{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2015:Q7TTZBMHXYWVKR3V6RUO7TSIFU","short_pith_number":"pith:Q7TTZBMH","canonical_record":{"source":{"id":"1505.05705","kind":"arxiv","version":2},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.AP","submitted_at":"2015-05-21T12:52:06Z","cross_cats_sorted":["q-bio.QM"],"title_canon_sha256":"d8b0d02f795aac57c01c4c6b3a4f1296da7f67c177cd5672dbd68cbc06e20a1e","abstract_canon_sha256":"09e217b7df2edd23d5d03be320fdf9cc4d6a59679ecab98bfc57cb8af75bf666"},"schema_version":"1.0"},"canonical_sha256":"87e73c8587be2d554775f468efce482d0f230b6623aa19c14bc72610aacf42ef","source":{"kind":"arxiv","id":"1505.05705","version":2},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1505.05705","created_at":"2026-05-18T01:23:12Z"},{"alias_kind":"arxiv_version","alias_value":"1505.05705v2","created_at":"2026-05-18T01:23:12Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1505.05705","created_at":"2026-05-18T01:23:12Z"},{"alias_kind":"pith_short_12","alias_value":"Q7TTZBMHXYWV","created_at":"2026-05-18T12:29:37Z"},{"alias_kind":"pith_short_16","alias_value":"Q7TTZBMHXYWVKR3V","created_at":"2026-05-18T12:29:37Z"},{"alias_kind":"pith_short_8","alias_value":"Q7TTZBMH","created_at":"2026-05-18T12:29:37Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2015:Q7TTZBMHXYWVKR3V6RUO7TSIFU","target":"record","payload":{"canonical_record":{"source":{"id":"1505.05705","kind":"arxiv","version":2},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.AP","submitted_at":"2015-05-21T12:52:06Z","cross_cats_sorted":["q-bio.QM"],"title_canon_sha256":"d8b0d02f795aac57c01c4c6b3a4f1296da7f67c177cd5672dbd68cbc06e20a1e","abstract_canon_sha256":"09e217b7df2edd23d5d03be320fdf9cc4d6a59679ecab98bfc57cb8af75bf666"},"schema_version":"1.0"},"canonical_sha256":"87e73c8587be2d554775f468efce482d0f230b6623aa19c14bc72610aacf42ef","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T01:23:12.279824Z","signature_b64":"dLa50EgMJaUgMIkoS7PQcMrAWFl3h6eKY38je3kQRDyD8hXBaZ8uNKi0Ahp0sK40ENqTPrBBkrCA5FmfyzHyCQ==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"87e73c8587be2d554775f468efce482d0f230b6623aa19c14bc72610aacf42ef","last_reissued_at":"2026-05-18T01:23:12.279153Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T01:23:12.279153Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"1505.05705","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":"2026-05-18T01:23:12Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"5Ty0WL2PSxPDAVavVrvkZQBFWmhV2VkPw9ssH+d608T04+KnKDJNXoSwPLgAeMSEjV6P+94NTYuUoMzpg16DBQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-01T22:28:21.507393Z"},"content_sha256":"b1c3a132911de4c9508ed4887c63490e65c8acb304b9114cde363a6034b6bb01","schema_version":"1.0","event_id":"sha256:b1c3a132911de4c9508ed4887c63490e65c8acb304b9114cde363a6034b6bb01"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2015:Q7TTZBMHXYWVKR3V6RUO7TSIFU","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"A model for gene deregulation detection using expression data","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["q-bio.QM"],"primary_cat":"stat.AP","authors_text":"Etienne Birmel\\'e (MAP5), Julien Chiquet (LaMME), Mohamed Elati (ISSB), Pierre Neuvial (LaMME), R\\'emy Nicolle (ISSB), Thomas Picchetti (MAP5)","submitted_at":"2015-05-21T12:52:06Z","abstract_excerpt":"In tumoral cells, gene regulation mechanisms are severely altered, and these modifications in the regulations may be characteristic of different subtypes of cancer. However, these alterations do not necessarily induce differential expressions between the subtypes. To answer this question, we propose a statistical methodology to identify the misregulated genes given a reference network and gene expression data. Our model is based on a regulatory process in which all genes are allowed to be deregulated. We derive an EM algorithm where the hidden variables correspond to the status (under/over/nor"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1505.05705","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":"2026-05-18T01:23:12Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"kdMa6vQGLIgNPfFoEWxwTrB/ASpVVVaubOLHlnwN7ZNsbDrAg5n+uuWkPPG5WfsMnjUGhirp5KrmQVLY9CXUBQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-01T22:28:21.507749Z"},"content_sha256":"d9b40bf96c807158d3bacce73c3ca49f59e792c06d312bbc83866b383c90ab6e","schema_version":"1.0","event_id":"sha256:d9b40bf96c807158d3bacce73c3ca49f59e792c06d312bbc83866b383c90ab6e"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/Q7TTZBMHXYWVKR3V6RUO7TSIFU/bundle.json","state_url":"https://pith.science/pith/Q7TTZBMHXYWVKR3V6RUO7TSIFU/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/Q7TTZBMHXYWVKR3V6RUO7TSIFU/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":"2026-06-01T22:28:21Z","links":{"resolver":"https://pith.science/pith/Q7TTZBMHXYWVKR3V6RUO7TSIFU","bundle":"https://pith.science/pith/Q7TTZBMHXYWVKR3V6RUO7TSIFU/bundle.json","state":"https://pith.science/pith/Q7TTZBMHXYWVKR3V6RUO7TSIFU/state.json","well_known_bundle":"https://pith.science/.well-known/pith/Q7TTZBMHXYWVKR3V6RUO7TSIFU/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2015:Q7TTZBMHXYWVKR3V6RUO7TSIFU","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":"09e217b7df2edd23d5d03be320fdf9cc4d6a59679ecab98bfc57cb8af75bf666","cross_cats_sorted":["q-bio.QM"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.AP","submitted_at":"2015-05-21T12:52:06Z","title_canon_sha256":"d8b0d02f795aac57c01c4c6b3a4f1296da7f67c177cd5672dbd68cbc06e20a1e"},"schema_version":"1.0","source":{"id":"1505.05705","kind":"arxiv","version":2}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1505.05705","created_at":"2026-05-18T01:23:12Z"},{"alias_kind":"arxiv_version","alias_value":"1505.05705v2","created_at":"2026-05-18T01:23:12Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1505.05705","created_at":"2026-05-18T01:23:12Z"},{"alias_kind":"pith_short_12","alias_value":"Q7TTZBMHXYWV","created_at":"2026-05-18T12:29:37Z"},{"alias_kind":"pith_short_16","alias_value":"Q7TTZBMHXYWVKR3V","created_at":"2026-05-18T12:29:37Z"},{"alias_kind":"pith_short_8","alias_value":"Q7TTZBMH","created_at":"2026-05-18T12:29:37Z"}],"graph_snapshots":[{"event_id":"sha256:d9b40bf96c807158d3bacce73c3ca49f59e792c06d312bbc83866b383c90ab6e","target":"graph","created_at":"2026-05-18T01:23:12Z","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 tumoral cells, gene regulation mechanisms are severely altered, and these modifications in the regulations may be characteristic of different subtypes of cancer. However, these alterations do not necessarily induce differential expressions between the subtypes. To answer this question, we propose a statistical methodology to identify the misregulated genes given a reference network and gene expression data. Our model is based on a regulatory process in which all genes are allowed to be deregulated. We derive an EM algorithm where the hidden variables correspond to the status (under/over/nor","authors_text":"Etienne Birmel\\'e (MAP5), Julien Chiquet (LaMME), Mohamed Elati (ISSB), Pierre Neuvial (LaMME), R\\'emy Nicolle (ISSB), Thomas Picchetti (MAP5)","cross_cats":["q-bio.QM"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.AP","submitted_at":"2015-05-21T12:52:06Z","title":"A model for gene deregulation detection using expression data"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1505.05705","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:b1c3a132911de4c9508ed4887c63490e65c8acb304b9114cde363a6034b6bb01","target":"record","created_at":"2026-05-18T01:23:12Z","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":"09e217b7df2edd23d5d03be320fdf9cc4d6a59679ecab98bfc57cb8af75bf666","cross_cats_sorted":["q-bio.QM"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.AP","submitted_at":"2015-05-21T12:52:06Z","title_canon_sha256":"d8b0d02f795aac57c01c4c6b3a4f1296da7f67c177cd5672dbd68cbc06e20a1e"},"schema_version":"1.0","source":{"id":"1505.05705","kind":"arxiv","version":2}},"canonical_sha256":"87e73c8587be2d554775f468efce482d0f230b6623aa19c14bc72610aacf42ef","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"87e73c8587be2d554775f468efce482d0f230b6623aa19c14bc72610aacf42ef","first_computed_at":"2026-05-18T01:23:12.279153Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T01:23:12.279153Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"dLa50EgMJaUgMIkoS7PQcMrAWFl3h6eKY38je3kQRDyD8hXBaZ8uNKi0Ahp0sK40ENqTPrBBkrCA5FmfyzHyCQ==","signature_status":"signed_v1","signed_at":"2026-05-18T01:23:12.279824Z","signed_message":"canonical_sha256_bytes"},"source_id":"1505.05705","source_kind":"arxiv","source_version":2}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:b1c3a132911de4c9508ed4887c63490e65c8acb304b9114cde363a6034b6bb01","sha256:d9b40bf96c807158d3bacce73c3ca49f59e792c06d312bbc83866b383c90ab6e"],"state_sha256":"335f4e9f51934129e341e6a990b091ac08e7e1d1b27e4853920641b1bafdf3e6"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"ItBp0nRlHkjHyAlt+Ifz/meO/qDl4kuEHe6RQRT6eK/WuaE30sjkapCHUiqYQAz5Zkv73+h+qbuxGz5J0NCZBw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-01T22:28:21.509945Z","bundle_sha256":"8f970b79ada09491d9650d5e35982bf274da2111e32dd946d1fb01e0d343ad33"}}