BCL2 and hsa-miR-181a-5p are potential biomarkers associated with papillary thyroid cancer based on bioinformatics analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:31842912", "kind": "science-record", "revision": 7, "content_hash": "sha256:4f0154a4fbc12a8740728dd436b18f40b9441b9f2b864cfdb9b89bffac9e39ea", "created_at": "2026-11-01T15:40:53Z", "updated_at": "2026-11-01T22:01:07Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "BCL2 and hsa-miR-181a-5p are potential biomarkers associated with papillary thyroid cancer based on bioinformatics analysis.", "doi": "10.1186/s12957-019-1755-9", "pmid": "31842912", "authors": ["Cong Zhang", "Chunrui Bo", "Lunhua Guo", "Pingyang Yu", "Susheng Miao", "Xin Gu"], "journal": "World journal of surgical oncology", "year": 2019, "abstract": "BACKGROUND: The morbidity of thyroid carcinoma has been rising worldwide and increasing faster than any other cancer type. The most common subtype with the best prognosis is papillary thyroid cancer (PTC); however, the exact molecular pathogenesis of PTC is still not completely understood.\nMETHODS: In the current study, 3 gene expression datasets (GSE3678, GSE3467, and GSE33630) and 2 miRNA expression datasets (GSE113629 and GSE73182) of PTC were selected from the Gene Expression Omnibus (GEO) database and were further used to identify differentially expressed genes (DEGs) and deregulated miRNAs between normal thyroid tissue samples and PTC samples. Then, Gene Ontology (GO) and pathway enrichment analyses were conducted, and a protein-protein interaction (PPI) network was constructed to explore the potential mechanism of PTC carcinogenesis. The hub gene detection was performed using the CentiScaPe v2.0 plugin, and significant modules were discovered using the MCODE plugin for Cytoscape. In addition, a miRNA-gene regulatory network in PTC was constructed using common deregulated miRNAs and DEGs.\nRESULTS: A total of 263 common DEGs and 12 common deregulated miRNAs were identified. Then, 6 significant KEGG pathways (P < 0.05) and 82 significant GO terms were found to be enriched, indicating that PTC was closely related to amino acid metabolism, development, immune system, and endocrine system. In addition, by constructing a PPI network and miRNA-gene regulatory network, we found that hsa-miR-181a-5p regulated the most DEGs, while BCL2 was targeted by the most miRNAs.\nCONCLUSIONS: The results of this study suggested that hsa-miR-181a-5p and BCL2 and their regulatory networks may play important roles in the pathogenesis of PTC.", "claims": [{"id": "claim-method", "statement": "The Benjamin and Hochberg false discovery rate (FDR) method was used to correct the adjusted P value and correct the occurrence of false positive results.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31842912", "locator": "sections[4] \"Identification of DEGs and deregulated miRNA\" paragraph 2", "quote": "The Benjamin and Hochberg false discovery rate (FDR) method was used to correct the adjusted P value and correct the occurrence of false positive results."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31842912", "locator": "sections[26] \"notes\" paragraph 1", "quote": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:31842912"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE113629"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE113629"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:31842912", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1186/s12957-019-1755-9", "sha256": "sha256:7e12aa6a26c647cb9a63c036d0e9fdf488be5244b128d3359dab98766ae702ed", "bytes": 33383, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1186/s12957-019-1755-9", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC6916035", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE113629", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE113629", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE113629", "version": null, "note": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM3110474", "GSM3110475", "GSM3110476", "GSM3110477", "GSM3110478", "GSM3110479", "GSM3110480", "GSM3110481", "GSM3110482", "GSM3110483"], "sample_count": 10, "group_sizes": null, "group_sizes_basis": null, "platform": "24741", "taxon": "Homo sapiens", "title": "microRNA expression profiling of papillary thyroid carcinoma (PTC) and matched adjacent normal thyroid