← All .science files
pmid:32266115
Identification of core genes associated with prostate cancer progression and outcome via bioinformatics analysis in multiple databases.
Yutao Wang · Jianfeng Wang · Kexin Yan · Jiaxing Lin · Zhenhua Zheng · Jianbin Bi
PeerJ · 2020 doi:10.7717/peerj.8786
Paper
complete
Experiment
complete
Data
partial
Analysis
partial
Execution
absent
Execution evidence has not yet been added to this .science file. Explore its methods, data and open questions to plan the next step.
Record details sci_version · id · kind · revision · content_hash · schema · created_at · updated_at · generator
paper object · 10 fields
authors array · 6 items
claims array · 2 items
[0] object · 6 fields
gaps array · 0 items
experiment object · 8 fields
steps array · 3 items
[0] object · 13 fields
parameters object · 0 fields
inputs array · 1 item
outputs array · 1 item
instruments array · 0 items
reagents array · 0 items
[1] object · 13 fields
parameters object · 0 fields
inputs array · 1 item
outputs array · 1 item
instruments array · 0 items
reagents array · 0 items
[2] object · 13 fields
parameters object · 0 fields
inputs array · 1 item
outputs array · 1 item
instruments array · 0 items
reagents array · 0 items
materials array · 0 items
instruments array · 0 items
reagents array · 0 items
conditions object · 0 fields
gaps array · 0 items
data object · 3 fields
assets array · 10 items
[0] object · 15 fields
structure object · 4 fields
[1] object · 15 fields
structure object · 15 fields
sample_accessions array · 8 items
[2] object · 15 fields
structure object · 15 fields
sample_accessions array · 743 items
[3] object · 15 fields
structure object · 15 fields
sample_accessions array · 39 items
[4] object · 15 fields
structure object · 15 fields
sample_accessions array · 50 items
[5] object · 15 fields
structure object · 15 fields
sample_accessions array · 30 items
[6] object · 16 fields
structure object · 5 fields
table object · 8 fields
rows array · 14 items
[0] array · 4 items
[1] array · 4 items
[2] array · 4 items
[3] array · 4 items
[4] array · 4 items
[5] array · 4 items
[6] array · 4 items
[7] array · 4 items
[8] array · 4 items
[9] array · 4 items
[10] array · 4 items
[11] array · 4 items
[12] array · 4 items
[13] array · 4 items
[7] object · 16 fields
structure object · 5 fields
table object · 8 fields
rows array · 13 items
[0] array · 4 items
[1] array · 4 items
[2] array · 4 items
[3] array · 4 items
[4] array · 4 items
[5] array · 4 items
[6] array · 4 items
[7] array · 4 items
[8] array · 4 items
[9] array · 4 items
[10] array · 4 items
[11] array · 4 items
[12] array · 4 items
[8] object · 16 fields
structure object · 5 fields
table object · 8 fields
rows array · 7 items
[0] array · 5 items
[1] array · 9 items
[2] array · 9 items
[3] array · 9 items
[4] array · 9 items
[5] array · 9 items
[6] array · 9 items
[9] object · 16 fields
structure object · 5 fields
table object · 8 fields
rows array · 21 items
[0] array · 4 items
[1] array · 4 items
[2] array · 4 items
[3] array · 4 items
[4] array · 4 items
[5] array · 4 items
[6] array · 4 items
[7] array · 4 items
[8] array · 4 items
[9] array · 4 items
[10] array · 4 items
[11] array · 4 items
[12] array · 4 items
[13] array · 4 items
[14] array · 4 items
[15] array · 4 items
[16] array · 4 items
[17] array · 4 items
[18] array · 4 items
[19] array · 4 items
[20] array · 4 items
gaps array · 10 items
analysis object · 4 fields
methods array · 3 items
[0] object · 10 fields
dsl_operations array · 1 item
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[1] object · 10 fields
dsl_operations array · 3 items
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[2] object · 10 fields
dsl_operations array · 0 items
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 0 items
targets array · 0 items
gaps array · 1 item
capability object · 3 fields
requirements array · 1 item
[0] object · 6 fields
assay_families array · 9 items
gaps array · 0 items
readiness object · 8 fields
axes object · 3 fields
method object · 5 fields
required_operations array · 1 item
missing_operations array · 0 items
capability object · 4 fields
data object · 6 fields
accessions array · 5 items
resolved_accessions array · 5 items
statements array · 1 item
can_run object · 3 fields
dsl_operations array · 1 item
assets array · 6 items
steps array · 1 item
must_build object · 5 fields
dsl_operations array · 0 items
converters array · 0 items
readers array · 0 items
capabilities array · 0 items
data_gaps array · 1 item
