Integrated bioinformatics identifies the dysregulation induced by aberrant gene methylation in colorectal carcinoma.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:34179314", "kind": "science-record", "revision": 7, "content_hash": "sha256:ccc15412cb10d04a14376d0e4f06222b68497e9e575739b4be38259fa006ce51", "created_at": "2026-11-01T15:41:40Z", "updated_at": "2026-11-01T22:04:03Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Integrated bioinformatics identifies the dysregulation induced by aberrant gene methylation in colorectal carcinoma.", "doi": "10.1016/j.gendis.2020.04.008", "pmid": "34179314", "authors": ["Zhenyu Ye", "Yecheng Li", "Jiaming Xie", "Zhenyu Feng", "Xiaodong Yang", "Yong Wu", "Yuwei Pu", "Jiawei Gao", "Xiangrong Xu", "Zhaobi Zhu", "Wei Li", "Wei Chen", "Chungen Xing"], "journal": "Genes & diseases", "year": 2021, "abstract": "Colorectal carcinoma (CRC) is one of the most common cancers, and is associated with a poor clinical outcome. The key genes and potential prognostic markers in colorectal carcinoma remain to be identified and explored for clinical application. DNA expression/methylation profiles were downloaded from the Gene Expression Omnibus (GEO) database to identify differentially expressed/methylated genes (DEGs and DEMs). A total of 255 genes and 372 genes were identified as being up-regulated and down-regulated, respectively, in GSE113513, GSE81558, and GSE89076. There were a total of 3350 hypermethylated genes and 443 hypomethylated genes identified in GSE48684. Twenty genes were found to be hypermethylated as well as down-regulated, and a functional enrichment analysis revealed that these genes were mainly involved in cancer-related pathways. Among these 20 genes, GPM6A, HAND2 and C2orf40 were related to poor outcomes in cancer patients based on a survival analysis. Concurrent decreases of GPM6A, HAND2 and C2orf40 protein expression were observed in highly-differentiated colorectal carcinoma tissues, and higher expression levels were found in undifferentiated or minimally-differentiated colorectal carcinoma tissues. In conclusion, 20 genes were found to be downregulated and hypermethylated in CRC, among which GPM6A, HAND2 and C2orf40 were explored for their potential prognostic value.", "claims": [{"id": "claim-data-access", "statement": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34179314", "locator": "sections[17] \"Availability of data and materials\" paragraphs 1-6", "quote": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684."}], "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:34179314"], "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:GSE113513"], "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:GSE113513"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:34179314", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1016/j.gendis.2020.04.008", "sha256": "sha256:c6899ffcb192d956071ebf181b1bd025e391c24d821cc7b3c647e641923ed6d4", "bytes": 28707, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1016/j.gendis.2020.04.008", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC8209361", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE113513", "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=GSE113513", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE113513", "version": null, "note": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM3108231", "GSM3108232", "GSM3108233", "GSM3108234", "GSM3108235", "GSM3108236", "GSM3108237", "GSM3108238", "GSM3108239", "GSM3108240", "GSM3108241", "GSM3108242", "GSM3108243", "GSM3108244", "GSM3108245", "GSM3108246", "GSM3108247", "GSM3108248", "GSM3108249", "GSM3108250", "GSM3108251", "GSM3108252", "GSM3108253", "GSM3108254", "GSM3108255", "GSM3108256", "GSM3108257", "GSM3108258"], "sample_count": 28, "group_sizes": null, "group_sizes_basis": null, "platform": "15207", "taxon": "Homo sapiens", "title": "Gene expression profile of human colorectal 