{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2014:23LIFW54EZ5SQHB5FIBX6D4J6P","short_pith_number":"pith:23LIFW54","canonical_record":{"source":{"id":"1406.7140","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/3.0/","primary_cat":"q-bio.GN","submitted_at":"2014-06-27T10:21:30Z","cross_cats_sorted":[],"title_canon_sha256":"d9c08a0e96e68c5ee534b23b49c92f112038c31c6b44330896a9166abe77c308","abstract_canon_sha256":"13b8496d92e7f364dab36ac4df55e8a19a3dd5e92baf2c101fff33ec7f47379b"},"schema_version":"1.0"},"canonical_sha256":"d6d682dbbc267b281c3d2a037f0f89f3cea698ba968b996626e80f54b5932992","source":{"kind":"arxiv","id":"1406.7140","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1406.7140","created_at":"2026-05-18T02:48:54Z"},{"alias_kind":"arxiv_version","alias_value":"1406.7140v1","created_at":"2026-05-18T02:48:54Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1406.7140","created_at":"2026-05-18T02:48:54Z"},{"alias_kind":"pith_short_12","alias_value":"23LIFW54EZ5S","created_at":"2026-05-18T12:28:09Z"},{"alias_kind":"pith_short_16","alias_value":"23LIFW54EZ5SQHB5","created_at":"2026-05-18T12:28:09Z"},{"alias_kind":"pith_short_8","alias_value":"23LIFW54","created_at":"2026-05-18T12:28:09Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2014:23LIFW54EZ5SQHB5FIBX6D4J6P","target":"record","payload":{"canonical_record":{"source":{"id":"1406.7140","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/3.0/","primary_cat":"q-bio.GN","submitted_at":"2014-06-27T10:21:30Z","cross_cats_sorted":[],"title_canon_sha256":"d9c08a0e96e68c5ee534b23b49c92f112038c31c6b44330896a9166abe77c308","abstract_canon_sha256":"13b8496d92e7f364dab36ac4df55e8a19a3dd5e92baf2c101fff33ec7f47379b"},"schema_version":"1.0"},"canonical_sha256":"d6d682dbbc267b281c3d2a037f0f89f3cea698ba968b996626e80f54b5932992","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T02:48:54.005535Z","signature_b64":"XZL/+nR4SyOKNVIevMkU0xse8rcRwmr3gaC0WEQIZV1Scx6uJGJCMBWJ8fPtHaPbbRXR5NULJLGaGYrY8471Dg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"d6d682dbbc267b281c3d2a037f0f89f3cea698ba968b996626e80f54b5932992","last_reissued_at":"2026-05-18T02:48:54.004980Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T02:48:54.004980Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"1406.7140","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":"2026-05-18T02:48:54Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"yTa0h4V5Mq/oawGQIGCQs0iAlvrxfXfbMvWtu3adu2stlcO6bSRs6xJ8oAAduc9/hM+kIFceYqtkfyRQXVQLDQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-25T22:39:26.578491Z"},"content_sha256":"fc91bedca1622850e57f91a7e878c0db3cd328c5ffd2f97f8d0cdb134360745c","schema_version":"1.0","event_id":"sha256:fc91bedca1622850e57f91a7e878c0db3cd328c5ffd2f97f8d0cdb134360745c"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2014:23LIFW54EZ5SQHB5FIBX6D4J6P","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Conservation and losses of avian non-coding RNA loci","license":"http://creativecommons.org/licenses/by/3.0/","headline":"","cross_cats":[],"primary_cat":"q-bio.GN","authors_text":"Jana Hertel, Maria Ninova, Mario Fasold, Paul P. Gardner, Peter F. Stadler, Sam Griffiths-Jones, Sarah W. Burge, Stephanie Kehr, Tammy E. Steeves","submitted_at":"2014-06-27T10:21:30Z","abstract_excerpt":"Here we present the results of a large-scale bioinformatic annotation of non-coding RNA loci in 48 avian genomes. Our approach uses probabilistic models of hand-curated families from the Rfam database to infer conserved RNA families within each avian genome. We supplement these annotations with predictions from the tRNA annotation tool, tRNAscan-SE and microRNAs from miRBase. We show that a number of lncRNA-associated loci are conserved between birds and mammals, including several intriguing cases where the reported mammalian lncRNA function is not conserved in birds. We also demonstrate