{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2023:DBSYRLFCBGLYW5ZDSK2HJEOLGN","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":"5f15b2b8fd46586f9eb73bcd988b9216291723e6aab012e6f9e7fb34592f6889","cross_cats_sorted":["q-bio.MN"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-02-11T12:28:12Z","title_canon_sha256":"a0e75066e4f37557d14d173fb25d31cc6459fce2a135515c117f4b77bb106c13"},"schema_version":"1.0","source":{"id":"2302.05680","kind":"arxiv","version":2}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2302.05680","created_at":"2026-07-05T07:19:18Z"},{"alias_kind":"arxiv_version","alias_value":"2302.05680v2","created_at":"2026-07-05T07:19:18Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2302.05680","created_at":"2026-07-05T07:19:18Z"},{"alias_kind":"pith_short_12","alias_value":"DBSYRLFCBGLY","created_at":"2026-07-05T07:19:18Z"},{"alias_kind":"pith_short_16","alias_value":"DBSYRLFCBGLYW5ZD","created_at":"2026-07-05T07:19:18Z"},{"alias_kind":"pith_short_8","alias_value":"DBSYRLFC","created_at":"2026-07-05T07:19:18Z"}],"graph_snapshots":[{"event_id":"sha256:e6080d4b389ce231ad5821d3033b3245a0538e3e754994d00950f05680c507d2","target":"graph","created_at":"2026-07-05T07:19:18Z","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/2302.05680/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Many biological systems approach physical limits to their performance, motivating the idea that their behavior and underlying mechanisms could be determined by such optimality. Nevertheless, optimization as a predictive principle has only been applied in very simplified setups. Here, in contrast, we explore a mechanistically-detailed class of models for the gap gene network of the Drosophila embryo, and determine its 50+ parameters by optimizing the information that gene expression levels convey about nuclear positions, subject to physical constraints on the number of available molecules. Opti","authors_text":"Ga\\v{s}per Tka\\v{c}ik, Thomas Gregor, Thomas R Sokolowski, William Bialek","cross_cats":["q-bio.MN"],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-02-11T12:28:12Z","title":"Deriving a genetic regulatory network from an optimization principle"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2302.05680","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:af37c35ffdc164cd9863b0c40b93a9aa2bca09ff4809aaa96aedc46bcf0c1fe0","target":"record","created_at":"2026-07-05T07:19:18Z","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":"5f15b2b8fd46586f9eb73bcd988b9216291723e6aab012e6f9e7fb34592f6889","cross_cats_sorted":["q-bio.MN"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-02-11T12:28:12Z","title_canon_sha256":"a0e75066e4f37557d14d173fb25d31cc6459fce2a135515c117f4b77bb106c13"},"schema_version":"1.0","source":{"id":"2302.05680","kind":"arxiv","version":2}},"canonical_sha256":"186588aca209978b772392b47491cb334e423e4043f1532081dceb422f6319c4","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"186588aca209978b772392b47491cb334e423e4043f1532081dceb422f6319c4","first_computed_at":"2026-07-05T07:19:18.471656Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T07:19:18.471656Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"sBSI+dPmoEyEwZP6wkVnMZ7T3yrMCcXQnRhVTsYiVJxgCNWxIBatxDm8tlDsc67Iw3jm2uIvJzjxVA9+fZ9fBg==","signature_status":"signed_v1","signed_at":"2026-07-05T07:19:18.472124Z","signed_message":"canonical_sha256_bytes"},"source_id":"2302.05680","source_kind":"arxiv","source_version":2}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:af37c35ffdc164cd9863b0c40b93a9aa2bca09ff4809aaa96aedc46bcf0c1fe0","sha256:e6080d4b389ce231ad5821d3033b3245a0538e3e754994d00950f05680c507d2"],"state_sha256":"a693ecd99773881c3dda126247a7bbc7c13d29804138af9d10d339a9e8095537"}