{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2014:PMRPOMA6NECIVG6TUEJZOBBPGW","short_pith_number":"pith:PMRPOMA6","canonical_record":{"source":{"id":"1408.1589","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cs.CE","submitted_at":"2014-08-07T13:48:31Z","cross_cats_sorted":["q-bio.TO"],"title_canon_sha256":"bcc1ada53856a874cf1d161fc0e470db6d0c31c3584f929cca7172528794ef4a","abstract_canon_sha256":"9600ae4ccd862f2d8e8b29eeb90dc259540516e30e25ec9cb8f84bcc0618ecc4"},"schema_version":"1.0"},"canonical_sha256":"7b22f7301e69048a9bd3a11397042f35aabf01cf0724341cb85f8254e20feb86","source":{"kind":"arxiv","id":"1408.1589","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1408.1589","created_at":"2026-05-18T02:45:40Z"},{"alias_kind":"arxiv_version","alias_value":"1408.1589v1","created_at":"2026-05-18T02:45:40Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1408.1589","created_at":"2026-05-18T02:45:40Z"},{"alias_kind":"pith_short_12","alias_value":"PMRPOMA6NECI","created_at":"2026-05-18T12:28:43Z"},{"alias_kind":"pith_short_16","alias_value":"PMRPOMA6NECIVG6T","created_at":"2026-05-18T12:28:43Z"},{"alias_kind":"pith_short_8","alias_value":"PMRPOMA6","created_at":"2026-05-18T12:28:43Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2014:PMRPOMA6NECIVG6TUEJZOBBPGW","target":"record","payload":{"canonical_record":{"source":{"id":"1408.1589","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cs.CE","submitted_at":"2014-08-07T13:48:31Z","cross_cats_sorted":["q-bio.TO"],"title_canon_sha256":"bcc1ada53856a874cf1d161fc0e470db6d0c31c3584f929cca7172528794ef4a","abstract_canon_sha256":"9600ae4ccd862f2d8e8b29eeb90dc259540516e30e25ec9cb8f84bcc0618ecc4"},"schema_version":"1.0"},"canonical_sha256":"7b22f7301e69048a9bd3a11397042f35aabf01cf0724341cb85f8254e20feb86","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T02:45:40.118903Z","signature_b64":"hOFLmSC8e8B3uHrGLQa4RPu4n9POe8J8Z019JCfwchUPi8vEr8HQCEMqq9uWhqnpgSHm0ey0WH1uQ3K6c8+LDA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"7b22f7301e69048a9bd3a11397042f35aabf01cf0724341cb85f8254e20feb86","last_reissued_at":"2026-05-18T02:45:40.118072Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T02:45:40.118072Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"1408.1589","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":"2026-05-18T02:45:40Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"3oeQCqPf9qGU7Y3Z/6ZH/wh1uS0RCrDF4X2rREIUA2Z0OgodroLcf93yr1cA3K1/DmQuh6BXkN5dVUfPHW3UCg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-24T04:37:04.376422Z"},"content_sha256":"bdf8277fb18fd48dd189bcf10f3e8205ca3d35cf4ada93c8e63d91248972e848","schema_version":"1.0","event_id":"sha256:bdf8277fb18fd48dd189bcf10f3e8205ca3d35cf4ada93c8e63d91248972e848"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2014:PMRPOMA6NECIVG6TUEJZOBBPGW","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Simulating Organogenesis in COMSOL: Image-based Modeling","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["q-bio.TO"],"primary_cat":"cs.CE","authors_text":"Dagmar Iber, Denis Menshykau, Erkan Unal, Zahra Karimaddini","submitted_at":"2014-08-07T13:48:31Z","abstract_excerpt":"Mathematical Modelling has a long history in developmental biology. Advances in experimental techniques and computational algorithms now permit the development of increasingly more realistic models of organogenesis. In particular, 3D geometries of developing organs have recently become available. In this paper, we show how to use image-based data for simulations of organogenesis in COMSOL Multiphysics. As an example, we use limb bud development, a classical model system in mouse developmental biology. We discuss how embryonic geometries with several subdomains can be read into COMSOL using the"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1408.1589","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"},"verdict_id":null},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-05-18T02:45:40Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"qXj5W5dKbGqQOmMrlKjkqI9tnkpBVwNS+TvkMkpWVz9VhJYdIYlSzTZlVp1gz7pW6mEKaZwh3uD5/5I8NeVKBQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-24T04:37:04.376774Z"},"content_sha256":"57daccf5839a236c97963a47218dfd9798f65bd5c7741d7ca044d274785075af","schema_version":"1.0","event_id":"sha256:57daccf5839a236c97963a47218dfd9798f65bd5c7741d7ca044d274785075af"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/PMRPOMA6NECIVG6TUEJZOBBPGW/bundle.json","state_url":"https