exten"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1406.7140","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":"2026-05-18T02:48:54Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"1NhDG46NN5kLXjGN2K6Rh8UNPrdSdod3TxLkNKEAo/7Aepj1MkKPDpDb/9nsm4W7ZoTMTEotjZp0ZemRDFTZBQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-25T22:39:26.578841Z"},"content_sha256":"391c30c1c3b18fc8e4f34d24e098e7222051ed75b6c44c2dd01565df27206ab6","schema_version":"1.0","event_id":"sha256:391c30c1c3b18fc8e4f34d24e098e7222051ed75b6c44c2dd01565df27206ab6"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/23LIFW54EZ5SQHB5FIBX6D4J6P/bundle.json","state_url":"https://pith.science/pith/23LIFW54EZ5SQHB5FIBX6D4J6P/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/23LIFW54EZ5SQHB5FIBX6D4J6P/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":"2026-06-25T22:39:26Z","links":{"resolver":"https://pith.science/pith/23LIFW54EZ5SQHB5FIBX6D4J6P","bundle":"https://pith.science/pith/23LIFW54EZ5SQHB5FIBX6D4J6P/bundle.json","state":"https://pith.science/pith/23LIFW54EZ5SQHB5FIBX6D4J6P/state.json","well_known_bundle":"https://pith.science/.well-known/pith/23LIFW54EZ5SQHB5FIBX6D4J6P/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2014:23LIFW54EZ5SQHB5FIBX6D4J6P","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":"13b8496d92e7f364dab36ac4df55e8a19a3dd5e92baf2c101fff33ec7f47379b","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/3.0/","primary_cat":"q-bio.GN","submitted_at":"2014-06-27T10:21:30Z","title_canon_sha256":"d9c08a0e96e68c5ee534b23b49c92f112038c31c6b44330896a9166abe77c308"},"schema_version":"1.0","source":{"id":"1406.7140","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1406.7140","created_at":"2026-05-18T02:48:54Z"},{"alias_kind":"arxiv_version","alias_value":"1406.7140v1","created_at":"2026-05-18T02:48:54Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1406.7140","created_at":"2026-05-18T02:48:54Z"},{"alias_kind":"pith_short_12","alias_value":"23LIFW54EZ5S","created_at":"2026-05-18T12:28:09Z"},{"alias_kind":"pith_short_16","alias_value":"23LIFW54EZ5SQHB5","created_at":"2026-05-18T12:28:09Z"},{"alias_kind":"pith_short_8","alias_value":"23LIFW54","created_at":"2026-05-18T12:28:09Z"}],"graph_snapshots":[{"event_id":"sha256:391c30c1c3b18fc8e4f34d24e098e7222051ed75b6c44c2dd01565df27206ab6","target":"graph","created_at":"2026-05-18T02:48:54Z","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":"Here we present the results of a large-scale bioinformatic annotation of non-coding RNA loci in 48 avian genomes. Our approach uses probabilistic models of hand-curated families from the Rfam database to infer conserved RNA families within each avian genome. We supplement these annotations with predictions from the tRNA annotation tool, tRNAscan-SE and microRNAs from miRBase. We show that a number of lncRNA-associated loci are conserved between birds and mammals, including several intriguing cases where the reported mammalian lncRNA function is not conserved in birds. We also demonstrate exten","authors_text":"Jana Hertel, Maria Ninova, Mario Fasold, Paul P. Gardner, Peter F. Stadler, Sam Griffiths-Jones, Sarah W. Burge, Stephanie Kehr, Tammy E. Steeves","cross_cats":[],"headline":"","license":"http://creativecommons.org/licenses/by/3.0/","primary_cat":"q-bio.GN","submitted_at":"2014-06-27T10:21:30Z","title":"Conservation and losses of avian non-coding RNA loci"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1406.7140","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:fc91bedca1622850e57f91a7e878c0db3cd328c5ffd2f97f8d0cdb134360745c","target":"record","created_at":"2026-05-18T02:48:54Z","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":"13b8496d92e7f364dab36ac4df55e8a19a3dd5e92baf2c101fff33ec7f47379b","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/3.0/","primary_cat":"q-bio.GN","submitted_at":"2014-06-27T10:21:30Z","title_canon_sha256":"d9c08a0e96e68c5ee534b23b49c92f112038c31c6b44330896a9166abe77c308"},"schema_version":"1.0","source":{"id":"1406.7140","kind":"arxiv","version":1}},"canonical_sha256":"d6d682dbbc267b281c3d2a037f0f89f3cea698ba968b996626e80f54b5932992","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"d6d682dbbc267b281c3d2a037f0f89f3cea698ba968b996626e80f54b5932992","first_computed_at":"2026-05-18T02:48:54.004980Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T02:48:54.004980Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"XZL/+nR4SyOKNVIevMkU0xse8rcRwmr3gaC0WEQIZV1Scx6uJGJCMBWJ8fPtHaPbbRXR5NULJLGaGYrY8471Dg==","signature_status":"signed_v1","signed_at":"2026-05-18T02:48:54.005535Z","signed_message":"canonical_sha256_bytes"},"source_id":"1406.7140","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:fc91bedca1622850e57f91a7e878c0db3cd328c5ffd2f97f8d0cdb134360745c","sha256:391c30c1c3b18fc8e4f34d24e098e7222051ed75b6c44c2dd01565df27206ab6"],"state_sha256":"1f411d9d77a7752295af3b78074ad4e3c9f260eb9bd42262f5f1b180878a1857"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"/xEiglcI6Xc4XwlIhgAOTfxkC0SUEQ4LIocYKGbMU2Tzv7MUuJaLQoHa3+Gb83TFf3/ai8y8qtaqy+eoT8AXAw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-25T22:39:26.580794Z","bundle_sha256":"0a48db94baf627c33cc956c092bfd556ae1e6c02a356ef36a92990fac3ccf4ac"}}