← All .science files
pmid:32904605
AHNAK2 Is Associated with Poor Prognosis and Cell Migration in Lung Adenocarcinoma.
Shusen Zhang · Yuanyuan Lu · Lei Qi · Hongyan Wang · Zhihua Wang · Zhigang Cai
BioMed research international · 2020 doi:10.1155/2020/8571932
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 · 6 items
[0] object · 15 fields
structure object · 4 fields
[1] object · 15 fields
structure object · 15 fields
sample_accessions array · 116 items
[2] object · 15 fields
structure object · 15 fields
sample_accessions array · 442 items
[3] object · 16 fields
structure object · 5 fields
table object · 8 fields
rows array · 23 items
[0] array · 4 items
[1] array · 2 items
[2] array · 5 items
[3] array · 5 items
[4] array · 5 items
[5] array · 5 items
[6] array · 5 items
[7] array · 5 items
[8] array · 5 items
[9] array · 5 items
[10] array · 5 items
[11] array · 5 items
[12] array · 5 items
[13] array · 5 items
[14] array · 5 items
[15] array · 5 items
[16] array · 5 items
[17] array · 5 items
[18] array · 5 items
[19] array · 5 items
[20] array · 5 items
[21] array · 5 items
[22] array · 5 items
[4] object · 16 fields
structure object · 5 fields
table object · 8 fields
rows array · 4 items
[0] array · 4 items
[1] array · 4 items
[2] array · 4 items
[3] array · 4 items
[5] object · 16 fields
structure object · 5 fields
table object · 8 fields
rows array · 13 items
[0] array · 4 items
[1] array · 9 items
[2] array · 10 items
[3] array · 10 items
[4] array · 10 items
[5] array · 10 items
[6] array · 10 items
[7] array · 1 item
[8] array · 10 items
[9] array · 10 items
[10] array · 10 items
[11] array · 10 items
[12] array · 10 items
gaps array · 4 items
analysis object · 4 fields
methods array · 5 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 · 1 item
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[2] object · 10 fields
dsl_operations array · 1 item
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[3] object · 10 fields
dsl_operations array · 2 items
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[4] 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 · 2 items
resolved_accessions array · 2 items
statements array · 1 item
can_run object · 3 fields
dsl_operations array · 1 item
assets array · 5 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 · 9 items
assays array · 5 items
[0] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 4 items
[1] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 2 items
[2] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 1 item
[3] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 2 items
[4] 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:32904605", "kind": "science-record", "revision": 7, "content_hash": "sha256:7e0c51da1e1dd9f6a2d162da7b42667724cd35c2672f23149063bea1ff189b8a", "created_at": "2026-11-01T15:41:10Z", "updated_at": "2026-11-01T22:02:09Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "AHNAK2 Is Associated with Poor Prognosis and Cell Migration in Lung Adenocarcinoma.", "doi": "10.1155/2020/8571932", "pmid": "32904605", "authors": ["Shusen Zhang", "Yuanyuan Lu", "Lei Qi", "Hongyan Wang", "Zhihua Wang", "Zhigang Cai"], "journal": "BioMed research international", "year": 2020, "abstract": "BACKGROUND: Lung adenocarcinoma (LUAD), as the main subtype of lung cancer, is one of the common causes of cancer-related deaths worldwide. The AHNAK family is correlated with cell structure and migration, cardiac calcium channel signaling, and tumor metastasis. Previous studies showed AHNAK2 could promote tumor progression and cell migration in melanoma and renal clear cell carcinoma. However, the role of AHNAK2 in LUAD remains unknown.\nMETHODS: We examined the levels of AHNAK2 in pathological specimens and the database of Clinical Proteomic Tumor Analysis Consortium-Lung adenocarcinoma (CPTAC-LUAD), The Cancer Genome Atlas-Lung Adenocarcinoma (TCGA-LUAD), Gene Expression Omnibus dataset (GSE72094, GSE26939), and The Genotype-Tissue Expression (GTEx) of lung tissue samples. Univariate Cox regression, multivariate Cox regression, and Kaplan-Meier survival analysis were performed to reveal the relationship between AHNAK2 and prognosis. A nomogram was constructed to predict 2- or 3-year overall survival and validated via calibration curves, receiver operating characteristic (ROC) analysis, and decision curve analysis (DCA). Furthermore, Gene Ontology (GO) analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis were used to explore the functional role of AHNAK2 in lung adenocarcinoma. Finally, by transfecting siRNA, we examined the regulatory effect of AHNAK2 on cell migration.