{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2013:TRFWDD2W6XV3BTZNLX7GLMQUJY","short_pith_number":"pith:TRFWDD2W","canonical_record":{"source":{"id":"1310.7527","kind":"arxiv","version":2},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.MN","submitted_at":"2013-10-28T18:31:00Z","cross_cats_sorted":[],"title_canon_sha256":"f27d8c3289275fa5d8cdad7ee75e9a36b5173e08ccd4ba5cdf16cdb9c11039d6","abstract_canon_sha256":"8f6aafc987d3eebd029335b1f0cf99c35c2dba3ef41edb52110163ff91acfd44"},"schema_version":"1.0"},"canonical_sha256":"9c4b618f56f5ebb0cf2d5dfe65b2144e38bef01db626aef0ce8a53918c7b2236","source":{"kind":"arxiv","id":"1310.7527","version":2},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1310.7527","created_at":"2026-05-18T02:58:34Z"},{"alias_kind":"arxiv_version","alias_value":"1310.7527v2","created_at":"2026-05-18T02:58:34Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1310.7527","created_at":"2026-05-18T02:58:34Z"},{"alias_kind":"pith_short_12","alias_value":"TRFWDD2W6XV3","created_at":"2026-05-18T12:28:02Z"},{"alias_kind":"pith_short_16","alias_value":"TRFWDD2W6XV3BTZN","created_at":"2026-05-18T12:28:02Z"},{"alias_kind":"pith_short_8","alias_value":"TRFWDD2W","created_at":"2026-05-18T12:28:02Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2013:TRFWDD2W6XV3BTZNLX7GLMQUJY","target":"record","payload":{"canonical_record":{"source":{"id":"1310.7527","kind":"arxiv","version":2},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.MN","submitted_at":"2013-10-28T18:31:00Z","cross_cats_sorted":[],"title_canon_sha256":"f27d8c3289275fa5d8cdad7ee75e9a36b5173e08ccd4ba5cdf16cdb9c11039d6","abstract_canon_sha256":"8f6aafc987d3eebd029335b1f0cf99c35c2dba3ef41edb52110163ff91acfd44"},"schema_version":"1.0"},"canonical_sha256":"9c4b618f56f5ebb0cf2d5dfe65b2144e38bef01db626aef0ce8a53918c7b2236","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T02:58:34.652057Z","signature_b64":"xn0au7XI5lQec7ufbCqhZI+iXuXRMuDzd+3a1JI5DHgu4vFny7iNmzLEez/MFn6eDw7pnVB8JQda3JRPS+4KBg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"9c4b618f56f5ebb0cf2d5dfe65b2144e38bef01db626aef0ce8a53918c7b2236","last_reissued_at":"2026-05-18T02:58:34.651267Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T02:58:34.651267Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"1310.7527","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":"2026-05-18T02:58:34Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"sChGnuN8midS/77uB8Um2BCnT6cd1Pd1Jo69L8rN+47SHxQF2Cv3r1cHluXmuFPNuxhakmK50t/0B0tNTOIECQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-05-29T16:18:30.584723Z"},"content_sha256":"7607dd8e50c69eb7183a61746715ec9c3f20538a6e661fea3af3658db2c62e26","schema_version":"1.0","event_id":"sha256:7607dd8e50c69eb7183a61746715ec9c3f20538a6e661fea3af3658db2c62e26"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2013:TRFWDD2W6XV3BTZNLX7GLMQUJY","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Knowledge-fused differential dependency network models for detecting significant rewiring in biological networks","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":[],"primary_cat":"q-bio.MN","authors_text":"Bai Zhang, David M. Herrington, Eric P. Hoffman, Ie-Ming Shih, Jianhua Xuan, Robert Clarke, Ye Tian, Yue Wang, Zhen Zhang","submitted_at":"2013-10-28T18:31:00Z","abstract_excerpt":"Modeling biological networks serves as both a major goal and an effective tool of systems biology in studying mechanisms that orchestrate the activities of gene products in cells. Biological networks are context specific and dynamic in nature. To systematically characterize the selectively activated regulatory components and mechanisms, the modeling tools must be able to effectively distinguish significant rewiring from random background fluctuations. We formulated the inference of differential dependency networks that incorporates both conditional data and prior knowledge as a convex optimiza"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1310.7527","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":"2026-05-18T02:58:34Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"nZVC1TyWKw9vCL9Ldt7yZZCfEvrrn5xkTIAtMCGBkIKVo+vVkn12otJ8ySR/JGH4xbntBOH5KEmmL4NMpQpaCA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-05-29T16:18:30.585413Z"},"content_sha256":"5debd27a8074fee05d462e1fac1b8ee04cdf5cef0ba3178233ac8c2f9794f744","schema_version":"1.0","event_id":"sha256:5debd27a8074fee05d462e1fac1b8ee04cdf5cef0ba3178233ac8c2f9794f744"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/TRFWDD2W6XV3BTZNLX7GLMQUJY/bundle.json","state_url":"https://pith.science/pith/TRFWDD2W6XV3BTZNLX