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:GSE48684", "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=GSE48684", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE48684", "version": null, "note": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1183439", "GSM1183440", "GSM1183441", "GSM1183442", "GSM1183443", "GSM1183444", "GSM1183445", "GSM1183446", "GSM1183447", "GSM1183448", "GSM1183449", "GSM1183450", "GSM1183451", "GSM1183452", "GSM1183453", "GSM1183454", "GSM1183455", "GSM1183456", "GSM1183457", "GSM1183458", "GSM1183459", "GSM1183460", "GSM1183461", "GSM1183462", "GSM1183463", "GSM1183464", "GSM1183465", "GSM1183466", "GSM1183467", "GSM1183468", "GSM1183469", "GSM1183470", "GSM1183471", "GSM1183472", "GSM1183473", "GSM1183474", "GSM1183475", "GSM1183476", "GSM1183477", "GSM1183478", "GSM1183479", "GSM1183480", "GSM1183481", "GSM1183482", "GSM1183483", "GSM1183484", "GSM1183485", "GSM1183486", "GSM1183487", "GSM1183488", "GSM1183489", "GSM1183490", "GSM1183491", "GSM1183492", "GSM1183493", "GSM1183494", "GSM1183495", "GSM1183496", "GSM1183497", "GSM1183498", "GSM1183499", "GSM1183500", "GSM1183501", "GSM1183502", "GSM1183503", "GSM1183504", "GSM1183505", "GSM1183506", "GSM1183507", "GSM1183508", "GSM1183509", "GSM1183510", "GSM1183511", "GSM1183512", "GSM1183513", "GSM1183514", "GSM1183515", "GSM1183516", "GSM1183517", "GSM1183518", "GSM1183519", "GSM1183520", "GSM1183521", "GSM1183522", "GSM1183523", "GSM1183524", "GSM1183525", "GSM1183526", "GSM1183527", "GSM1183528", "GSM1183529", "GSM1183530", "GSM1183531", "GSM1183532", "GSM1183533", "GSM1183534", "GSM1183535", "GSM1183536", "GSM1183537", "GSM1183538", "GSM1183539", "GSM1183540", "GSM1183541", "GSM1183542", "GSM1183543", "GSM1183544", "GSM1183545", "GSM1183546", "GSM1183547", "GSM1183548", "GSM1183549", "GSM1183550", "GSM1183551", "GSM1183552", "GSM1183553", "GSM1183554", "GSM1183555", "GSM1183556", "GSM1183557", "GSM1183558", "GSM1183559", "GSM1183560", "GSM1183561", "GSM1235135", "GSM1235136", "GSM1235137", "GSM1235138", "GSM1235139", "GSM1235140", "GSM1235141", "GSM1235142", "GSM1235143", "GSM1235144", "GSM1235145", "GSM1235146", "GSM1235147", "GSM1235148", "GSM1235149", "GSM1235150", "GSM1235151", "GSM1235152", "GSM1235153", "GSM1235154", "GSM1235155", "GSM1235156", "GSM1235157", "GSM1235158"], "sample_count": 147, "group_sizes": null, "group_sizes_basis": null, "platform": "13534", "taxon": "Homo sapiens", "title": "Global DNA methylation alterations reveal multiple pathways in the initiation and progression of colorectal cancer", "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:GSE81558", "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=GSE81558", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE81558", "version": null, "note": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM2157164", "GSM2157165", "GSM2157166", "GSM2157167", "GSM2157168", "GSM2157169", "GSM2157170", "GSM2157171", "GSM2157172", "GSM2157173", "GSM2157174", "GSM2157175", "GSM2157176", "GSM2157177", "GSM2157178", "GSM2157179", "GSM2157180", "GSM2157181", "GSM2157182", "GSM2157183", "GSM2157184", "GSM2157185", "GSM2157186", "GSM2157187", "GSM2157188", "GSM2157189", "GSM2157190", "GSM2157191", "GSM2157192", "GSM2157193", "GSM2157194", "GSM2157195", "GSM2157196", "GSM2157197", "GSM2157198", "GSM2157199", "GSM2157200", "GSM2157201", "GSM2157202", "GSM2157203", "GSM2157204", "GSM2157205", "GSM2157206", "GSM2157207", "GSM2157208", "GSM2157209", "GSM2157210", "GSM2157211", "GSM2157212", "GSM2157213", "GSM2157214"], "sample_count": 51, "group_sizes": null, "group_sizes_basis": null, "platform": "15207", "taxon": "Homo sapiens", "title": "Genomic characterization of liver metastases from colorectal cancer patients [PrimeView]", "resolution_checked_at": "2026-11-01T15:39:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE89076", "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=GSE89076", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE89076", "version": null, "note": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM2358437", "GSM2358438", "GSM2358439", "GSM2358440", "GSM2358441", "GSM2358442", "GSM2358443", "GSM2358444", "GSM2358445", "GSM2358446", "GSM2358447", "GSM2358448", "GSM2358449", "GSM2358450", "GSM2358451", "GSM2358452", "GSM2358453", "GSM2358454", "GSM2358455", "GSM2358456", "GSM2358457", "GSM2358458", "GSM2358459", "GSM2358460", "GSM2358461", "GSM2358462", "GSM2358463", "GSM2358464", "GSM2358465", "GSM2358466", "GSM2358467", "GSM2358468", "GSM2358469", "GSM2358470", "GSM2358471", "GSM2358472", "GSM2358473", "GSM2358474", "GSM2358475", "GSM2358476", "GSM2358477", "GSM2358478", "GSM2358479", "GSM2358480", "GSM2358481", "GSM2358482", "GSM2358483", "GSM2358484", "GSM2358485", "GSM2358486", "GSM2358487", "GSM2358488", "GSM2358489", "GSM2358490", "GSM2358491", "GSM2358492", "GSM2358493", "GSM2358494", "GSM2358495", "GSM2358496", "GSM2358497", "GSM2358498", "GSM2358499", "GSM2358500", "GSM2358501", "GSM2358502", "GSM2358503", "GSM2358504", "GSM2358505", "GSM2358506", "GSM2358507", "GSM2358508", "GSM2358509", "GSM2358510", "GSM2358511", "GSM2358512", "GSM2358513", "GSM2358514", "GSM2358515", "GSM2358516"], "sample_count": 