gaps array · 0 items
review object · 5 fields
machine_critique object · 5 fields
reader object · 5 fields
evidence_check object · 2 fields
usage object · 3 fields
stages array · 1 item
[0] object · 4 fields
gaps array · 3 items
provenance object · 7 fields
entities array · 3 items
activities array · 3 items
[0] object · 4 fields
used array · 3 items
[0] object · 3 fields
[1] object · 3 fields
[2] object · 3 fields
[1] object · 4 fields
agents array · 2 items
lineage object · 4 fields
gaps array · 15 items
assays array · 1 item
[0] object · 11 fields
required_operations array · 1 item
source_hashes object · 1 field
evidence array · 1 item
Complete file
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:32266115", "kind": "science-record", "revision": 5, "content_hash": "sha256:2eebed7e114e9efc22d7f22856068fe68f0820d36b390bf776ee16675aac948c", "created_at": "2026-11-01T15:40:59Z", "updated_at": "2026-11-01T22:01:28Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of core genes associated with prostate cancer progression and outcome via bioinformatics analysis in multiple databases.", "doi": "10.7717/peerj.8786", "pmid": "32266115", "authors": ["Yutao Wang", "Jianfeng Wang", "Kexin Yan", "Jiaxing Lin", "Zhenhua Zheng", "Jianbin Bi"], "journal": "PeerJ", "year": 2020, "abstract": "ABSTRACT: The morbidity and mortality of prostate carcinoma has increased in recent years and has become the second most common ale malignant carcinoma worldwide. The interaction mechanisms between different genes and signaling pathways, however, are still unclear.\nMETHODS: Variation analysis of GSE38241, GSE69223, GSE46602 and GSE104749 were realized by GEO2R in Gene Expression Omnibus database. Function enrichment was analyzed by DAVID.6.8. Furthermore, the PPI network and the significant module were analyzed by Cytoscape, STRING and MCODE.GO. Pathway analysis showed that the 20 candidate genes were closely related to mitosis, cell division, cell cycle phases and the p53 signaling pathway. A total of six independent prognostic factors were identified in GSE21032 and TCGA PRAD. Oncomine database and The Human Protein Atlas were applied to explicit that six core genes were over expression in prostate cancer compared to normal prostate tissue in the process of transcriptional and translational. Finally, gene set enrichment were performed to identified the related pathway of core genes involved in prostate cancer.\nRESULT: Hierarchical clustering analysis revealed that these 20 core genes were mostly related to carcinogenesis and development. CKS2, TK1, MKI67, TOP2A, CCNB1 and RRM2 directly related to the recurrence and prognosis of prostate cancer. This result was verified by TCGA database and GSE21032.\nCONCLUSION: These core genes play a crucial role in tumor carcinogenesis, development, recurrence, metastasis and progression. Identifying these genes could help us to understand the molecular mechanisms and provide potential biomarkers for the diagnosis and treatment of prostate cancer.", "claims": [{"id": "claim-method", "statement": "The GEO2R (http://www.ncbi.nlm.nih.gov/geo/geo2r) was used to screen DEGs between prostate carcinoma samples and noncancerous samples GSE104749, GSE38241, GSE69223, GSE46602 datasets.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32266115", "locator": "sections[4] \"Identification of DEGs\" paragraph 2", "quote": "The GEO2R (http://www.ncbi.nlm.nih.gov/geo/geo2r) was used to screen DEGs between prostate carcinoma samples and noncancerous samples GSE104749, GSE38241, GSE69223, GSE46602 datasets."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32266115", "locator": "sections[27] \"Data Availability Statement\" paragraphs 1-3", "quote": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749."}], "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:32266115"], "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:GSE104749"], "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:GSE104749"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:32266115", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.7717/peerj.8786", "sha256": "sha256:cee611b6d9a8d03aa649e4e280b2f661401f8b04048b2dfc56d4a0a001c93b1b", "bytes": 54856, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.7717/peerj.8786", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC7120053", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE104749", "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=GSE104749", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE104749", "version": null, "note": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM2807157", "GSM2807158", "GSM2807159", "GSM2807160", "GSM2807161", "GSM2807162", "GSM2807163", "GSM2807164"], "sample_count": 