{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2024:HNGHIIFT7OWY2VCZVFAIGKYWGM","short_pith_number":"pith:HNGHIIFT","canonical_record":{"source":{"id":"2409.03935","kind":"arxiv","version":4},"metadata":{"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"cs.DM","submitted_at":"2024-09-05T23:01:31Z","cross_cats_sorted":["cs.DS","q-bio.PE"],"title_canon_sha256":"87dd7035d8f5ff92db3a13aa7064ceb3530f01460412942e1e60e123d8d7a8dd","abstract_canon_sha256":"bfe38d15de52396ce39341f94040dca220f0aec39dd28fc204903c3e9cb07551"},"schema_version":"1.0"},"canonical_sha256":"3b4c7420b3fbad8d5459a940832b163314062b3a3aa205d699082699e246a67a","source":{"kind":"arxiv","id":"2409.03935","version":4},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2409.03935","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"arxiv_version","alias_value":"2409.03935v4","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2409.03935","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"pith_short_12","alias_value":"HNGHIIFT7OWY","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"pith_short_16","alias_value":"HNGHIIFT7OWY2VCZ","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"pith_short_8","alias_value":"HNGHIIFT","created_at":"2026-07-05T11:21:35Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2024:HNGHIIFT7OWY2VCZVFAIGKYWGM","target":"record","payload":{"canonical_record":{"source":{"id":"2409.03935","kind":"arxiv","version":4},"metadata":{"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"cs.DM","submitted_at":"2024-09-05T23:01:31Z","cross_cats_sorted":["cs.DS","q-bio.PE"],"title_canon_sha256":"87dd7035d8f5ff92db3a13aa7064ceb3530f01460412942e1e60e123d8d7a8dd","abstract_canon_sha256":"bfe38d15de52396ce39341f94040dca220f0aec39dd28fc204903c3e9cb07551"},"schema_version":"1.0"},"canonical_sha256":"3b4c7420b3fbad8d5459a940832b163314062b3a3aa205d699082699e246a67a","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T11:21:35.411554Z","signature_b64":"EvTk1D/HhGFKIHgyc/xK1xBq16wHHFKbkBXbT+K5R1XPaG3AV/9k49obB4WbylIcCf4B7Nay8UzCcjmDuUJiDg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"3b4c7420b3fbad8d5459a940832b163314062b3a3aa205d699082699e246a67a","last_reissued_at":"2026-07-05T11:21:35.411058Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T11:21:35.411058Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2409.03935","source_version":4,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T11:21:35Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"NIPEtMplsBqJVKrXK91DasrjbJCJdcvMzedmeH5NFB1Y4YoFN95QfUNkJuk4GHudMSc8JaS3QzfKf3E8tyGwDw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-06T08:48:51.621139Z"},"content_sha256":"5bbd1545af046e04544cdf0976d99f9082abac4106522dcced6c2b08ab875f5b","schema_version":"1.0","event_id":"sha256:5bbd1545af046e04544cdf0976d99f9082abac4106522dcced6c2b08ab875f5b"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2024:HNGHIIFT7OWY2VCZVFAIGKYWGM","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Galled Perfect Transfer Networks","license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","headline":"","cross_cats":["cs.DS","q-bio.PE"],"primary_cat":"cs.DM","authors_text":"Alitzel L\\'opez S\\'anchez, Manuel Lafond","submitted_at":"2024-09-05T23:01:31Z","abstract_excerpt":"Predicting horizontal gene transfers often requires comparative sequence data, but recent work has shown that character-based approaches could also be useful for this task. Notably, perfect transfer networks (PTN) explain the character diversity of a set of taxa for traits that are gained once, rarely lost, but that can be transferred laterally. Characterizing the structure of such characters is an important step towards understanding more complex characters. Although efficient algorithms can infer such networks from character data, they can sometimes predict overly complicated transfer histor"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2409.03935","kind":"arxiv","version":4},"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/2409.03935/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":"2026-07-05T11:21:35Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"7X8OKqUb2jFZW02MYWN0IzJei6uIGdD64PKs0f2b2Brqa56N2hGGnMkA4AZ5y2tupAO3iNDRxqAd4dK8VnahDQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-06T08:48:51.621526Z"},"content_sha256":"b2feef1d311283d084c2049f73dfe6503f7d9aa4ea6528db6a084e128ac4aec1","schema_version":"1.0","event_id":"sha256:b2feef1d311283d084c2049f73dfe6503f7d9aa4ea6528db6a084e128ac4aec1"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/HNGHIIFT7OWY2VCZVFAIGKYWGM/bundle.json","state_url":"https://pith.science/