{"record_type":"pith_number_record","schema_url":"https://pith.science/schemas/pith-number/v1.json","pith_number":"pith:2013:TXJATU62VVHWIS6F73TR22G2LM","short_pith_number":"pith:TXJATU62","schema_version":"1.0","canonical_sha256":"9dd209d3daad4f644bc5fee71d68da5b3ea256a7955d765007ddcc64843cda8b","source":{"kind":"arxiv","id":"1306.1511","version":1},"attestation_state":"computed","paper":{"title":"SPATA: A Seeding and Patching Algorithm for Hybrid Transcriptome Assembly","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["q-bio.GN"],"primary_cat":"cs.CE","authors_text":"Dongxiao Zhu, Tin Chi Nguyen, Zhiyu Zhao","submitted_at":"2013-06-06T19:09:18Z","abstract_excerpt":"Transcriptome assembly from RNA-Seq reads is an active area of bioinformatics research. The ever-declining cost and the increasing depth of RNA-Seq have provided unprecedented opportunities to better identify expressed transcripts. However, the nonlinear transcript structures and the ultra-high throughput of RNA-Seq reads pose significant algorithmic and computational challenges to the existing transcriptome assembly approaches, either reference-guided or de novo. While reference-guided approaches offer good sensitivity, they rely on alignment results of the splice-aware aligners and are thus "},"verification_status":{"content_addressed":true,"pith_receipt":true,"author_attested":false,"weak_author_claims":0,"strong_author_claims":0,"externally_anchored":false,"storage_verified":false,"citation_signatures":0,"replication_records":0,"graph_snapshot":true,"references_resolved":false,"formal_links_present":false},"canonical_record":{"source":{"id":"1306.1511","kind":"arxiv","version":1},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cs.CE","submitted_at":"2013-06-06T19:09:18Z","cross_cats_sorted":["q-bio.GN"],"title_canon_sha256":"cbc3bd4c6db12ee71e49746b84829ff83abee23ae00316d491f8b8f82992068b","abstract_canon_sha256":"c3bd61783c8700fcfe9573303e2140275738653413daf80015e9f654144598f1"},"schema_version":"1.0"},"receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T03:21:33.981770Z","signature_b64":"79yF9mZpwaA3+Tv0/Ci1FwLTN8rwqJB2FWJcGYjQuxtHOczQtKgc6yzxhBGPcyPZbXqERSS65uPakfbdCQ+XCw==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"9dd209d3daad4f644bc5fee71d68da5b3ea256a7955d765007ddcc64843cda8b","last_reissued_at":"2026-05-18T03:21:33.980871Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T03:21:33.980871Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"graph_snapshot":{"paper":{"title":"SPATA: A Seeding and Patching Algorithm for Hybrid Transcriptome Assembly","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["q-bio.GN"],"primary_cat":"cs.CE","authors_text":"Dongxiao Zhu, Tin Chi Nguyen, Zhiyu Zhao","submitted_at":"2013-06-06T19:09:18Z","abstract_excerpt":"Transcriptome assembly from RNA-Seq reads is an active area of bioinformatics research. The ever-declining cost and the increasing depth of RNA-Seq have provided unprecedented opportunities to better identify expressed transcripts. However, the nonlinear transcript structures and the ultra-high throughput of RNA-Seq reads pose significant algorithmic and computational challenges to the existing transcriptome assembly approaches, either reference-guided or de novo. While reference-guided approaches offer good sensitivity, they rely on alignment results of the splice-aware aligners and are thus "},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1306.1511","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"},"aliases":[{"alias_kind":"arxiv","alias_value":"1306.1511","created_at":"2026-05-18T03:21:33.981020+00:00"},{"alias_kind":"arxiv_version","alias_value":"1306.1511v1","created_at":"2026-05-18T03:21:33.981020+00:00"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1306.1511","created_at":"2026-05-18T03:21:33.981020+00:00"},{"alias_kind":"pith_short_12","alias_value":"TXJATU62VVHW","created_at":"2026-05-18T12:28:02.375192+00:00"},{"alias_kind":"pith_short_16","alias_value":"TXJATU62VVHWIS6F","created_at":"2026-05-18T12:28:02.375192+00:00"},{"alias_kind":"pith_short_8","alias_value":"TXJATU62","created_at":"2026-05-18T12:28:02.375192+00:00"}],"events":[],"event_summary":{},"paper_claims":[],"inbound_citations":{"count":0,"internal_anchor_count":0,"sample":[]},"formal_canon":{"evidence_count":0,"sample":[],"anchors":[]},"links":{"html":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM","json":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM.json","graph_json":"https://pith.science/api/pith-number/TXJATU62VVHWIS6F73TR22G2LM/graph.json","events_json":"https://pith.science/api/pith-number/TXJATU62VVHWIS6F73TR22G2LM/events.json","paper":"https://pith.science/paper/TXJATU62"},"agent_actions":{"view_html":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM","download_json":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM.json","view_paper":"https://pith.science/paper/TXJATU62","resolve_alias":"https://pith.science/api/pith-number/resolve?arxiv=1306.1511&json=true","fetch_graph":"https://pith.science/api/pith-number/TXJATU62VVHWIS6F73TR22G2LM/graph.json","fetch_events":"https://pith.science/api/pith-number/TXJATU62VVHWIS6F73TR22G2LM/events.json","actions":{"anchor_timestamp":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM/action/timestamp_anchor","attest_storage":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM/action/storage_attestation","attest_author":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM/action/author_attestation","sign_citation":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM/action/citation_signature","submit_replication":"https://pith.science/pith/TXJATU62VVHWIS6F73TR22G2LM/action/replication_record"}},"created_at":"2026-05-18T03:21:33.981020+00:00","updated_at":"2026-05-18T03:21:33.981020+00:00"}