8, "group_sizes": null, "group_sizes_basis": null, "platform": "570", "taxon": "Homo sapiens", "title": "Molecular analyses of prostate tumors for diagnosis of malignancy on Fine-Needle Aspiration biopsies", "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:GSE21032", "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=GSE21032", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE21032", "version": null, "note": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM525575", "GSM525576", "GSM525577", "GSM525578", "GSM525579", "GSM525580", "GSM525581", "GSM525582", "GSM525583", "GSM525584", "GSM525585", "GSM525586", "GSM525587", "GSM525588", "GSM525589", "GSM525590", "GSM525591", "GSM525592", "GSM525593", "GSM525594", "GSM525595", "GSM525596", "GSM525597", "GSM525598", "GSM525599", "GSM525600", "GSM525601", "GSM525602", "GSM525603", "GSM525604", "GSM525605", "GSM525606", "GSM525607", "GSM525608", "GSM525609", "GSM525610", "GSM525611", "GSM525612", "GSM525613", "GSM525614", "GSM525615", "GSM525616", "GSM525617", "GSM525618", "GSM525619", "GSM525620", "GSM525621", "GSM525622", "GSM525623", "GSM525624", "GSM525625", "GSM525626", "GSM525627", "GSM525628", "GSM525629", "GSM525630", "GSM525631", "GSM525632", "GSM525633", "GSM525634", "GSM525635", "GSM525636", "GSM525637", "GSM525638", "GSM525639", "GSM525640", "GSM525641", "GSM525642", "GSM525643", "GSM525644", "GSM525645", "GSM525646", "GSM525647", "GSM525648", "GSM525649", "GSM525650", "GSM525651", "GSM525652", "GSM525653", "GSM525654", "GSM525655", "GSM525656", "GSM525657", "GSM525658", "GSM525659", "GSM525660", "GSM525661", "GSM525662", "GSM525663", "GSM525664", "GSM525665", "GSM525666", "GSM525667", "GSM525668", "GSM525669", "GSM525670", "GSM525671", "GSM525672", "GSM525673", "GSM525674", "GSM525675", "GSM525676", "GSM525677", "GSM525678", "GSM525679", "GSM525680", "GSM525681", "GSM525682", "GSM525683", "GSM525684", "GSM525685", "GSM525686", "GSM525687", "GSM525688", "GSM525689", "GSM525690", "GSM525691", "GSM525692", "GSM525693", "GSM525694", "GSM525695", "GSM525696", "GSM525697", "GSM525698", "GSM525699", "GSM525700", "GSM525701", "GSM525702", "GSM525703", "GSM525704", "GSM525705", "GSM525706", "GSM525707", "GSM525708", "GSM525709", "GSM525710", "GSM525711", "GSM525712", "GSM525713", "GSM525714", "GSM525715", "GSM525716", "GSM525717", "GSM525718", "GSM525719", "GSM525720", "GSM525721", "GSM525722", "GSM525723", "GSM525724", "GSM525725", "GSM525726", "GSM525727", "GSM525728", "GSM525729", "GSM525730", "GSM525731", "GSM525732", "GSM525733", "GSM525734", "GSM525735", "GSM525736", "GSM525737", "GSM525738", "GSM525739", "GSM525740", "GSM525741", "GSM525742", "GSM525743", "GSM525744", "GSM525745", "GSM525746", "GSM525747", "GSM525748", "GSM525749", "GSM525750", "GSM525751", "GSM525752", "GSM525753", "GSM525754", "GSM525755", "GSM525756", "GSM525757", "GSM525758", "GSM525759", "GSM525760", "GSM525761", "GSM525762", "GSM525763", "GSM525764", "GSM525765", "GSM525766", "GSM525767", "GSM525768", "GSM525769", "GSM525770", "GSM525771", "GSM525772", "GSM525773", "GSM525774", "GSM525775", "GSM525776", "GSM525777", "GSM525778", "GSM525779", "GSM525780", "GSM525781", "GSM525782", "GSM525783", "GSM525784", "GSM525785", "GSM525786", "GSM525787", "GSM525788", "GSM525789", "GSM525790", "GSM525791", "GSM525792", "GSM525793", "GSM525794", "GSM525795", "GSM525796", "GSM525797", "GSM525798", "GSM525799", "GSM525800", "GSM525801", "GSM525802", "GSM525803", "GSM525804", "GSM525805", "GSM526134", "GSM526135", "GSM526136", "GSM526137", "GSM526138", "GSM526139", "GSM526140", "GSM526141", "GSM526142", "GSM526143", "GSM526144", "GSM526145", "GSM526146", "GSM526147", "GSM526148", "GSM526149", "GSM526150", "GSM526151", "GSM526152", "GSM526153", "GSM526154", "GSM526155", "GSM526156", "GSM526157", "GSM526158", "GSM526159", "GSM526160", "GSM526161", "GSM526162", "GSM526163", "GSM526164", "GSM526165", "GSM526166", "GSM526167", "GSM526168", "GSM526169", "GSM526170", "GSM526171", "GSM526172", "GSM526173", "GSM526174", "GSM526175", "GSM526176", "GSM526177", "GSM526178", "GSM526179", "GSM526180", "GSM526181", "GSM526182", "GSM526183", "GSM526184", "GSM526185", "GSM526186", "GSM526187", "GSM526188", "GSM526189", "GSM526190", "GSM526191", "GSM526192", "GSM526193", "GSM526194", "GSM526195", "GSM526196", "GSM526197", "GSM526198", "GSM526199", "GSM526200", "GSM526201", "GSM526202", "GSM526203", "GSM526204", "GSM526205", "GSM526206", "GSM526207", "GSM526208", "GSM526209", "GSM526210", "GSM526211", "GSM526212", "GSM526213", "GSM526214", "GSM526215", "GSM526216", "GSM526217", "GSM526218", "GSM526219", "GSM526220", "GSM526221", "GSM526222", "GSM526223", "GSM526224", "GSM526225", "GSM526226", "GSM526227", "GSM526228", "GSM526229", "GSM526230", "GSM526231", "GSM526232", "GSM526233", "GSM526234", "GSM526235", "GSM526236", "GSM526237", "GSM526238", "GSM526239", "GSM526240", "GSM526241", "GSM526242", "GSM526243", "GSM526244", "GSM526245", "GSM526246", "GSM526247", "GSM526248", "GSM526249", "GSM526250", "GSM526251", "GSM526252", "GSM526253", "GSM526254", "GSM526255", "GSM526256", "GSM526257", "GSM526258", "GSM526259", "GSM526260", "GSM526261", "GSM526262", "GSM526263", "GSM526264", "GSM526265", "GSM526266", "GSM526267", "GSM526268", "GSM526269", "GSM526270", "GSM526271", "GSM526272", "GSM526273", "GSM526274", "GSM526275", "GSM526276", "GSM526277", "GSM526278", "GSM526279", "GSM526280", "GSM526281", "GSM526282", "GSM526283", "GSM526284", "GSM526285", "GSM526286", "GSM526287", "GSM526288", "GSM526289", "GSM526290", "GSM526291", "GSM526292", "GSM526293", "GSM526294", "GSM526295", "GSM526296", "GSM526297", "GSM526298", "GSM526299", "GSM526300", "GSM526301", "GSM526302", "GSM526303", "GSM526304", "GSM526305", "GSM526306", "GSM526307", "GSM526308", "GSM526309", "GSM526310", "GSM526311", "GSM526312", "GSM526313", "GSM526314", "GSM526315", "GSM526316", "GSM526317", "GSM526318", "GSM526419", "GSM526420", "GSM526421", "GSM526422", "GSM526423", "GSM526424", "GSM526425", "GSM526426", "GSM526427", "GSM526428", "GSM526429", "GSM526430", "GSM526431", "GSM526432", "GSM526433", "GSM526434", "GSM526435", "GSM526436", "GSM526437", "GSM526438", "GSM526439", "GSM526440", "GSM526441", "GSM526442", "GSM526443", "GSM526444", "GSM526445", "GSM526446", "GSM526447", "GSM526448", "GSM526449", "GSM526450", "GSM526451", "GSM526452", "GSM526453", "GSM526454", "GSM526455", "GSM526456", "GSM526457", "GSM526458", "GSM526459", "GSM526460", "GSM526461", "GSM526462", "GSM526463", "GSM526464", "GSM526465", "GSM526466", "GSM526467", "GSM526468", "GSM526469", "GSM526470", "GSM526471", "GSM526472", "GSM526473", "GSM526474", "GSM526475", "GSM526476", "GSM526477", "GSM526478", "GSM526479", "GSM526480", "GSM526481", "GSM526482", "GSM526483", "GSM526484", "GSM526485", "GSM526486", "GSM526487", "GSM526488", "GSM526489", "GSM526490", "GSM526491", "GSM526492", "GSM526493", "GSM526494", "GSM526495", "GSM526496", "GSM526497", "GSM526498", "GSM526499", "GSM526500", "GSM526501", "GSM526502", "GSM526503", "GSM526504", "GSM526505", "GSM526506", "GSM526507", "GSM526508", "GSM526509", "GSM526510", "GSM526511", "GSM526512", "GSM526513", "GSM526514", "GSM526515", "GSM526516", "GSM526517", "GSM526518", "GSM526519", "GSM526520", "GSM526521", "GSM526522", "GSM526523", "GSM526524", "GSM526525", "GSM526526", "GSM526527", "GSM526528", "GSM526529", "GSM526530", "GSM526531", "GSM526532", "GSM526533", "GSM526534", "GSM526535", "GSM526536", "GSM526537", "GSM526538", "GSM526539", "GSM526540", "GSM526541", "GSM526542", "GSM526543", "GSM526544", "GSM526545", "GSM526546", "GSM526547", "GSM526548", "GSM526549", "GSM526550", "GSM526551", "GSM526552", "GSM526553", "GSM526554", "GSM526555", "GSM526556", "GSM526557", "GSM526558", "GSM526559", "GSM526560", "GSM527858", "GSM527859", "GSM527860", "GSM527861", "GSM527862", "GSM527863", "GSM527864", "GSM527865", "GSM527866", "GSM527867", "GSM527868", "GSM527869", "GSM527870", "GSM527871", "GSM527872", "GSM527873", "GSM527874", "GSM527875", "GSM527876", "GSM527877", "GSM527878", "GSM527879", "GSM527880", "GSM527881", "GSM527882", "GSM527883", "GSM527884", "GSM527885", "GSM527886", "GSM527887", "GSM527888", "GSM527889", "GSM527890", "GSM527891", "GSM527892", "GSM527893", "GSM527894", "GSM527895", "GSM527896", "GSM527897", "GSM527898", "GSM527899", "GSM527900", "GSM527901", "GSM527902", "GSM527903", "GSM527904", "GSM527905", "GSM527906", "GSM527907", "GSM527908", "GSM527909", "GSM527910", "GSM527911", "GSM527912", "GSM527913", "GSM527914", "GSM527915", "GSM527916", "GSM527917", "GSM527918", "GSM527919", "GSM527920", "GSM527921", "GSM527922", "GSM527923", "GSM527924", "GSM527925", "GSM527926", "GSM527927", "GSM527928", "GSM527929", "GSM527930", "GSM527931", "GSM527932", "GSM527933", "GSM527934", "GSM527935", "GSM527936", "GSM527937", "GSM527938", "GSM527939", "GSM527940", "GSM527941", "GSM527942", "GSM527943", "GSM527944", "GSM527945", "GSM527946", "GSM527947", "GSM527948", "GSM527949", "GSM527950", "GSM527951", "GSM527952", "GSM527953", "GSM527954", "GSM527955", "GSM527956", "GSM527957", "GSM527958", "GSM527959", "GSM527960", "GSM527961", "GSM527962", "GSM527963", "GSM527965", "GSM527966", "GSM527968", "GSM527970", "GSM527971", "GSM527972", "GSM527973", "GSM527974", "GSM527975", "GSM527977", "GSM527979", "GSM527980", "GSM527982", "GSM527984", "GSM527985", "GSM527986", "GSM527987", "GSM527988", "GSM527989", "GSM527990", "GSM527991", "GSM527992", "GSM527993", "GSM527994", "GSM527995", "GSM527996", "GSM527997", "GSM527998", "GSM527999", "GSM528000", "GSM528001", "GSM528002", "GSM528003", "GSM528004", "GSM528005", "GSM528006", "GSM528007", "GSM528008", "GSM528009", "GSM528010", "GSM528011", "GSM528012", "GSM528013", "GSM528014", "GSM528015", "GSM528016", "GSM528017", "GSM528018", "GSM528019", "GSM528020", "GSM528021", "GSM528022", "GSM528023", "GSM528024", "GSM528025", "GSM528026", "GSM528027", "GSM528028", "GSM528029", "GSM528030", "GSM528031", "GSM528032", "GSM528033", "GSM528034", "GSM528035", "GSM528036", "GSM528037", "GSM528038", "GSM528039", "GSM528040", "GSM528041", "GSM528042", "GSM528043", "GSM528044", "GSM528045", "GSM528046", "GSM528047", "GSM528048", "GSM528049"], "sample_count": 743, "group_sizes": null, "group_sizes_basis": null, "platform": "10264;8227;5188;4091", "taxon": "Homo sapiens", "title": "Integrative genomic profiling of human prostate 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:GSE38241", "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=GSE38241", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE38241", "version": null, "note": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM937270", "GSM937271", "GSM937272", "GSM937273", "GSM937274", "GSM937275", "GSM937276", "GSM937277", "GSM937278", "GSM937279", "GSM937280", "GSM937281", "GSM937282", "GSM937283", "GSM937284", "GSM937285", "GSM937286", "GSM937287", "GSM937288", "GSM937289", "GSM937290", "GSM937291", "GSM937292", "GSM937293", "GSM937294", "GSM937295", "GSM937296", "GSM937297", "GSM937298", "GSM937299", "GSM937300", "GSM937301", "GSM937302", "GSM937303", "GSM937304", "GSM937305", "GSM937306", "GSM937307", "GSM937308"], "sample_count": 39, "group_sizes": null, "group_sizes_basis": null, "platform": "4133", "taxon": "Homo sapiens", "title": "Gene expression profiling of normal prostates and prostate cancer metastases", "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:GSE46602", "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=GSE46602", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE46602", "version": null, "note": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1133136", "GSM1133137", "GSM1133138", "GSM1133139", "GSM1133140", "GSM1133141", "GSM1133142", "GSM1133143", "GSM1133144", "GSM1133145", "GSM1133146", "GSM1133147", "GSM1133148", "GSM1133149", "GSM1133150", "GSM1133151", "GSM1133152", "GSM1133153", "GSM1133154", "GSM1133155", "GSM1133156", "GSM1133157", "GSM1133158", "GSM1133159", "GSM1133160", "GSM1133161", "GSM1133162", "GSM1133163", "GSM1133164", "GSM1133165", "GSM1133166", "GSM1133167", "GSM1133168", "GSM1133169", "GSM1133170", "GSM1133171", "GSM1133172", "GSM1133173", "GSM1133174", "GSM1133175", "GSM1133176", "GSM1133177", "GSM1133178", "GSM1133179", "GSM1133180", "GSM1133181", "GSM1133182", "GSM1133183", "GSM1133184", "GSM1133185"], "sample_count": 50, "group_sizes": null, "group_sizes_basis": null, "platform": "570", "taxon": "Homo sapiens", "title": "Expression data from prostate cancer and benign prostate glands", "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:GSE69223", "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=GSE69223", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE69223", "version": null, "note": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1695583", "GSM1695584", "GSM1695585", "GSM1695586", "GSM1695587", "GSM1695588", "GSM1695589", "GSM1695590", "GSM1695591", "GSM1695592", "GSM1695593", "GSM1695594", "GSM1695595", "GSM1695596", "GSM1695597", "GSM1695598", "GSM1695599", "GSM1695600", "GSM1695601", "GSM1695602", "GSM1695603", "GSM1695604", "GSM1695605", "GSM1695606", "GSM1695607", "GSM1695608", "GSM1695609", "GSM1695610", "GSM1695611", "GSM1695612"], "sample_count": 30, "group_sizes": null, "group_sizes_basis": null, "platform": "570", "taxon": "Homo sapiens", "title": "Genome-wide analysis of gene expression patterns in human prostate cancer (PCa)", "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:32266115:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:329d970a620a8ddd558795c540633774ecd1aeef671cf4de9a68388be785cdfc", "bytes": 1162, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[12]/table-wrap[1]#table-1", "version": null, "note": "GO and KEGG pathway enrichment analysis of DEGs in prostate cancer samples.KEGG pathway analysis revealed that the DEGs were mainly enriched in focal adhesion and Glutathione metabolism pathway.", "structure": {"pmcid": "PMC7120053", "section_index": 12, "section_title": "KEGG and GO enrichment analyses of DEGs", "row_count": 14, "column_count": 4}, "table": {"label": "Table 1", "caption": "GO and KEGG pathway enrichment analysis of DEGs in prostate cancer samples.KEGG pathway analysis revealed that the DEGs were mainly enriched in focal adhesion and Glutathione metabolism pathway.", "rows": [["Pathway ID", "Term", "Count", "P-value"], ["GO:0007155", "Cell adhesion", "39", "1.86E−06"], ["GO:0007155", "Biological adhesion", "39", "1.88E−06"], ["GO:0048762", "Mesenchymal cell differentiation", "9", "2.52E−05"], ["GO:0014031", "Mesenchymal cell development", "9", "2.52E−05"], ["GO:0044421", "Extracellular region part", "63", "3.08E−14"], ["GO:0031012", "Extracellular matrix", "32", "6.05E−11"], ["GO:0005578", "Proteinaceous extracellular matrix", "29", "9.94E−10"], ["GO:0005578", "Extracellular region", "87", "1.37E−09"], ["GO:0004364", "Glutathione transferase activity", "6", "7.31E−05"], ["GO:0005201", "Extracellular matrix structural constituent", "10", "1.57E−04"], ["hsa04510", "Focal adhesion", "17", "4.85E−05"], ["hsa04510", "Drug metabolism", "9", "1.64E−04"], ["hsa04510", "Glutathione metabolism", "8", "2.54E−04"]], "row_count": 14, "column_count": 4, "numeric_cells": 39, "header_rows": 1, "locator": "section[12]/table-wrap[1]#table-1"}}, {"id": "asset:table:pmid:32266115:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:18b45872bea5387d1a70c2ad91948593074cb6d460bac57dde11b1facfbc8bea", "bytes": 1074, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[1]#table-2", "version": null, "note": "GO and KEGG pathway enrichment analysis of DEGs in the most significant module.The genes in the most significant module were mainly enriched in the function of cell cycle phase, mitosis, cell division, microtubule cytoskeleton, spindle, p53 signaling pathway, Oocyte meiosis.", "structure": {"pmcid": "PMC7120053", "section_index": 13, "section_title": "PPI and module analysis", "row_count": 13, "column_count": 4}, "table": {"label": "Table 2", "caption": "GO and KEGG pathway enrichment analysis of DEGs in the most significant module.The genes in the most significant module were mainly enriched in the function of cell cycle phase, mitosis, cell division, microtubule cytoskeleton, spindle, p53 signaling pathway, Oocyte meiosis.", "rows": [["Pathway ID", "Term", "Count", "P-value"], ["GO:0000279", "M phase", "14", "6.27E−18"], ["GO:0022403", "Cell cycle phase", "14", "1.27E−16"], ["GO:0007067", "Mitosis", "11", "4.12E−14"], ["GO:0000280", "Nuclear division", "11", "4.12E−14"], ["GO:0051301", "Cell division", "10", "4.04E−11"], ["GO:0015630", "Microtubule cytoskeleton", "9", "1.90E−07"], ["GO:0005819", "Spindle", "6", "1.04E−06"], ["GO:0051276", "Chromosome organization", "8", "1.65E−06"], ["GO:0044430", "Cytoskeletal part", "9", "1.22E−05"], ["GO:0003682", "Chromatin binding", "4", "6.21E−04"], ["hsa04115", "p53 Signaling pathway", "3", "0.003543755"], ["hsa04114", "Oocyte meiosis", "3", "0.009071242"]], "row_count": 13, "column_count": 4, "numeric_cells": 37, "header_rows": 1, "locator": "section[13]/table-wrap[1]#table-2"}}, {"id": "asset:table:pmid:32266115:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:81d5ff3a83daea02b44698fa1e5e78f871896d0144ed48d50570cff50bbc42af", "bytes": 946, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[16]/table-wrap[1]#table-3", "version": null, "note": "GSEA results of core genes in TCGA PRAD.The P-value of the P53_signaling_pathway, GNRH signaling pathway, DNA replication, cell cycle in the 5 core genes were listed.", "structure": {"pmcid": "PMC7120053", "section_index": 16, "section_title": "Clinical relevance and GSEA", "row_count": 7, "column_count": 9}, "table": {"label": "Table 3", "caption": "GSEA results of core genes in TCGA PRAD.The P-value of the P53_signaling_pathway, GNRH signaling pathway, DNA replication, cell cycle in the 5 core genes were listed.", "rows": [["", "P53_signaling_pathway", "GNRH_signaling_pathway", "DNA_replication", "Cell_cycle"], ["", "NOM