://pith.science/pith/PMRPOMA6NECIVG6TUEJZOBBPGW/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/PMRPOMA6NECIVG6TUEJZOBBPGW/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":"2026-06-24T04:37:04Z","links":{"resolver":"https://pith.science/pith/PMRPOMA6NECIVG6TUEJZOBBPGW","bundle":"https://pith.science/pith/PMRPOMA6NECIVG6TUEJZOBBPGW/bundle.json","state":"https://pith.science/pith/PMRPOMA6NECIVG6TUEJZOBBPGW/state.json","well_known_bundle":"https://pith.science/.well-known/pith/PMRPOMA6NECIVG6TUEJZOBBPGW/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2014:PMRPOMA6NECIVG6TUEJZOBBPGW","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":"9600ae4ccd862f2d8e8b29eeb90dc259540516e30e25ec9cb8f84bcc0618ecc4","cross_cats_sorted":["q-bio.TO"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cs.CE","submitted_at":"2014-08-07T13:48:31Z","title_canon_sha256":"bcc1ada53856a874cf1d161fc0e470db6d0c31c3584f929cca7172528794ef4a"},"schema_version":"1.0","source":{"id":"1408.1589","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1408.1589","created_at":"2026-05-18T02:45:40Z"},{"alias_kind":"arxiv_version","alias_value":"1408.1589v1","created_at":"2026-05-18T02:45:40Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1408.1589","created_at":"2026-05-18T02:45:40Z"},{"alias_kind":"pith_short_12","alias_value":"PMRPOMA6NECI","created_at":"2026-05-18T12:28:43Z"},{"alias_kind":"pith_short_16","alias_value":"PMRPOMA6NECIVG6T","created_at":"2026-05-18T12:28:43Z"},{"alias_kind":"pith_short_8","alias_value":"PMRPOMA6","created_at":"2026-05-18T12:28:43Z"}],"graph_snapshots":[{"event_id":"sha256:57daccf5839a236c97963a47218dfd9798f65bd5c7741d7ca044d274785075af","target":"graph","created_at":"2026-05-18T02:45:40Z","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":"Mathematical Modelling has a long history in developmental biology. Advances in experimental techniques and computational algorithms now permit the development of increasingly more realistic models of organogenesis. In particular, 3D geometries of developing organs have recently become available. In this paper, we show how to use image-based data for simulations of organogenesis in COMSOL Multiphysics. As an example, we use limb bud development, a classical model system in mouse developmental biology. We discuss how embryonic geometries with several subdomains can be read into COMSOL using the","authors_text":"Dagmar Iber, Denis Menshykau, Erkan Unal, Zahra Karimaddini","cross_cats":["q-bio.TO"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cs.CE","submitted_at":"2014-08-07T13:48:31Z","title":"Simulating Organogenesis in COMSOL: Image-based Modeling"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1408.1589","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:bdf8277fb18fd48dd189bcf10f3e8205ca3d35cf4ada93c8e63d91248972e848","target":"record","created_at":"2026-05-18T02:45:40Z","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":"9600ae4ccd862f2d8e8b29eeb90dc259540516e30e25ec9cb8f84bcc0618ecc4","cross_cats_sorted":["q-bio.TO"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cs.CE","submitted_at":"2014-08-07T13:48:31Z","title_canon_sha256":"bcc1ada53856a874cf1d161fc0e470db6d0c31c3584f929cca7172528794ef4a"},"schema_version":"1.0","source":{"id":"1408.1589","kind":"arxiv","version":1}},"canonical_sha256":"7b22f7301e69048a9bd3a11397042f35aabf01cf0724341cb85f8254e20feb86","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"7b22f7301e69048a9bd3a11397042f35aabf01cf0724341cb85f8254e20feb86","first_computed_at":"2026-05-18T02:45:40.118072Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T02:45:40.118072Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"hOFLmSC8e8B3uHrGLQa4RPu4n9POe8J8Z019JCfwchUPi8vEr8HQCEMqq9uWhqnpgSHm0ey0WH1uQ3K6c8+LDA==","signature_status":"signed_v1","signed_at":"2026-05-18T02:45:40.118903Z","signed_message":"canonical_sha256_bytes"},"source_id":"1408.1589","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:bdf8277fb18fd48dd189bcf10f3e8205ca3d35cf4ada93c8e63d91248972e848","sha256:57daccf5839a236c97963a47218dfd9798f65bd5c7741d7ca044d274785075af"],"state_sha256":"72373192d2412630b79488520d606d3a6544770b940648c54ca0bf544e5a1ca3"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"97N7ywX1O2DSehH30fcV5Bpqtc/zAXVqOT9GfCe63IovUD4D+nq13ae1GqEIzR5V4S6ERgUT6n7ss3kU1OKFCw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-24T04:37:04.378713Z","bundle_sha256":"f58a16bb3a2d8b5a6dbdea6b55321c513c59d4e5e3d9cd455deada663b03f046"}}