7GLMQUJY/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/TRFWDD2W6XV3BTZNLX7GLMQUJY/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":"2026-05-29T16:18:30Z","links":{"resolver":"https://pith.science/pith/TRFWDD2W6XV3BTZNLX7GLMQUJY","bundle":"https://pith.science/pith/TRFWDD2W6XV3BTZNLX7GLMQUJY/bundle.json","state":"https://pith.science/pith/TRFWDD2W6XV3BTZNLX7GLMQUJY/state.json","well_known_bundle":"https://pith.science/.well-known/pith/TRFWDD2W6XV3BTZNLX7GLMQUJY/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2013:TRFWDD2W6XV3BTZNLX7GLMQUJY","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":"8f6aafc987d3eebd029335b1f0cf99c35c2dba3ef41edb52110163ff91acfd44","cross_cats_sorted":[],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.MN","submitted_at":"2013-10-28T18:31:00Z","title_canon_sha256":"f27d8c3289275fa5d8cdad7ee75e9a36b5173e08ccd4ba5cdf16cdb9c11039d6"},"schema_version":"1.0","source":{"id":"1310.7527","kind":"arxiv","version":2}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1310.7527","created_at":"2026-05-18T02:58:34Z"},{"alias_kind":"arxiv_version","alias_value":"1310.7527v2","created_at":"2026-05-18T02:58:34Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1310.7527","created_at":"2026-05-18T02:58:34Z"},{"alias_kind":"pith_short_12","alias_value":"TRFWDD2W6XV3","created_at":"2026-05-18T12:28:02Z"},{"alias_kind":"pith_short_16","alias_value":"TRFWDD2W6XV3BTZN","created_at":"2026-05-18T12:28:02Z"},{"alias_kind":"pith_short_8","alias_value":"TRFWDD2W","created_at":"2026-05-18T12:28:02Z"}],"graph_snapshots":[{"event_id":"sha256:5debd27a8074fee05d462e1fac1b8ee04cdf5cef0ba3178233ac8c2f9794f744","target":"graph","created_at":"2026-05-18T02:58:34Z","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":"Modeling biological networks serves as both a major goal and an effective tool of systems biology in studying mechanisms that orchestrate the activities of gene products in cells. Biological networks are context specific and dynamic in nature. To systematically characterize the selectively activated regulatory components and mechanisms, the modeling tools must be able to effectively distinguish significant rewiring from random background fluctuations. We formulated the inference of differential dependency networks that incorporates both conditional data and prior knowledge as a convex optimiza","authors_text":"Bai Zhang, David M. Herrington, Eric P. Hoffman, Ie-Ming Shih, Jianhua Xuan, Robert Clarke, Ye Tian, Yue Wang, Zhen Zhang","cross_cats":[],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.MN","submitted_at":"2013-10-28T18:31:00Z","title":"Knowledge-fused differential dependency network models for detecting significant rewiring in biological networks"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1310.7527","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":"sha256:7607dd8e50c69eb7183a61746715ec9c3f20538a6e661fea3af3658db2c62e26","target":"record","created_at":"2026-05-18T02:58:34Z","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":"8f6aafc987d3eebd029335b1f0cf99c35c2dba3ef41edb52110163ff91acfd44","cross_cats_sorted":[],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.MN","submitted_at":"2013-10-28T18:31:00Z","title_canon_sha256":"f27d8c3289275fa5d8cdad7ee75e9a36b5173e08ccd4ba5cdf16cdb9c11039d6"},"schema_version":"1.0","source":{"id":"1310.7527","kind":"arxiv","version":2}},"canonical_sha256":"9c4b618f56f5ebb0cf2d5dfe65b2144e38bef01db626aef0ce8a53918c7b2236","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"9c4b618f56f5ebb0cf2d5dfe65b2144e38bef01db626aef0ce8a53918c7b2236","first_computed_at":"2026-05-18T02:58:34.651267Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T02:58:34.651267Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"xn0au7XI5lQec7ufbCqhZI+iXuXRMuDzd+3a1JI5DHgu4vFny7iNmzLEez/MFn6eDw7pnVB8JQda3JRPS+4KBg==","signature_status":"signed_v1","signed_at":"2026-05-18T02:58:34.652057Z","signed_message":"canonical_sha256_bytes"},"source_id":"1310.7527","source_kind":"arxiv","source_version":2}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:7607dd8e50c69eb7183a61746715ec9c3f20538a6e661fea3af3658db2c62e26","sha256:5debd27a8074fee05d462e1fac1b8ee04cdf5cef0ba3178233ac8c2f9794f744"],"state_sha256":"aa7867c63ac12db9fc6cf7d91030446c75c051d899e3287ffb678ab761691c59"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"8q6g8uAGhWIH/Suc6Kr3cwkhHE+sPuCdMkbFSiex+3yzc/1naNs9ytf1dxPqodzdosEgmqAxbUQL7Qa/XT+lDQ==","signed_message":"bundle_sha256_bytes","signed_at":"2026-05-29T16:18:30.589432Z","bundle_sha256":"02440bbc82043eca029199e37ce0ba0c9d90486fc159d80daee429607da1e8fd"}}