{"artifact":{"id":"experiment-exp-96dbc4e0-6054-49b0-8189-ae27b5495379","artifact_type":"experiment","entity_ids":"[]","title":"Transcriptomic profiling and differential expression analysis","quality_score":0.9,"created_by":"experiment_extractor","provenance_chain":"[]","content_hash":"369717acf6178307c7f486f2fd1c95f93587f29dce77e17f26744e8aea895bee","metadata":{"_origin":{"url":null,"type":"internal","tracked_at":"2026-04-10T22:35:16.610144"},"p_value":null,"protocol":"RNA sequencing followed by differential expression analysis","effect_size":null,"sample_size":null,"source_pmid":"41940832","extracted_at":"2026-04-10T15:35:16.475045","_schema_version":1,"experiment_type":"gene_expression","success_criteria":"Statistical significance in differential expression analysis","expected_outcomes":"Identification of dysregulated transcripts in early-stage AD","statistical_methods":"differential expression analysis"},"created_at":"2026-04-10T22:35:16-07:00","updated_at":"2026-04-10T22:35:16-07:00","version_number":4,"parent_version_id":null,"version_tag":null,"changelog":null,"is_latest":1,"lifecycle_state":"active","superseded_by":null,"deprecated_at":null,"deprecated_reason":null,"dependencies":null,"market_price":0.5,"origin_type":"internal","origin_url":null,"lifecycle_changed_at":"2026-04-10T22:35:16-07:00","citation_count":0,"embed_count":0,"derivation_count":0,"support_count":0,"contradiction_count":0,"total_usage":0.0,"usage_score":0.5,"usage_computed_at":null,"quality_status":"ok","contributors":[],"answers_question_ids":null,"deprecated_reason_detail":null,"deprecated_reason_code":null,"commit_sha":null,"commit_submodule":null,"last_mutated_at":"2026-05-16T14:51:34.657673-07:00","disputed_at":null,"gap_id":null,"mission_id":null,"intrinsic_priority":null,"effective_priority":null,"artifact_id":"54b866da-c8e5-4aab-943a-2adba1f3258b","artifact_dir":null,"primary_filename":null,"accessory_filenames":null,"folder_layout_version":1,"migrated_to_folder_at":null,"hypothesis_id":null,"authorship":{"kind":"human","contributors":[{"role":"author","actor_ref":"experiment_extractor"}]},"epistemic_tier":"T3_provisional","created_by_agent_id":null},"outgoing_links":[{"target_artifact_id":"wiki-models-app-ps1-dual-transgenic-model","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-mechanisms-app-processing","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-proteins-app","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-preclinical-alzheimers-disease","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-mechanisms-app-ps1-double-transgenic-mouse","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-alzheimers-parkinsons-comparison","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-app-flemish-mutation","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-early-onset-alzheimers","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-app-arctic-mutation","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-dementia-lewy-bodies-parkinsons-alzheimers-comparison","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-entities-app","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-mechanisms-app-amyloid-beta-plaque-ad-causal-chain","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-psen2-mutations-in-ad","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-genes-app","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-mechanisms-app-bace1-fe65-complex","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-trem2-variants-in-ad","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-cell-types-app-overexpressing-neurons","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-app-mutations-in-ad","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-ideas-payload-app-dosage-reduction-ds-therapy","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-agitation-alzheimers","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-app-swedish-mutation","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-diseases-psen1-mutations","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-alzheimers-genetic-variants","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-sporadic-familial-ad-comparison","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-investment-landscape-alzheimers","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-prodromal-alzheimers-disease","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-alzheimers-disease","link_type":"related","strength":0.54,"evidence":"Reverse: Disease match: alzheimer's disease"},{"target_artifact_id":"wiki-diseases-app-dutch-mutation","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-mechanisms-app-amyloid-pathway-alzheimers","link_type":"related","strength":0.63,"evidence":"Reverse: Gene mention: APP"},{"target_artifact_id":"wiki-genes-app","link_type":"mentions","strength":0.5,"evidence":"Entity APP in experiment"}],"incoming_links":[{"source_artifact_id":"wiki-models-app-ps1-dual-transgenic-model","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-mechanisms-app-processing","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-proteins-app","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-preclinical-alzheimers-disease","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-mechanisms-app-ps1-double-transgenic-mouse","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-alzheimers-parkinsons-comparison","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-app-flemish-mutation","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-early-onset-alzheimers","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-app-arctic-mutation","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-dementia-lewy-bodies-parkinsons-alzheimers-comparison","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-entities-app","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-mechanisms-app-amyloid-beta-plaque-ad-causal-chain","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-psen2-mutations-in-ad","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-genes-app","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-mechanisms-app-bace1-fe65-complex","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-trem2-variants-in-ad","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-cell-types-app-overexpressing-neurons","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-app-mutations-in-ad","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-ideas-payload-app-dosage-reduction-ds-therapy","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-agitation-alzheimers","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-app-swedish-mutation","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-psen1-mutations","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-alzheimers-genetic-variants","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-sporadic-familial-ad-comparison","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-investment-landscape-alzheimers","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-prodromal-alzheimers-disease","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-alzheimers-disease","link_type":"mentions","strength":0.6,"evidence":"Disease match: alzheimer's disease"},{"source_artifact_id":"wiki-diseases-app-dutch-mutation","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-mechanisms-app-amyloid-pathway-alzheimers","link_type":"mentions","strength":0.7,"evidence":"Gene mention: APP"},{"source_artifact_id":"wiki-diseases-alzheimers-disease","link_type":"related","strength":0.6,"evidence":"Disease match: Alzheimer's disease"},{"source_artifact_id":"open_question-557e39f7-3cb6-4da9-bad0-5e8194282520","link_type":"partial_answer_for","strength":0.58,"evidence":"{\"confidence\": 0.58, \"judge_persona\": \"domain-expert\", \"model\": \"all-MiniLM-L6-v2\"}"}],"current_artifact_id":"experiment-exp-96dbc4e0-6054-49b0-8189-ae27b5495379","is_canonical":true,"supersede_chain":["experiment-exp-96dbc4e0-6054-49b0-8189-ae27b5495379"]}