{"record_type":"pith_number_record","schema_url":"https://pith.science/schemas/pith-number/v1.json","pith_number":"pith:2014:3EZNWTX22Q6SVMVOLTIJXKDBZ5","short_pith_number":"pith:3EZNWTX2","schema_version":"1.0","canonical_sha256":"d932db4efad43d2ab2ae5cd09ba861cf415892f1cf98620dd87dc4c193851409","source":{"kind":"arxiv","id":"1408.0472","version":2},"attestation_state":"computed","paper":{"title":"Integrative multi-omics module network inference with Lemon-Tree","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":[],"primary_cat":"q-bio.GN","authors_text":"Eric Bonnet, Laurence Calzone, Tom Michoel","submitted_at":"2014-08-03T08:39:37Z","abstract_excerpt":"Module network inference is an established statistical method to reconstruct co-expression modules and their upstream regulatory programs from integrated multi-omics datasets measuring the activity levels of various cellular components across different individuals, experimental conditions or time points of a dynamic process. We have developed Lemon-Tree, an open-source, platform-independent, modular, extensible software package implementing state-of-the-art ensemble methods for module network inference. We benchmarked Lemon-Tree using large-scale tumor datasets and showed that Lemon-Tree algor"},"verification_status":{"content_addressed":true,"pith_receipt":true,"author_attested":false,"weak_author_claims":0,"strong_author_claims":0,"externally_anchored":false,"storage_verified":false,"citation_signatures":0,"replication_records":0,"graph_snapshot":true,"references_resolved":false,"formal_links_present":false},"canonical_record":{"source":{"id":"1408.0472","kind":"arxiv","version":2},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.GN","submitted_at":"2014-08-03T08:39:37Z","cross_cats_sorted":[],"title_canon_sha256":"7fdcc4ae4dec7ec88e2678b0119aedd9ee0175a79e241f3bd765619c1d777f46","abstract_canon_sha256":"906db2bb28b58a21547663256f5c6bb285f469e2778c5663fdd9755ca1b64b4a"},"schema_version":"1.0"},"receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T02:05:24.318350Z","signature_b64":"e84OydEIdo7280HdK1nHcuc8EcL1jGXHz/l2aXzAzxDJE8Vblcke3z8GaJWFbRhm8ALE+S1a6t0+zdGu7R/ZCA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"d932db4efad43d2ab2ae5cd09ba861cf415892f1cf98620dd87dc4c193851409","last_reissued_at":"2026-05-18T02:05:24.317699Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T02:05:24.317699Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"graph_snapshot":{"paper":{"title":"Integrative multi-omics module network inference with Lemon-Tree","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":[],"primary_cat":"q-bio.GN","authors_text":"Eric Bonnet, Laurence Calzone, Tom Michoel","submitted_at":"2014-08-03T08:39:37Z","abstract_excerpt":"Module network inference is an established statistical method to reconstruct co-expression modules and their upstream regulatory programs from integrated multi-omics datasets measuring the activity levels of various cellular components across different individuals, experimental conditions or time points of a dynamic process. We have developed Lemon-Tree, an open-source, platform-independent, modular, extensible software package implementing state-of-the-art ensemble methods for module network inference. We benchmarked Lemon-Tree using large-scale tumor datasets and showed that Lemon-Tree algor"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1408.0472","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"},"aliases":[{"alias_kind":"arxiv","alias_value":"1408.0472","created_at":"2026-05-18T02:05:24.317812+00:00"},{"alias_kind":"arxiv_version","alias_value":"1408.0472v2","created_at":"2026-05-18T02:05:24.317812+00:00"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1408.0472","created_at":"2026-05-18T02:05:24.317812+00:00"},{"alias_kind":"pith_short_12","alias_value":"3EZNWTX22Q6S","created_at":"2026-05-18T12:28:11.866339+00:00"},{"alias_kind":"pith_short_16","alias_value":"3EZNWTX22Q6SVMVO","created_at":"2026-05-18T12:28:11.866339+00:00"},{"alias_kind":"pith_short_8","alias_value":"3EZNWTX2","created_at":"2026-05-18T12:28:11.866339+00:00"}],"events":[],"event_summary":{},"paper_claims":[],"inbound_citations":{"count":0,"internal_anchor_count":0,"sample":[]},"formal_canon":{"evidence_count":0,"sample":[],"anchors":[]},"links":{"html":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5","json":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5.json","graph_json":"https://pith.science/api/pith-number/3EZNWTX22Q6SVMVOLTIJXKDBZ5/graph.json","events_json":"https://pith.science/api/pith-number/3EZNWTX22Q6SVMVOLTIJXKDBZ5/events.json","paper":"https://pith.science/paper/3EZNWTX2"},"agent_actions":{"view_html":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5","download_json":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5.json","view_paper":"https://pith.science/paper/3EZNWTX2","resolve_alias":"https://pith.science/api/pith-number/resolve?arxiv=1408.0472&json=true","fetch_graph":"https://pith.science/api/pith-number/3EZNWTX22Q6SVMVOLTIJXKDBZ5/graph.json","fetch_events":"https://pith.science/api/pith-number/3EZNWTX22Q6SVMVOLTIJXKDBZ5/events.json","actions":{"anchor_timestamp":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5/action/timestamp_anchor","attest_storage":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5/action/storage_attestation","attest_author":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5/action/author_attestation","sign_citation":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5/action/citation_signature","submit_replication":"https://pith.science/pith/3EZNWTX22Q6SVMVOLTIJXKDBZ5/action/replication_record"}},"created_at":"2026-05-18T02:05:24.317812+00:00","updated_at":"2026-05-18T02:05:24.317812+00:00"}