{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2020:EJ2F2XONT3CELYJHJPOKMCZGWF","short_pith_number":"pith:EJ2F2XON","canonical_record":{"source":{"id":"2005.01804","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by-sa/4.0/","primary_cat":"q-bio.QM","submitted_at":"2020-05-01T15:55:18Z","cross_cats_sorted":[],"title_canon_sha256":"39210da1bc5d26930def998e25a5d0e234e87445d45d99655e9290d2fec7325b","abstract_canon_sha256":"fdfda01a990f7388635e3ae1b7f7167df12ef6c03f29735b9e27d1762d8ac90e"},"schema_version":"1.0"},"canonical_sha256":"22745d5dcd9ec445e1274bdca60b26b15c6507f63da8883adfce3309ba97f4ef","source":{"kind":"arxiv","id":"2005.01804","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2005.01804","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"arxiv_version","alias_value":"2005.01804v1","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2005.01804","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"pith_short_12","alias_value":"EJ2F2XONT3CE","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"pith_short_16","alias_value":"EJ2F2XONT3CELYJH","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"pith_short_8","alias_value":"EJ2F2XON","created_at":"2026-07-05T01:42:54Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2020:EJ2F2XONT3CELYJHJPOKMCZGWF","target":"record","payload":{"canonical_record":{"source":{"id":"2005.01804","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by-sa/4.0/","primary_cat":"q-bio.QM","submitted_at":"2020-05-01T15:55:18Z","cross_cats_sorted":[],"title_canon_sha256":"39210da1bc5d26930def998e25a5d0e234e87445d45d99655e9290d2fec7325b","abstract_canon_sha256":"fdfda01a990f7388635e3ae1b7f7167df12ef6c03f29735b9e27d1762d8ac90e"},"schema_version":"1.0"},"canonical_sha256":"22745d5dcd9ec445e1274bdca60b26b15c6507f63da8883adfce3309ba97f4ef","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T01:42:54.457748Z","signature_b64":"hj0XA0xZ0kePnpWGhT7bdJJ5IDUO3qkJ8e1KtFTFeA4yxTdPurztvozgxLkyAi+a/zHuztFh/q5tNnEdDAR/AQ==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"22745d5dcd9ec445e1274bdca60b26b15c6507f63da8883adfce3309ba97f4ef","last_reissued_at":"2026-07-05T01:42:54.457408Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T01:42:54.457408Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2005.01804","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":"2026-07-05T01:42:54Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"E4UJKqJqDbb4dvUU5mjmaDcP4I06NVm4WGSHU96SUMRHgyji9ofYulAx80p3dCBeniQLrbMpMwwleyU4fplhBA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-25T21:35:49.761441Z"},"content_sha256":"9469ddfb4997b2962672b31c4cd24039273152779b7d70dc2cf30652f68e7b2f","schema_version":"1.0","event_id":"sha256:9469ddfb4997b2962672b31c4cd24039273152779b7d70dc2cf30652f68e7b2f"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2020:EJ2F2XONT3CELYJHJPOKMCZGWF","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models","license":"http://creativecommons.org/licenses/by-sa/4.0/","headline":"","cross_cats":[],"primary_cat":"q-bio.QM","authors_text":"David S. Goodsell, Deng Luo, Ivan Viola, Ludovic Autin, Martina Maritan, Ngan Nguyen, Ondrej Strnad, Peter Mindek, Peter Wonka, Ruwayda Alharbi, Tobias Klein","submitted_at":"2020-05-01T15:55:18Z","abstract_excerpt":"We present a new technique for rapid modeling and construction of scientifically accurate mesoscale biological models. Resulting 3D models are based on few 2D microscopy scans and the latest knowledge about the biological entity represented as a set of geometric relationships. Our new technique is based on statistical and rule-based modeling approaches that are rapid to author, fast to construct, and easy to revise. From a few 2D microscopy scans, we learn statistical properties of various structural aspects, such as the outer membrane shape, spatial properties and distribution characteristics"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2005.01804","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/2005.01804/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":"2026-07-05T01:42:54Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"ziS3s8cSJXZ2DylyycF2moBUDT7wGvsIvbL7xgoEF7wj1wIaU2b0ctbKrPGZCCao0+qVN3YIeqSLh2QPVWkMBA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-25T21:35:49.761821Z"},"content_sha256":"3599dd8a79ab5637f52bc643737b36d438d513e8309fc0468b39ac541b32af5e","schema_version":"1.0","event_id":"sha256:3599dd8a79ab5637f52bc643737b36d438d513e8309fc0468b39ac541b32af5e"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/EJ2F2XONT3CELYJHJPOKMCZGWF/bundle.json","state_url":"https://pith.science