{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2025:GMPQJMAJ7GHGUPPGZVROEAQFS3","short_pith_number":"pith:GMPQJMAJ","canonical_record":{"source":{"id":"2508.12693","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2025-08-18T07:51:34Z","cross_cats_sorted":["q-bio.SC"],"title_canon_sha256":"1c4463b1819fbf32240f75ef3926d88446315d500b24109d9a064882cd183f65","abstract_canon_sha256":"a39d388d77f9bfd6747c3862ba7df2c2583147914fa2abf874f17ccd9cb4380f"},"schema_version":"1.0"},"canonical_sha256":"331f04b009f98e6a3de6cd62e2020596f9fc4b0a5e7280366bcfe66f5f59b1f4","source":{"kind":"arxiv","id":"2508.12693","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2508.12693","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"arxiv_version","alias_value":"2508.12693v1","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2508.12693","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"pith_short_12","alias_value":"GMPQJMAJ7GHG","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"pith_short_16","alias_value":"GMPQJMAJ7GHGUPPG","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"pith_short_8","alias_value":"GMPQJMAJ","created_at":"2026-07-05T11:55:25Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2025:GMPQJMAJ7GHGUPPGZVROEAQFS3","target":"record","payload":{"canonical_record":{"source":{"id":"2508.12693","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2025-08-18T07:51:34Z","cross_cats_sorted":["q-bio.SC"],"title_canon_sha256":"1c4463b1819fbf32240f75ef3926d88446315d500b24109d9a064882cd183f65","abstract_canon_sha256":"a39d388d77f9bfd6747c3862ba7df2c2583147914fa2abf874f17ccd9cb4380f"},"schema_version":"1.0"},"canonical_sha256":"331f04b009f98e6a3de6cd62e2020596f9fc4b0a5e7280366bcfe66f5f59b1f4","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T11:55:25.420109Z","signature_b64":"xUTtZlgDgHBCq1Y3GZMP23QHlOX7ZxzULsPc2kgkilY1nHHmy903CCLjZBEd8m55dhu6OgLvXxTu03JcutC2Ag==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"331f04b009f98e6a3de6cd62e2020596f9fc4b0a5e7280366bcfe66f5f59b1f4","last_reissued_at":"2026-07-05T11:55:25.419703Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T11:55:25.419703Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2508.12693","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":"2026-07-05T11:55:25Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"dWgyDZwl0v9eGEkESVtkMh1PExQWysuAoIltOi8YAQtBYLNsGok5//2d3O7rW7ff03XWnG1pr9AEZJlMHsY5DA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-10T23:19:12.798013Z"},"content_sha256":"6fc2ea3cc630e9d6f8f0eafd23700492d1eacbf8bc9cb50b7875bc5b3ec8ba40","schema_version":"1.0","event_id":"sha256:6fc2ea3cc630e9d6f8f0eafd23700492d1eacbf8bc9cb50b7875bc5b3ec8ba40"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2025:GMPQJMAJ7GHGUPPGZVROEAQFS3","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"A Novel Nonlinear IP$_3$R State Transition Model and Calcium Oscillation","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["q-bio.SC"],"primary_cat":"physics.bio-ph","authors_text":"Han-Yu Jiang, Jun He, Zhao-Yu Peng","submitted_at":"2025-08-18T07:51:34Z","abstract_excerpt":"We present a novel nonlinear state transition model for inositol 1,4,5-trisphosphate receptors (IP$_3$Rs) that incorporates a pre-activated state, as suggested by electron microscopy observations. Our model provides a theoretical framework for the biphasic Ca$^{2+}$ dependence of IP$_3$Rs and accurately reproduces their experimentally observed state distribution under saturating IP$_3$ conditions. By integrating receptor dynamics with cytoplasmic and endoplasmic reticulum (ER) calcium exchange, we simulate IP$_3$R-mediated Ca$^{2+}$ oscillations governed by six key conformational states. A piv"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2508.12693","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":""},"integrity":{"clean":true,"summary":{"advisory":0,"critical":0,"by_detector":{},"informational":0},"endpoint":"/pith/2508.12693/integrity.json","findings":[],"available":true,"detectors_run":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938"},"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":"2026-07-05T11:55:25Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"luWc2N2LJ2x4jCoxbIjlwbSn1bNuqAolxAiPbhabffVLwnNW+1Ltml+7k4OvBWMZSKB7j53aq3IxjX/KMODMBw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-10T23:19:12.798528Z"},"content_sha256":"bc400432233607be24b14177e85e211ffb16e93ef21aa9f26abd7757c07b0d05","schema_version":"1.0","event_id":"sha256:bc400432233607be24b14177e85e211ffb16e93ef21aa9f26abd7757c07b0d05"