sha256:765001e778818446133eedd7192d8acff8e95212b66f52654570fdd3878fae23"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2020:ND5ZQVP5GIOEGI2NVLSXHOUF63","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"The oxDNA coarse-grained model as a tool to simulate DNA origami","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["cond-mat.mes-hall"],"primary_cat":"cond-mat.soft","authors_text":"Ard A. Louis, Benedict E. K. Snodin, Chak Kui Wong, Domen Pre\\v{s}ern, Erik Benson, Erik Poppleton, Flavio Romano, Hannah Fowler, Joakim Bohlin, John S. Schreck, Jonathan P. K. Doye, Lorenzo Rovigatti, Megan C. Engel, Michael Matthies, Petr \\v{S}ulc","submitted_at":"2020-04-10T14:35:27Z","abstract_excerpt":"This chapter introduces how to run molecular dynamics simulations for DNA origami using the oxDNA coarse-grained model."},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2004.05052","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/2004.05052/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":"2026-07-05T11:43:04Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"yvVGJXi0hsYpQGDoz+jl2SeoxdKKc1yEZ+Q17CDS6s1EItHzN9xwhM5xwhrXzKAJb7ankSH6IlnDzO90JaXKCg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-06T15:06:36.835786Z"},"content_sha256":"c8c56d40b13809a3a3f80b089157617ba34e253843eeaad554af84c3b9f2856a","schema_version":"1.0","event_id":"sha256:c8c56d40b13809a3a3f80b089157617ba34e253843eeaad554af84c3b9f2856a"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/ND5ZQVP5GIOEGI2NVLSXHOUF63/bundle.json","state_url":"https://pith.science/pith/ND5ZQVP5GIOEGI2NVLSXHOUF63/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/ND5ZQVP5GIOEGI2NVLSXHOUF63/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":"2026-07-06T15:06:36Z","links":{"resolver":"https://pith.science/pith/ND5ZQVP5GIOEGI2NVLSXHOUF63","bundle":"https://pith.science/pith/ND5ZQVP5GIOEGI2NVLSXHOUF63/bundle.json","state":"https://pith.science/pith/ND5ZQVP5GIOEGI2NVLSXHOUF63/state.json","well_known_bundle":"https://pith.science/.well-known/pith/ND5ZQVP5GIOEGI2NVLSXHOUF63/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2020:ND5ZQVP5GIOEGI2NVLSXHOUF63","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":"8568bd83aa3742429cf318ecc5738159af17a548746097fb6903cd53580ec4fb","cross_cats_sorted":["cond-mat.mes-hall"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.soft","submitted_at":"2020-04-10T14:35:27Z","title_canon_sha256":"816bcc9969c436900023aa4fbd9a43e7d9d0c33e03a07c233cedb7e290aa4183"},"schema_version":"1.0","source":{"id":"2004.05052","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2004.05052","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"arxiv_version","alias_value":"2004.05052v1","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2004.05052","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"pith_short_12","alias_value":"ND5ZQVP5GIOE","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"pith_short_16","alias_value":"ND5ZQVP5GIOEGI2N","created_at":"2026-07-05T11:43:04Z"},{"alias_kind":"pith_short_8","alias_value":"ND5ZQVP5","created_at":"2026-07-05T11:43:04Z"}],"graph_snapshots":[{"event_id":"sha256:c8c56d40b13809a3a3f80b089157617ba34e253843eeaad554af84c3b9f2856a","target":"graph","created_at":"2026-07-05T11:43:04Z","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/2004.05052/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"This chapter introduces how to run molecular dynamics simulations for DNA origami using the oxDNA coarse-grained model.","authors_text":"Ard A. Louis, Benedict E. K. Snodin, Chak Kui Wong, Domen Pre\\v{s}ern, Erik Benson, Erik Poppleton, Flavio Romano, Hannah Fowler, Joakim Bohlin, John S. Schreck, Jonathan P. K. Doye, Lorenzo Rovigatti, Megan C. Engel, Michael Matthies, Petr \\v{S}ulc","cross_cats":["cond-mat.mes-hall"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.soft","submitted_at":"2020-04-10T14:35:27Z","title":"The oxDNA coarse-grained model as a tool to simulate DNA origami"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2004.05052","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":"sha256:765001e778818446133eedd7192d8acff8e95212b66f52654570fdd3878fae23","target":"record","created_at":"2026-07-05T11:43:04Z","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":"8568bd83aa3742429cf318ecc5738159af17a548746097fb6903cd53580ec4fb","cross_cats_sorted":["cond-mat.mes-hall"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.soft","submitted_at":"2020-04-10T14:35:27Z","title_canon_sha256":"816bcc9969c436900023aa4fbd9a43e7d9d0c33e03a07c233cedb7e290aa4183"},"schema_version":"1.0","source":{"id":"2004.05052","kind":"arxiv","version":1}},"canonical_sha256":"68fb9855fd321c43234daae573ba85f6d62a52558c076c911e20d3ac2fb16293","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"68fb9855fd321c43234daae573ba85f6d62a52558c076c911e20d3ac2fb16293","first_computed_at":"2026-07-05T11:43:04.383074Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T11:43:04.383074Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"YmozGY5O69V2TzaZXjPN1mxVfZNdqbX5S8RDyIVrAojYPeR0Pi+Npb0pQSCLvvDHbcJ9P5jHcspgnYDQ+s0NDg==","signature_status":"signed_v1","signed_at":"2026-07-05T11:43:04.383658Z","signed_message":"canonical_sha256_bytes"},"source_id":"2004.05052","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:765001e778818446133eedd7192d8acff8e95212b66f52654570fdd3878fae23","sha256:c8c56d40b13809a3a3f80b089157617ba34e253843eeaad554af84c3b9f2856a"],"state_sha256":"a01ff199e1695a673ae33e0a95f8ea6aa25050899ccae8499ef55c89e3ce6696"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"ofkj1t2ly0JWkppmm582KjVwzLQnPM96j+7lZIKdIjcY+XDSckE++REJNzwz4dfPthYmrtQCplepPuttMy/vBw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-06T15:06:36.837775Z","bundle_sha256":"a4c05d9072f60e03a9b1ed8b0a82dac5675863b31cc3277cc727342735d7d7b4"}}