80, "group_sizes": null, "group_sizes_basis": null, "platform": "16699", "taxon": "Homo sapiens", "title": "DNA microarray analysis of human colorectal cancer specimens", "resolution_checked_at": "2026-11-01T15:39:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}], "gaps": ["asset:data:geo:GSE113513 not downloaded", "asset:data:geo:GSE113513 licence not read", "asset:data:geo:GSE48684 not downloaded", "asset:data:geo:GSE48684 licence not read", "asset:data:geo:GSE81558 not downloaded", "asset:data:geo:GSE81558 licence not read", "asset:data:geo:GSE89076 not downloaded", "asset:data:geo:GSE89076 licence not read"]}, "analysis": {"state": "complete", "methods": [{"id": "method-1", "family": "differential_expression", "specific": "limma_voom", "label": "Differential expression analysis", "dsl_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["count_matrix_with_condition"], "evidence": {"score": 0.8, "band": "high", "quote": "limma"}}], "targets": [], "gaps": []}, "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": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: limma_voom."}, "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": ["GSE113513", "GSE81558", "GSE89076", "GSE48684"], "resolved_accessions": ["GSE113513", "GSE81558", "GSE89076", "GSE48684"], "statements": ["The dataset analyzed in the current study is available on GEO database.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE113513\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE81558.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE89076.\nhttps://www.ncbi.nlm.nih.gov/search/all/?term=GSE48684."], "basis": "The paper names GSE113513, GSE81558, GSE89076, GSE48684 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": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "assets": ["source:pmid:34179314", "data:geo:GSE113513"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE113513"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T19:38:46Z", "independence": "single_reader"}, "evidence_check": {"method": "absent", "availability": "verbatim"}, "calls": 3, "usage": {"prompt_tokens": 23089, "completion_tokens": 2273, "cached_tokens": 784}}, "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:34179314", "type": "paper", "label": "pmid:34179314"}, {"id": "source:pmid:34179314", "type": "manuscript", "label": "PMID 34179314 full text"}, {"id": "data:geo:GSE113513", "type": "dataset", "label": "GEO GSE113513"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:34179314", "type": "paper", "label": "pmid:34179314"}, {"id": "source:pmid:34179314", "type": "manuscript", "label": "PMID 34179314 full text"}, {"id": "data:geo:GSE113513", "type": "dataset", "label": "GEO GSE113513"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-34179314", "type": "extraction", "used": ["source:pmid:34179314"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE113513", "type": "accession_resolution", "used": ["data:geo:GSE113513"], "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:34179314", "parent_hash": "sha256:b85371e141b0439e2c217cb4f1ffadbd54b02cd84e3ad2d4d775d613e8c46377", "fork_of": null, "generation": 6}, "gaps": ["asset:data:geo:GSE113513 licence not read", "asset:data:geo:GSE113513 not downloaded", "asset:data:geo:GSE48684 licence not read", "asset:data:geo:GSE48684 not downloaded", "asset:data:geo:GSE81558 licence not read", "asset:data:geo:GSE81558 not downloaded", "asset:data:geo:GSE89076 licence not read", "asset:data:geo:GSE89076 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "analysis", "definition_id": "differential_expression", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.8, "evidence": ["limma"], "order_basis": "analysis_only", "id": "assay:1"}]}