/pith/EJ2F2XONT3CELYJHJPOKMCZGWF/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/EJ2F2XONT3CELYJHJPOKMCZGWF/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":"2026-07-25T21:35:49Z","links":{"resolver":"https://pith.science/pith/EJ2F2XONT3CELYJHJPOKMCZGWF","bundle":"https://pith.science/pith/EJ2F2XONT3CELYJHJPOKMCZGWF/bundle.json","state":"https://pith.science/pith/EJ2F2XONT3CELYJHJPOKMCZGWF/state.json","well_known_bundle":"https://pith.science/.well-known/pith/EJ2F2XONT3CELYJHJPOKMCZGWF/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2020:EJ2F2XONT3CELYJHJPOKMCZGWF","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":"fdfda01a990f7388635e3ae1b7f7167df12ef6c03f29735b9e27d1762d8ac90e","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by-sa/4.0/","primary_cat":"q-bio.QM","submitted_at":"2020-05-01T15:55:18Z","title_canon_sha256":"39210da1bc5d26930def998e25a5d0e234e87445d45d99655e9290d2fec7325b"},"schema_version":"1.0","source":{"id":"2005.01804","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2005.01804","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"arxiv_version","alias_value":"2005.01804v1","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2005.01804","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"pith_short_12","alias_value":"EJ2F2XONT3CE","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"pith_short_16","alias_value":"EJ2F2XONT3CELYJH","created_at":"2026-07-05T01:42:54Z"},{"alias_kind":"pith_short_8","alias_value":"EJ2F2XON","created_at":"2026-07-05T01:42:54Z"}],"graph_snapshots":[{"event_id":"sha256:3599dd8a79ab5637f52bc643737b36d438d513e8309fc0468b39ac541b32af5e","target":"graph","created_at":"2026-07-05T01:42:54Z","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/2005.01804/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"We present a new technique for rapid modeling and construction of scientifically accurate mesoscale biological models. Resulting 3D models are based on few 2D microscopy scans and the latest knowledge about the biological entity represented as a set of geometric relationships. Our new technique is based on statistical and rule-based modeling approaches that are rapid to author, fast to construct, and easy to revise. From a few 2D microscopy scans, we learn statistical properties of various structural aspects, such as the outer membrane shape, spatial properties and distribution characteristics","authors_text":"David S. Goodsell, Deng Luo, Ivan Viola, Ludovic Autin, Martina Maritan, Ngan Nguyen, Ondrej Strnad, Peter Mindek, Peter Wonka, Ruwayda Alharbi, Tobias Klein","cross_cats":[],"headline":"","license":"http://creativecommons.org/licenses/by-sa/4.0/","primary_cat":"q-bio.QM","submitted_at":"2020-05-01T15:55:18Z","title":"Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2005.01804","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":"sha256:9469ddfb4997b2962672b31c4cd24039273152779b7d70dc2cf30652f68e7b2f","target":"record","created_at":"2026-07-05T01:42:54Z","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":"fdfda01a990f7388635e3ae1b7f7167df12ef6c03f29735b9e27d1762d8ac90e","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by-sa/4.0/","primary_cat":"q-bio.QM","submitted_at":"2020-05-01T15:55:18Z","title_canon_sha256":"39210da1bc5d26930def998e25a5d0e234e87445d45d99655e9290d2fec7325b"},"schema_version":"1.0","source":{"id":"2005.01804","kind":"arxiv","version":1}},"canonical_sha256":"22745d5dcd9ec445e1274bdca60b26b15c6507f63da8883adfce3309ba97f4ef","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"22745d5dcd9ec445e1274bdca60b26b15c6507f63da8883adfce3309ba97f4ef","first_computed_at":"2026-07-05T01:42:54.457408Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T01:42:54.457408Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"hj0XA0xZ0kePnpWGhT7bdJJ5IDUO3qkJ8e1KtFTFeA4yxTdPurztvozgxLkyAi+a/zHuztFh/q5tNnEdDAR/AQ==","signature_status":"signed_v1","signed_at":"2026-07-05T01:42:54.457748Z","signed_message":"canonical_sha256_bytes"},"source_id":"2005.01804","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:9469ddfb4997b2962672b31c4cd24039273152779b7d70dc2cf30652f68e7b2f","sha256:3599dd8a79ab5637f52bc643737b36d438d513e8309fc0468b39ac541b32af5e"],"state_sha256":"856d0fffd85676ba36b7510989cc02ab54460583b1bf9ebb61bc2bfa62154417"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"FkMt18z4MGUa+Msd1qHUYVXfKLWDPPfa9p/2ce3+hIGigtHMx5WBE04yTv0sXbkf3s5X/QBT1t5PSBSUubk0BQ==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-25T21:35:49.764139Z","bundle_sha256":"d3d84decc64fa3fd5b32b6d7077dffdfb0bcd77d6777c549172f730655379447"}}