tissues", "resolution_checked_at": "2026-11-01T15:39:54Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE33630", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE33630", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE33630", "version": null, "note": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM831749", "GSM831750", "GSM831751", "GSM831752", "GSM831753", "GSM831754", "GSM831755", "GSM831756", "GSM831757", "GSM831758", "GSM831759", "GSM831760", "GSM831761", "GSM831762", "GSM831763", "GSM831764", "GSM831765", "GSM831766", "GSM831767", "GSM831768", "GSM831769", "GSM831770", "GSM831771", "GSM831772", "GSM831773", "GSM831774", "GSM831775", "GSM831776", "GSM831777", "GSM831778", "GSM831779", "GSM831780", "GSM831781", "GSM831782", "GSM831783", "GSM831784", "GSM831785", "GSM831786", "GSM831787", "GSM831788", "GSM831789", "GSM831790", "GSM831791", "GSM831792", "GSM831793", "GSM831794", "GSM831795", "GSM831796", "GSM831797", "GSM831798", "GSM831799", "GSM831800", "GSM831801", "GSM831802", "GSM831803", "GSM831804", "GSM831805", "GSM831806", "GSM831807", "GSM831808", "GSM831809", "GSM831810", "GSM831811", "GSM831812", "GSM831813", "GSM831814", "GSM831815", "GSM831816", "GSM831817", "GSM831818", "GSM831819", "GSM831820", "GSM831821", "GSM831822", "GSM831823", "GSM831824", "GSM831825", "GSM831826", "GSM831827", "GSM831828", "GSM831829", "GSM831830", "GSM831831", "GSM831832", "GSM831833", "GSM831834", "GSM831835", "GSM831836", "GSM831837", "GSM831838", "GSM831839", "GSM831840", "GSM831841", "GSM831842", "GSM831843", "GSM831844", "GSM831845", "GSM831846", "GSM831847", "GSM831848", "GSM831849", "GSM831850", "GSM831851", "GSM831852", "GSM831853"], "sample_count": 105, "group_sizes": null, "group_sizes_basis": null, "platform": "570", "taxon": "Homo sapiens", "title": "Normal thyrocytes vs papillary vs anaplastic thyroid carcinomas", "resolution_checked_at": "2026-11-01T15:39:54Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE3467", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3467", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE3467", "version": null, "note": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM77362", "GSM77363", "GSM77364", "GSM77365", "GSM77366", "GSM77367", "GSM77368", "GSM77369", "GSM77370", "GSM77371", "GSM77372", "GSM77373", "GSM77374", "GSM77375", "GSM77376", "GSM77377", "GSM77378", "GSM77379"], "sample_count": 18, "group_sizes": null, "group_sizes_basis": null, "platform": "570", "taxon": "Homo sapiens", "title": "The role of micro-RNA genes in papillary thyroid carcinoma", "resolution_checked_at": "2026-11-01T15:39:54Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE3678", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3678", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE3678", "version": null, "note": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM85215", "GSM85216", "GSM85217", "GSM85218", "GSM85219", "GSM85220", "GSM85221", "GSM85222", "GSM85223", "GSM85224", "GSM85225", "GSM85226", "GSM85227", "GSM85228"], "sample_count": 14, "group_sizes": null, "group_sizes_basis": null, "platform": "570", "taxon": "Homo sapiens", "title": "PTC versus paired normal thyroid tissue", "resolution_checked_at": "2026-11-01T15:39:54Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE73182", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73182", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE73182", "version": null, "note": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1888201", "GSM1888202", "GSM1888203", "GSM1888204", "GSM1888205", "GSM1888206", "GSM1888207", "GSM1888208", "GSM1888209", "GSM1888210", "GSM1888211", "GSM1888212", "GSM1888213", "GSM1888214", "GSM1888215", "GSM1888216", "GSM1888217", "GSM1888218", "GSM1888219", "GSM1888220", "GSM1888221", "GSM1888222", "GSM1888223", "GSM1888224"], "sample_count": 24, "group_sizes": null, "group_sizes_basis": null, "platform": "20194", "taxon": "Homo sapiens", "title": "miRNA expression profiling of snap-frozen primary papillary thyroid carcinomas (PTC) and normal thyroids", "resolution_checked_at": "2026-11-01T15:39:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "asset:table:pmid:31842912:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:ea1662f87c0a063ec78ab0d981d0348da8485009818af5ba860e3dc05ef7e2c9", "bytes": 754, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[12]/table-wrap[1]#Tab1", "version": null, "note": "Six significant KEGG pathways and their classification", "structure": {"pmcid": "PMC6916035", "section_index": 12, "section_title": "Pathway enrichment analysis of common DEGs", "row_count": 7, "column_count": 3}, "table": {"label": "Table 1", "caption": "Six significant KEGG pathways and their classification", "rows": [["Pathway", "P value", "Classification"], ["hsa00350:Tyrosine metabolism", "0.002602", "Metabolism; Amino