{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2011:KZS6YX6AY3UYQSBVABRYYRV727","short_pith_number":"pith:KZS6YX6A","canonical_record":{"source":{"id":"1106.3211","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.ME","submitted_at":"2011-06-16T12:17:05Z","cross_cats_sorted":["q-bio.GN"],"title_canon_sha256":"b4162aad7cee55d385264eab3413ac8abbe2095516ae33a955b7e5e2f087a86f","abstract_canon_sha256":"aad29e8845e8b66ffe3d5f7c3d9a848522dd0d28b250d88d25cb5179121d7b92"},"schema_version":"1.0"},"canonical_sha256":"5665ec5fc0c6e988483500638c46bfd7e9616fc0b4babef43f9a0080b7d49974","source":{"kind":"arxiv","id":"1106.3211","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1106.3211","created_at":"2026-05-18T04:19:53Z"},{"alias_kind":"arxiv_version","alias_value":"1106.3211v1","created_at":"2026-05-18T04:19:53Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1106.3211","created_at":"2026-05-18T04:19:53Z"},{"alias_kind":"pith_short_12","alias_value":"KZS6YX6AY3UY","created_at":"2026-05-18T12:26:34Z"},{"alias_kind":"pith_short_16","alias_value":"KZS6YX6AY3UYQSBV","created_at":"2026-05-18T12:26:34Z"},{"alias_kind":"pith_short_8","alias_value":"KZS6YX6A","created_at":"2026-05-18T12:26:34Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2011:KZS6YX6AY3UYQSBVABRYYRV727","target":"record","payload":{"canonical_record":{"source":{"id":"1106.3211","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.ME","submitted_at":"2011-06-16T12:17:05Z","cross_cats_sorted":["q-bio.GN"],"title_canon_sha256":"b4162aad7cee55d385264eab3413ac8abbe2095516ae33a955b7e5e2f087a86f","abstract_canon_sha256":"aad29e8845e8b66ffe3d5f7c3d9a848522dd0d28b250d88d25cb5179121d7b92"},"schema_version":"1.0"},"canonical_sha256":"5665ec5fc0c6e988483500638c46bfd7e9616fc0b4babef43f9a0080b7d49974","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T04:19:53.990372Z","signature_b64":"HMV3/y18YtvmwnsndkSaWLY40X3d3IbIQBdTGwKbmODTcluA6+23rrS41vWPOPrVtLSUCpzrKPKBbhDZ+tMiCg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"5665ec5fc0c6e988483500638c46bfd7e9616fc0b4babef43f9a0080b7d49974","last_reissued_at":"2026-05-18T04:19:53.989677Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T04:19:53.989677Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"1106.3211","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":"2026-05-18T04:19:53Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"FH6WrSm4eMkf0ycMGgEzHEZ90WTE3Bl24JJFODTNnZRI8sq0y3gn0c2Rg9knM0cm360N/YFnW+fjUFnSqGFSDg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-04T08:32:59.191499Z"},"content_sha256":"b4489824ca95df06639f3ba89d4fcf5cd2e9c727467ad27704f8e4cc96abefae","schema_version":"1.0","event_id":"sha256:b4489824ca95df06639f3ba89d4fcf5cd2e9c727467ad27704f8e4cc96abefae"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2011:KZS6YX6AY3UYQSBVABRYYRV727","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Statistical Modeling of RNA-Seq Data","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["q-bio.GN"],"primary_cat":"stat.ME","authors_text":"Hui Jiang, Julia Salzman, Wing Hung Wong","submitted_at":"2011-06-16T12:17:05Z","abstract_excerpt":"Recently, ultra high-throughput sequencing of RNA (RNA-Seq) has been developed as an approach for analysis of gene expression. By obtaining tens or even hundreds of millions of reads of transcribed sequences, an RNA-Seq experiment can offer a comprehensive survey of the population of genes (transcripts) in any sample of interest. This paper introduces a statistical model for estimating isoform abundance from RNA-Seq data and is flexible enough to accommodate both single end and paired end RNA-Seq data and sampling bias along the length of the transcript. Based on the derivation of minimal suff"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1106.3211","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":""},"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":"2026-05-18T04:19:53Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"CZdKMbrri9AgstOuJEYBPtwXgt/J9xmdhMUBKksCN0J97KrxD+VlRUU9JouySJoFTDZEX65lAbwdAfzaOEkgAw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-04T08:32:59.192141Z"},"content_sha256":"fe37ddc0282f220078971266384194e3d74f817fbd6ddc2ea16d5ea679ddcd7c","schema_version":"1.0","event_id":"sha256:fe37ddc0282f220078971266384194e3d74f817fbd6ddc2ea16d5ea679ddcd7c"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/KZS6YX6AY3UYQSBVABRYYRV727/bundle.json","state_url":"https://pith.science/pith/KZS6YX6AY3UYQSBVABRYYRV727/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/KZS6YX6AY3UYQSBVABRYYRV727/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":"2026-06-04T08:32:59Z","links":{"resolver":"https://pith.science/pith/KZS6YX6AY3UYQSBVABRYYRV727","bundle":"https://pith.science/pith/KZS6YX6AY3UYQSBVABRYYRV727/bundle.json","state":"https://pith.science/pith/KZS6YX6AY3UYQSBVABRYYRV727/state.json","well_known_bundle":"https://pith.science/.well-known/pith/KZS6YX6AY3UYQSBVABRYYRV727/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2011:KZS6YX6AY3UYQSBVABRYYRV727","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":"aad29e8845e8b66ffe3d5f7c3d9a848522dd0d28b250d88d25cb5179121d7b92","cross_cats_sorted":["q-bio.GN"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.ME","submitted_at":"2011-06-16T12:17:05Z","title_canon_sha256":"b4162aad7cee55d385264eab3413ac8abbe2095516ae33a955b7e5e2f087a86f"},"schema_version":"1.0","source":{"id":"1106.3211","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1106.3211","created_at":"2026-05-18T04:19:53Z"},{"alias_kind":"arxiv_version","alias_value":"1106.3211v1","created_at":"2026-05-18T04:19:53Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1106.3211","created_at":"2026-05-18T04:19:53Z"},{"alias_kind":"pith_short_12","alias_value":"KZS6YX6AY3UY","created_at":"2026-05-18T12:26:34Z"},{"alias_kind":"pith_short_16","alias_value":"KZS6YX6AY3UYQSBV","created_at":"2026-05-18T12:26:34Z"},{"alias_kind":"pith_short_8","alias_value":"KZS6YX6A","created_at":"2026-05-18T12:26:34Z"}],"graph_snapshots":[{"event_id":"sha256:fe37ddc0282f220078971266384194e3d74f817fbd6ddc2ea16d5ea679ddcd7c","target":"graph","created_at":"2026-05-18T04:19:53Z","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":"Recently, ultra high-throughput sequencing of RNA (RNA-Seq) has been developed as an approach for analysis of gene expression. By obtaining tens or even hundreds of millions of reads of transcribed sequences, an RNA-Seq experiment can offer a comprehensive survey of the population of genes (transcripts) in any sample of interest. This paper introduces a statistical model for estimating isoform abundance from RNA-Seq data and is flexible enough to accommodate both single end and paired end RNA-Seq data and sampling bias along the length of the transcript. Based on the derivation of minimal suff","authors_text":"Hui Jiang, Julia Salzman, Wing Hung Wong","cross_cats":["q-bio.GN"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.ME","submitted_at":"2011-06-16T12:17:05Z","title":"Statistical Modeling of RNA-Seq Data"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1106.3211","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:b4489824ca95df06639f3ba89d4fcf5cd2e9c727467ad27704f8e4cc96abefae","target":"record","created_at":"2026-05-18T04:19:53Z","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":"aad29e8845e8b66ffe3d5f7c3d9a848522dd0d28b250d88d25cb5179121d7b92","cross_cats_sorted":["q-bio.GN"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"stat.ME","submitted_at":"2011-06-16T12:17:05Z","title_canon_sha256":"b4162aad7cee55d385264eab3413ac8abbe2095516ae33a955b7e5e2f087a86f"},"schema_version":"1.0","source":{"id":"1106.3211","kind":"arxiv","version":1}},"canonical_sha256":"5665ec5fc0c6e988483500638c46bfd7e9616fc0b4babef43f9a0080b7d49974","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"5665ec5fc0c6e988483500638c46bfd7e9616fc0b4babef43f9a0080b7d49974","first_computed_at":"2026-05-18T04:19:53.989677Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T04:19:53.989677Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"HMV3/y18YtvmwnsndkSaWLY40X3d3IbIQBdTGwKbmODTcluA6+23rrS41vWPOPrVtLSUCpzrKPKBbhDZ+tMiCg==","signature_status":"signed_v1","signed_at":"2026-05-18T04:19:53.990372Z","signed_message":"canonical_sha256_bytes"},"source_id":"1106.3211","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:b4489824ca95df06639f3ba89d4fcf5cd2e9c727467ad27704f8e4cc96abefae","sha256:fe37ddc0282f220078971266384194e3d74f817fbd6ddc2ea16d5ea679ddcd7c"],"state_sha256":"aa81b2da0ee3560833908cb0715bc4b8066c2cf406ca6c5b4ab80f79e6e2f66c"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"ZNOr8VbPEbYD2OQf0lBk8wszhfkOJEdh+XmW7l4/bc1zS7g/IMX9ihSGUf1yhJVfYqIxokRFlQ5KG82v+N50Dg==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-04T08:32:59.196539Z","bundle_sha256":"d6354559768c80d50cd322afe6e11077dcf1aa0b41e72d07f2bd4cf4ea99fe9f"}}