\nRESULTS: The expression of AHNAK2 was upregulated in tumor samples and correlated with poor prognosis in LUAD patients. Nomogram with AHNAK2 and clinical parameters showed a good prediction in overall survival (OS), especially the 2-year OS. In addition, functional analyses and wound healing assay suggested that AHNAK2 might be involved in the regulation of migration in LUAD.\nCONCLUSION: In summary, our study showed that AHNAK2 might be a novel biomarker in LUAD and revealed the potential mechanism of AHNAK2 in LUAD progression which could provide new insights for target therapy.", "claims": [{"id": "claim-method", "statement": "Kaplan–Meier analyses were performed to assess the role of AHNAK2 in predicting overall survival.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32904605", "locator": "sections[5] \"2.3. Survival and Prognosis\" paragraph 2", "quote": "Kaplan–Meier analyses were performed to assess the role of AHNAK2 in predicting overall survival."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The data used to support the findings of this study are included within the article.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32904605", "locator": "sections[21] \"Data Availability\" paragraph 2", "quote": "The data used to support the findings of this study are included within the article."}], "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:32904605"], "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:GSE26939"], "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:GSE26939"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:32904605", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1155/2020/8571932", "sha256": "sha256:c904898fc47954df5ae7452d059f7a27d9a9b82513d48858f154a1807834cb6f", "bytes": 37210, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1155/2020/8571932", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC7456490", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE26939", "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=GSE26939", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE26939", "version": null, "note": "The data used to support the findings of this study are included within the article.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The data used to support the findings of this study are included within the article.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM663284", "GSM663285", "GSM663286", "GSM663287", "GSM663288", "GSM663289", "GSM663290", "GSM663291", "GSM663292", "GSM663293", "GSM663294", "GSM663295", "GSM663296", "GSM663297", "GSM663298", "GSM663299", "GSM663300", "GSM663301", "GSM663302", "GSM663303", "GSM663304", "GSM663305", "GSM663306", "GSM663307", "GSM663308", "GSM663309", "GSM663310", "GSM663311", "GSM663312", "GSM663313", "GSM663314", "GSM663315", "GSM663316", "GSM663317", "GSM663318", "GSM663319", "GSM663320", "GSM663321", "GSM663322", "GSM663323", "GSM663324", "GSM663325", "GSM663326", "GSM663327", "GSM663328", "GSM663329", "GSM663330", "GSM663331", "GSM663332", "GSM663333", "GSM663334", "GSM663335", "GSM663336", "GSM663337", "GSM663338", "GSM663339", "GSM663340", "GSM663341", "GSM663342", "GSM663343", "GSM663344", "GSM663345", "GSM663346", "GSM663347", "GSM663348", "GSM663349", "GSM663350", "GSM663351", "GSM663352", "GSM663353", "GSM663354", "GSM663355", "GSM663356", "GSM663357", "GSM663358", "GSM663359", "GSM663360", "GSM663361", "GSM663362", "GSM663363", "GSM663364", "GSM663365", "GSM663366", "GSM663367", "GSM663368", "GSM663369", "GSM663370", "GSM663371", "GSM663372", "GSM663373", "GSM663374", "GSM663375", "GSM663376", "GSM663377", "GSM663378", "GSM663379", "GSM663380", "GSM663381", "GSM663382", "GSM663383", "GSM663384", "GSM663385", "GSM663386", "GSM663387", "GSM663388", "GSM663389", "GSM663390", "GSM663391", "GSM663392", "GSM663393", "GSM663394", "GSM663395", "GSM663396", "GSM663397", "GSM663398", "GSM663399"], "sample_count": 116, "group_sizes": null, "group_sizes_basis": null, "platform": "9053", "taxon": "Homo sapiens", "title": "Human lung adenocarcinoma mRNA expression and gene mutations.", "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:GSE72094", "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=GSE72094", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE72094", "version": null, "note": "The data used to support the findings of this study are included within the article.