acid metabolism"], ["hsa05200:Pathways in cancer", "0.005643", "Human Diseases; Cancers: Overview"], ["hsa05222:Small cell lung cancer", "0.013589", "Human Diseases; Cancers: Specific types"], ["hsa04360:Axon guidance", "0.019287", "Organismal Systems; Development"], ["hsa04610:Complement and coagulation cascades", "0.027889", "Organismal Systems; Immune system"], ["hsa04920:Adipocytokine signaling pathway", "0.029209", "Organismal Systems; Endocrine system"]], "row_count": 7, "column_count": 3, "numeric_cells": 12, "header_rows": 1, "locator": "section[12]/table-wrap[1]#Tab1"}}, {"id": "asset:table:pmid:31842912:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:1cd91457c62a70b69bb3a823677367ee09c1946208567bcfcc2b629811d3934a", "bytes": 2381, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[14]/table-wrap[1]#Tab2", "version": null, "note": "Detailed information on the 11 hub genes identified in the PPI network", "structure": {"pmcid": "PMC6916035", "section_index": 14, "section_title": "Construction of the PPI network and module analysis", "row_count": 12, "column_count": 5}, "table": {"label": "Table 2", "caption": "Detailed information on the 11 hub genes identified in the PPI network", "rows": [["Gene", "Full name", "Overview", "Expression in PTC", "Reference"], ["FN1", "Fibronectin 1", "FN1 is involved in cell adhesion and migration processes including host defense and metastasis.", "Upregulated", "[29]"], ["CCND1", "Cyclin D1", "CCND1 has been demonstrated to interact with tumor suppressor protein Rb.", "Upregulated", "[30]"], ["MET", "MET proto-oncogene, receptor tyrosine kinase", "MET plays a role in cellular survival, embryogenesis, and cellular migration and invasion.", "Downregulated", "[31]"], ["RUNX2", "RUNX family transcription factor 2", "RUNX2 is essential for osteoblastic differentiation and skeletal morphogenesis.", "Upregulated", "[32]"], ["IRS1", "Insulin receptor substrate 1", "Mutations in IRS1 are associated with type II diabetes and susceptibility to insulin resistance.", "No relevant biological experiments", "[33]"], ["SERPINA1", "Serpin family A member 1", "The protein encoded by SERPINA1 is an inhibitor whose targets include elastase, plasmin, thrombin, trypsin, chymotrypsin, and plasminogen activator.", "Upregulated", "[34]"], ["KRT19", "Keratin 19", "KRT19 is responsible for the structural integrity of epithelial cells. It is specifically expressed in the periderm.", "Upregulated", "[35]"], ["FGFR2", "Fibroblast growth factor receptor 2", "FGFR-2 is involved in regulating cell proliferation, migration and differentiation, as well as in the response to injury and tissue repair.", "Downregulated", "[36]"], ["MUC1", "Mucin 1, cell surface associated", "Overexpression, aberrant intracellular localization, and changes in the glycosylation of MUC1 have been associated with carcinomas.", "Downregulated", "[37]"], ["NCAM1", "Neural cell adhesion molecule 1, also known as CD56", "NCAM1 is involved in the development of the nervous system, the expansion of T cells and dendritic cells with a regulatory role in cell motility and migratory capacity of neoplastic cells.", "Downregulated", "[38]"], ["WFS1", "Wolframin ER transmembrane glycoprotein", "Mutations in WFS1 are associated with Wolfram syndrome, also called DIDMOAD (diabetes insipidus, diabetes mellitus, optic atrophy, and deafness), an autosomal recessive disorder.", "No related references", "[39]"]], "row_count": 12, "column_count": 5, "numeric_cells": 22, "header_rows": 1, "locator": "section[14]/table-wrap[1]#Tab2"}}], "gaps": ["asset:data:geo:GSE113629 not downloaded", "asset:data:geo:GSE113629 licence not read", "asset:data:geo:GSE33630 not downloaded", "asset:data:geo:GSE33630 licence not read", "asset:data:geo:GSE3467 not downloaded", "asset:data:geo:GSE3467 licence not read", "asset:data:geo:GSE3678 not downloaded", "asset:data:geo:GSE3678 licence not read", "asset:data:geo:GSE73182 not downloaded", "asset:data:geo:GSE73182 licence not read"]}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": "network_analysis", "specific": "ppi_network", "label": "Network / pathway analysis", "dsl_operations": ["build_graph", "centrality_scores", "pathway_enrich"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["edge_list"], "evidence": {"score": 0.7, "band": "medium", "quote": "protein-protein interaction"}}, {"id": "method-2", "family": "network_analysis", "specific": "pathway_enrichment", "label": "Network / pathway analysis", "dsl_operations": ["pathway_enrich"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["edge_list"], "evidence": {"score": 0.7, "band": "medium", "quote": "pathway enrichment"}}, {"id": "method-3", "family": null, "specific": null, "label": "Benjamini and Hochberg false discovery rate (FDR) method", "dsl_operations": [], "missing_operations": [], "expressible": null, "parameters": {}, "data_shapes": [], "evidence": {"score": 1.0, "band": "verbatim", "quote": "The Benjamin and Hochberg false discovery rate (FDR) method was used to correct the adjusted P value and correct the occurrence of false positive results."