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/GMPQJMAJ7GHGUPPGZVROEAQFS3/bundle.json","state_url":"https://pith.science/pith/GMPQJMAJ7GHGUPPGZVROEAQFS3/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/GMPQJMAJ7GHGUPPGZVROEAQFS3/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":"2026-08-10T23:19:12Z","links":{"resolver":"https://pith.science/pith/GMPQJMAJ7GHGUPPGZVROEAQFS3","bundle":"https://pith.science/pith/GMPQJMAJ7GHGUPPGZVROEAQFS3/bundle.json","state":"https://pith.science/pith/GMPQJMAJ7GHGUPPGZVROEAQFS3/state.json","well_known_bundle":"https://pith.science/.well-known/pith/GMPQJMAJ7GHGUPPGZVROEAQFS3/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2025:GMPQJMAJ7GHGUPPGZVROEAQFS3","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":"a39d388d77f9bfd6747c3862ba7df2c2583147914fa2abf874f17ccd9cb4380f","cross_cats_sorted":["q-bio.SC"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2025-08-18T07:51:34Z","title_canon_sha256":"1c4463b1819fbf32240f75ef3926d88446315d500b24109d9a064882cd183f65"},"schema_version":"1.0","source":{"id":"2508.12693","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2508.12693","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"arxiv_version","alias_value":"2508.12693v1","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2508.12693","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"pith_short_12","alias_value":"GMPQJMAJ7GHG","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"pith_short_16","alias_value":"GMPQJMAJ7GHGUPPG","created_at":"2026-07-05T11:55:25Z"},{"alias_kind":"pith_short_8","alias_value":"GMPQJMAJ","created_at":"2026-07-05T11:55:25Z"}],"graph_snapshots":[{"event_id":"sha256:bc400432233607be24b14177e85e211ffb16e93ef21aa9f26abd7757c07b0d05","target":"graph","created_at":"2026-07-05T11:55:25Z","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/2508.12693/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"We present a novel nonlinear state transition model for inositol 1,4,5-trisphosphate receptors (IP$_3$Rs) that incorporates a pre-activated state, as suggested by electron microscopy observations. Our model provides a theoretical framework for the biphasic Ca$^{2+}$ dependence of IP$_3$Rs and accurately reproduces their experimentally observed state distribution under saturating IP$_3$ conditions. By integrating receptor dynamics with cytoplasmic and endoplasmic reticulum (ER) calcium exchange, we simulate IP$_3$R-mediated Ca$^{2+}$ oscillations governed by six key conformational states. A piv","authors_text":"Han-Yu Jiang, Jun He, Zhao-Yu Peng","cross_cats":["q-bio.SC"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2025-08-18T07:51:34Z","title":"A Novel Nonlinear IP$_3$R State Transition Model and Calcium Oscillation"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2508.12693","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":"sha256:6fc2ea3cc630e9d6f8f0eafd23700492d1eacbf8bc9cb50b7875bc5b3ec8ba40","target":"record","created_at":"2026-07-05T11:55:25Z","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":"a39d388d77f9bfd6747c3862ba7df2c2583147914fa2abf874f17ccd9cb4380f","cross_cats_sorted":["q-bio.SC"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2025-08-18T07:51:34Z","title_canon_sha256":"1c4463b1819fbf32240f75ef3926d88446315d500b24109d9a064882cd183f65"},"schema_version":"1.0","source":{"id":"2508.12693","kind":"arxiv","version":1}},"canonical_sha256":"331f04b009f98e6a3de6cd62e2020596f9fc4b0a5e7280366bcfe66f5f59b1f4","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"331f04b009f98e6a3de6cd62e2020596f9fc4b0a5e7280366bcfe66f5f59b1f4","first_computed_at":"2026-07-05T11:55:25.419703Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T11:55:25.419703Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"xUTtZlgDgHBCq1Y3GZMP23QHlOX7ZxzULsPc2kgkilY1nHHmy903CCLjZBEd8m55dhu6OgLvXxTu03JcutC2Ag==","signature_status":"signed_v1","signed_at":"2026-07-05T11:55:25.420109Z","signed_message":"canonical_sha256_bytes"},"source_id":"2508.12693","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:6fc2ea3cc630e9d6f8f0eafd23700492d1eacbf8bc9cb50b7875bc5b3ec8ba40","sha256:bc400432233607be24b14177e85e211ffb16e93ef21aa9f26abd7757c07b0d05"],"state_sha256":"e8d8ba2f87cedc0edac2e36a0d0c04361705ec3b736aaa3d8ebe2df3343d2721"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"VaLJMzQIpjzTCoytoVEjCvehZBjn62MrZbt6fhZn++h7f+1L6mJgljzImS/ZZSZz0HehzfJdx3HUs4qKad10AA==","signed_message":"bundle_sha256_bytes","signed_at":"2026-08-10T23:19:12.802424Z","bundle_sha256":"8cf560cd61a8f4ebd5a9aae4cc5cbba381d76afc03a4be082314c3961c6f41f8"}}