P-val", "FDR q-val", "NOM P-val", "FDR q-val", "NOM P-val", "FDR q-val", "NOM P-val", "FDR q-val"], ["RRM2", "<0.001", "0.0012", "<0.001", "4.65E−04", "<0.001", "0.001", "<0.001", "6.04E−04"], ["CKS2", "<0.001", "0.0054", "0.125", "0.1249", "<0.001", "0.0059", "<0.001", "0.00254688"], ["MKI67", "<0.001", "0.0026", "<0.001", "9.34E−04", "<0.001", "0.0023", "<0.001", "0.001120284"], ["TK1", "<0.001", "0.0124", "0.0653", "0.0708", "<0.001", "0.0049", "<0.001", "0.003169282"], ["TOP2A", "0.001992032", "0.0045", "<0.001", "0.0029", "<0.001", "0.004227", "<0.001", "0.00279397"]], "row_count": 7, "column_count": 9, "numeric_cells": 42, "header_rows": 2, "locator": "section[16]/table-wrap[1]#table-3"}}, {"id": "asset:table:pmid:32266115:4", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:d23903618153e6f6ac3dda8460d9940bf1d3cca0573e014d94e034c6c8f6c442", "bytes": 3334, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[17]/table-wrap[1]#table-4", "version": null, "note": "Functional roles of 20 core genes with degree ≥20.These biological functions are closely related to the prostate cancer. A total of 20 core genes were screened with degree ≥20. The full name and the function of the 20 core genes were listed.", "structure": {"pmcid": "PMC7120053", "section_index": 17, "section_title": "Discussion", "row_count": 21, "column_count": 4}, "table": {"label": "Table 4", "caption": "Functional roles of 20 core genes with degree ≥20.These biological functions are closely related to the prostate cancer. A total of 20 core genes were screened with degree ≥20. The full name and the function of the 20 core genes were listed.", "rows": [["No.", "Gene symbol", "Full name", "Function"], ["1", "CKS2", "Cyclin kinase subunit 2", "Overexpressed CKS2 promotes cell growth and protects cell from apoptosis"], ["2", "TK1", "Thymidine kinase 1", "TK1 is related to DNA precursor synthesis, acts as a proliferating biomarker of prostate and breast cancer"], ["3", "MKI67", "Marker of proliferation Ki-67", "KI-67 is a marker of tumor cell proliferation and the epithelial-mesenchymal transition"], ["4", "TOP2A", "Topoisomerase IIα", "TOP2A controls the topology structure of DNA and cell cycle progression"], ["5", "CCNB1", "Cyclin B1", "A high cyclin B1 level contributes to the development of polyploidy and was a prognosis biomarker of prostate cancer for chemotherapy"], ["6", "RRM2", "Ribonucleotide-reductase regulatory subunit M2", "RRM2 limits the rate of DNA synthesis and repair. It was considered to be a biomarker to predict recurrence in PCa patients with low-risk"], ["7", "EZH2", "Enhancer of Zeste homolog 2", "Drug targeting therapy EZH2 may be a new therapeutic strategy for advanced PCa and docetaxel-resistant PCa patients"], ["8", "AURKA", "Aurora kinase A", "AURKA was considered to be a potential prognostic biomarker for the progression of high-risk small-cell prostate cancer"], ["9", "BIRC5", "Baculoviral IAP Repeat containing 5", "BIRC5 may prevent apoptotic cell death, by survivin, a protein that inhibits apoptosis"], ["10", "CCNB2", "Cyclin B2", "CDC2 specifically binds to Cyclin B2 to increase cell migration which is related to the development of CRPC"], ["11", "CDCA8", "Cell division cycle associated 8", "Overexpressed CDCA8 is related to mitosis and cell growth and acts as a prognosis biomarker of breast cancer"], ["12", "TPX2", "Targeting protein for Xenopus kinesin-like protein 2", "TPX2 is a microtubule-associated protein linked to mitosis and spindle assembly and targeting TPX2 is a strategy of PCa"], ["13", "CENPF", "Centromere protein F", "CENPF acts in the centromere-kinetochore complex and chromosomal segregation, it is related to aggressive prostate cancer"], ["14", "NVAPG", "Non-SMC condensin I complex subunit G", "NCAPG acts as a target of miR-99a-3p in PCa cells, overexpression of NCAPG is related to CRPC"], ["15", "NUSAP1", "Nucleolar and spindle-associated protein 1", "NUSAP1 is a prognosis biomarker in the early stage of PCa patients"], ["16", "ANLN", "Anillin actin binding protein", "ANLN was found to be related to cell cycle and growth of PCa cells"], ["17", "CDCA5", "Cell division cycle associated 5", "Knockdown CDCA5 may cause cell cycle arrest in the G2/M phase"], ["18", "ECT2", "Epithelial cell transforming sequence 2", "ECT2 is a guanine nucleotide exchange factor that is related to the progression of tumors"], ["19", "HMMR", "Hyaluronan-mediated motility receptor", "Hyaluronan-mediated