}}], "targets": [], "gaps": ["method.reader_named_unmapped"]}, "capability": {"state": "complete", "requirements": [{"capability_id": "capability:computational_analysis", "label": "Computational analysis platform", "assay_families": ["meta_analysis", "machine_learning", "survival_analysis", "statistical_regression", "pca", "molecular_docking", "network_analysis", "differential_expression", "gwas"], "availability_state": "owned", "tier_unlocked": "R1", "candidate": "Automated Assays Laravel application and simulated adapters"}], "gaps": []}, "readiness": {"state": "complete", "tier": "R1", "blocking_axis": "none", "blocked_on": "nothing:replicable_now", "axes": {"method": {"tier": "R1", "expressible": true, "required_operations": ["build_graph", "centrality_scores", "pathway_enrich"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: ppi_network."}, "capability": {"tier": "R1", "capability_id": "capability:computational_analysis", "availability_state": "owned", "basis": "The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE3678", "GSE3467", "GSE33630", "GSE113629", "GSE73182"], "resolved_accessions": ["GSE3678", "GSE3467", "GSE33630", "GSE113629", "GSE73182"], "statements": ["The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request."], "basis": "The paper names GSE3678, GSE3467, GSE33630, GSE113629, GSE73182 in Gene Expression Omnibus (GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["build_graph", "centrality_scores", "pathway_enrich"], "assets": ["source:pmid:31842912", "data:geo:GSE113629", "asset:table:pmid:31842912:1", "asset:table:pmid:31842912:2"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE113629"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:17:33Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 3, "usage": {"prompt_tokens": 25398, "completion_tokens": 1781, "cached_tokens": 776}}, "human_critique": null, "stages": [{"id": "extraction", "state": "complete", "reader": "MiniMax-M3.1-Flash", "provider": "minimax"}], "gaps": ["review.independent_reader", "review.machine_critique", "review.human_critique"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "pmid:31842912", "type": "paper", "label": "pmid:31842912"}, {"id": "source:pmid:31842912", "type": "manuscript", "label": "PMID 31842912 full text"}, {"id": "data:geo:GSE113629", "type": "dataset", "label": "GEO GSE113629"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:31842912", "type": "paper", "label": "pmid:31842912"}, {"id": "source:pmid:31842912", "type": "manuscript", "label": "PMID 31842912 full text"}, {"id": "data:geo:GSE113629", "type": "dataset", "label": "GEO GSE113629"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-31842912", "type": "extraction", "used": ["source:pmid:31842912"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE113629", "type": "accession_resolution", "used": ["data:geo:GSE113629"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}, {"id": "agent:minimax-reader", "type": "software", "label": "MiniMax literature reader"}], "source_run_id": "reading-sci-2026-11-01", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:31842912", "parent_hash": "sha256:b8bf9ad8a80f0f7726e1a910bb3364e24581b7b63fc1bc537dc97cfe24f35709", "fork_of": null, "generation": 6}, "gaps": ["asset:data:geo:GSE113629 licence not read", "asset:data:geo:GSE113629 not downloaded", "asset:data:geo:GSE33630 licence not read", "asset:data:geo:GSE33630 not downloaded", "asset:data:geo:GSE3467 licence not read", "asset:data:geo:GSE3467 not downloaded", "asset:data:geo:GSE3678 licence not read", "asset:data:geo:GSE3678 not downloaded", "asset:data:geo:GSE73182 licence not read", "asset:data:geo:GSE73182 not downloaded", "execution.not_run", "method.reader_named_unmapped", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "analysis", "definition_id": "network_analysis", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["build_graph", "centrality_scores", "pathway_enrich"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.7, "evidence": ["protein-protein interaction"], "order_basis": "analysis_only", "id": "assay:1"}]}