pith/HNGHIIFT7OWY2VCZVFAIGKYWGM/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/HNGHIIFT7OWY2VCZVFAIGKYWGM/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":"2026-07-06T08:48:51Z","links":{"resolver":"https://pith.science/pith/HNGHIIFT7OWY2VCZVFAIGKYWGM","bundle":"https://pith.science/pith/HNGHIIFT7OWY2VCZVFAIGKYWGM/bundle.json","state":"https://pith.science/pith/HNGHIIFT7OWY2VCZVFAIGKYWGM/state.json","well_known_bundle":"https://pith.science/.well-known/pith/HNGHIIFT7OWY2VCZVFAIGKYWGM/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2024:HNGHIIFT7OWY2VCZVFAIGKYWGM","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":"bfe38d15de52396ce39341f94040dca220f0aec39dd28fc204903c3e9cb07551","cross_cats_sorted":["cs.DS","q-bio.PE"],"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"cs.DM","submitted_at":"2024-09-05T23:01:31Z","title_canon_sha256":"87dd7035d8f5ff92db3a13aa7064ceb3530f01460412942e1e60e123d8d7a8dd"},"schema_version":"1.0","source":{"id":"2409.03935","kind":"arxiv","version":4}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2409.03935","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"arxiv_version","alias_value":"2409.03935v4","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2409.03935","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"pith_short_12","alias_value":"HNGHIIFT7OWY","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"pith_short_16","alias_value":"HNGHIIFT7OWY2VCZ","created_at":"2026-07-05T11:21:35Z"},{"alias_kind":"pith_short_8","alias_value":"HNGHIIFT","created_at":"2026-07-05T11:21:35Z"}],"graph_snapshots":[{"event_id":"sha256:b2feef1d311283d084c2049f73dfe6503f7d9aa4ea6528db6a084e128ac4aec1","target":"graph","created_at":"2026-07-05T11:21:35Z","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/2409.03935/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Predicting horizontal gene transfers often requires comparative sequence data, but recent work has shown that character-based approaches could also be useful for this task. Notably, perfect transfer networks (PTN) explain the character diversity of a set of taxa for traits that are gained once, rarely lost, but that can be transferred laterally. Characterizing the structure of such characters is an important step towards understanding more complex characters. Although efficient algorithms can infer such networks from character data, they can sometimes predict overly complicated transfer histor","authors_text":"Alitzel L\\'opez S\\'anchez, Manuel Lafond","cross_cats":["cs.DS","q-bio.PE"],"headline":"","license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"cs.DM","submitted_at":"2024-09-05T23:01:31Z","title":"Galled Perfect Transfer Networks"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2409.03935","kind":"arxiv","version":4},"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":"sha256:5bbd1545af046e04544cdf0976d99f9082abac4106522dcced6c2b08ab875f5b","target":"record","created_at":"2026-07-05T11:21:35Z","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":"bfe38d15de52396ce39341f94040dca220f0aec39dd28fc204903c3e9cb07551","cross_cats_sorted":["cs.DS","q-bio.PE"],"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"cs.DM","submitted_at":"2024-09-05T23:01:31Z","title_canon_sha256":"87dd7035d8f5ff92db3a13aa7064ceb3530f01460412942e1e60e123d8d7a8dd"},"schema_version":"1.0","source":{"id":"2409.03935","kind":"arxiv","version":4}},"canonical_sha256":"3b4c7420b3fbad8d5459a940832b163314062b3a3aa205d699082699e246a67a","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"3b4c7420b3fbad8d5459a940832b163314062b3a3aa205d699082699e246a67a","first_computed_at":"2026-07-05T11:21:35.411058Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T11:21:35.411058Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"EvTk1D/HhGFKIHgyc/xK1xBq16wHHFKbkBXbT+K5R1XPaG3AV/9k49obB4WbylIcCf4B7Nay8UzCcjmDuUJiDg==","signature_status":"signed_v1","signed_at":"2026-07-05T11:21:35.411554Z","signed_message":"canonical_sha256_bytes"},"source_id":"2409.03935","source_kind":"arxiv","source_version":4}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:5bbd1545af046e04544cdf0976d99f9082abac4106522dcced6c2b08ab875f5b","sha256:b2feef1d311283d084c2049f73dfe6503f7d9aa4ea6528db6a084e128ac4aec1"],"state_sha256":"2ef4ebfadf75bcff3a9e41bd77640394f18cb6df73cfc01de34b71352498bcb0"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"AZLaoRNHi4MyG/gdv057qoA+a4kom41rGYq3DtKjk0oQjWT2AX2HJEMS9TU1tW4hj41r5FBv9BpQZRNLOvC8Bw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-06T08:48:51.623455Z","bundle_sha256":"09f7ccd49981ae052b1d91d588b6efe64e6a8d9e363392f685955f5935db1812"}}