motility receptor (HMMR) binds native and fragmented HA, promotes HA uptake"], ["20", "CENPU", "Centromere protein U", "CENPU upregulation can increase the invasiveness of prostate cancer"]], "row_count": 21, "column_count": 4, "numeric_cells": 33, "header_rows": 1, "locator": "section[17]/table-wrap[1]#table-4"}}], "gaps": ["asset:data:geo:GSE104749 not downloaded", "asset:data:geo:GSE104749 licence not read", "asset:data:geo:GSE21032 not downloaded", "asset:data:geo:GSE21032 licence not read", "asset:data:geo:GSE38241 not downloaded", "asset:data:geo:GSE38241 licence not read", "asset:data:geo:GSE46602 not downloaded", "asset:data:geo:GSE46602 licence not read", "asset:data:geo:GSE69223 not downloaded", "asset:data:geo:GSE69223 licence not read"]}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": "clustering", "specific": "hierarchical", "label": "Clustering", "dsl_operations": ["hierarchical_cluster"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["feature_matrix"], "evidence": {"score": 0.7, "band": "medium", "quote": "Hierarchical clustering"}}, {"id": "method-2", "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": "PPI"}}, {"id": "method-3", "family": null, "specific": null, "label": "GEO2R differential expression analysis", "dsl_operations": [], "missing_operations": [], "expressible": null, "parameters": {}, "data_shapes": [], "evidence": {"score": 1.0, "band": "verbatim", "quote": "The GEO2R (http://www.ncbi.nlm.nih.gov/geo/geo2r) was used to screen DEGs between prostate carcinoma samples and noncancerous samples GSE104749, GSE38241, GSE69223, GSE46602 datasets."}}], "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": ["hierarchical_cluster"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: hierarchical."}, "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": ["GSE104749", "GSE38241", "GSE69223", "GSE46602", "GSE21032"], "resolved_accessions": ["GSE104749", "GSE38241", "GSE69223", "GSE46602", "GSE21032"], "statements": ["The following information was supplied regarding data availability:\nData is available at NCBI GEO: GSE38241, GSE69223, GSE46602, GSE104749."], "basis": "The paper names GSE104749, GSE38241, GSE69223, GSE46602, GSE21032 in NCBI Gene Expression Omnibus (GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["hierarchical_cluster"], "assets": ["source:pmid:32266115", "data:geo:GSE104749", "asset:table:pmid:32266115:1", "asset:table:pmid:32266115:2", "asset:table:pmid:32266115:3", "asset:table:pmid:32266115:4"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE104749"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:19:08Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 3, "usage": {"prompt_tokens": 46910, "completion_tokens": 2201, "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:32266115", "type": "paper", "label": "pmid:32266115"}, {"id": "source:pmid:32266115", "type": "manuscript", "label": "PMID 32266115 full text"}, {"id": "data:geo:GSE104749", "type": "dataset", "label": "GEO GSE104749"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:32266115", "type": "paper", "label": "pmid:32266115"}, {"id": "source:pmid:32266115", "type": "manuscript", "label": "PMID 32266115 full text"}, {"id": "data:geo:GSE104749", "type": "dataset", "label": "GEO GSE104749"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-32266115", "type": "extraction", "used": ["source:pmid:32266115"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE104749", "type": "accession_resolution", "used": ["data:geo:GSE104749"], "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:32266115", "parent_hash": "sha256:eec27063249f7b146ff2a430eb7b5c36689f83b1e5642d62d69d03e6b261719c", "fork_of": null, "generation": 4}, "gaps": ["asset:data:geo:GSE104749 licence not read", "asset:data:geo:GSE104749 not downloaded", "asset:data:geo:GSE21032 licence not read", "asset:data:geo:GSE21032 not downloaded", "asset:data:geo:GSE38241 licence not read", "asset:data:geo:GSE38241 not downloaded", "asset:data:geo:GSE46602 licence not read", "asset:data:geo:GSE46602 not downloaded", "asset:data:geo:GSE69223 licence not read", "asset:data:geo:GSE69223 not downloaded", "execution.not_run", "method.reader_named_unmapped", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "analysis", "definition_id": "clustering", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["hierarchical_cluster"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.7, "evidence": ["Hierarchical clustering"], "order_basis": "analysis_only", "id": "assay:1"}]}