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The data used to support the findings of this study are included within the article.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1854797", "GSM1854798", "GSM1854799", "GSM1854800", "GSM1854801", "GSM1854802", "GSM1854803", "GSM1854804", "GSM1854805", "GSM1854806", "GSM1854807", "GSM1854808", "GSM1854809", "GSM1854810", "GSM1854811", "GSM1854812", "GSM1854813", "GSM1854814", "GSM1854815", "GSM1854816", "GSM1854817", "GSM1854818", "GSM1854819", "GSM1854820", "GSM1854821", "GSM1854822", "GSM1854823", "GSM1854824", "GSM1854825", "GSM1854826", "GSM1854827", "GSM1854828", "GSM1854829", "GSM1854830", "GSM1854831", "GSM1854832", "GSM1854833", "GSM1854834", "GSM1854835", "GSM1854836", "GSM1854837", "GSM1854838", "GSM1854839", "GSM1854840", "GSM1854841", "GSM1854842", "GSM1854843", "GSM1854844", "GSM1854845", "GSM1854846", "GSM1854847", "GSM1854848", "GSM1854849", "GSM1854850", "GSM1854851", "GSM1854852", "GSM1854853", "GSM1854854", "GSM1854855", "GSM1854856", "GSM1854857", "GSM1854858", "GSM1854859", "GSM1854860", "GSM1854861", "GSM1854862", "GSM1854863", "GSM1854864", "GSM1854865", "GSM1854866", "GSM1854867", "GSM1854868", "GSM1854869", "GSM1854870", "GSM1854871", "GSM1854872", "GSM1854873", "GSM1854874", "GSM1854875", "GSM1854876", "GSM1854877", "GSM1854878", "GSM1854879", "GSM1854880", "GSM1854881", "GSM1854882", "GSM1854883", "GSM1854884", "GSM1854885", "GSM1854886", "GSM1854887", "GSM1854888", "GSM1854889", "GSM1854890", "GSM1854891", "GSM1854892", "GSM1854893", "GSM1854894", "GSM1854895", "GSM1854896", "GSM1854897", "GSM1854898", "GSM1854899", "GSM1854900", "GSM1854901", "GSM1854902", "GSM1854903", "GSM1854904", "GSM1854905", "GSM1854906", "GSM1854907", "GSM1854908", "GSM1854909", "GSM1854910", "GSM1854911", "GSM1854912", "GSM1854913", "GSM1854914", "GSM1854915", "GSM1854916", "GSM1854917", "GSM1854918", "GSM1854919", "GSM1854920", "GSM1854921", "GSM1854922", "GSM1854923", "GSM1854924", "GSM1854925", "GSM1854926", "GSM1854927", "GSM1854928", "GSM1854929", "GSM1854930", "GSM1854931", "GSM1854932", "GSM1854933", "GSM1854934", "GSM1854935", "GSM1854936", "GSM1854937", "GSM1854938", "GSM1854939", "GSM1854940", "GSM1854941", "GSM1854942", "GSM1854943", "GSM1854944", "GSM1854945", "GSM1854946", "GSM1854947", "GSM1854948", "GSM1854949", "GSM1854950", "GSM1854951", "GSM1854952", "GSM1854953", "GSM1854954", "GSM1854955", "GSM1854956", "GSM1854957", "GSM1854958", "GSM1854959", "GSM1854960", "GSM1854961", "GSM1854962", "GSM1854963", "GSM1854964", "GSM1854965", "GSM1854966", "GSM1854967", "GSM1854968", "GSM1854969", "GSM1854970", "GSM1854971", "GSM1854972", "GSM1854973", "GSM1854974", "GSM1854975", "GSM1854976", "GSM1854977", "GSM1854978", "GSM1854979", "GSM1854980", "GSM1854981", "GSM1854982", "GSM1854983", "GSM1854984", "GSM1854985", "GSM1854986", "GSM1854987", "GSM1854988", "GSM1854989", "GSM1854990", "GSM1854991", "GSM1854992", "GSM1854993", "GSM1854994", "GSM1854995", "GSM1854996", "GSM1854997", "GSM1854998", "GSM1854999", "GSM1855000", "GSM1855001", "GSM1855002", "GSM1855003", "GSM1855004", "GSM1855005", "GSM1855006", "GSM1855007", "GSM1855008", "GSM1855009", "GSM1855010", "GSM1855011", "GSM1855012", "GSM1855013", "GSM1855014", "GSM1855015", "GSM1855016", "GSM1855017", "GSM1855018", "GSM1855019", "GSM1855020", "GSM1855021", "GSM1855022", "GSM1855023", "GSM1855024", "GSM1855025", "GSM1855026", "GSM1855027", "GSM1855028", "GSM1855029", "GSM1855030", "GSM1855031", "GSM1855032", "GSM1855033", "GSM1855034", "GSM1855035", "GSM1855036", "GSM1855037", "GSM1855038", "GSM1855039", "GSM1855040", "GSM1855041", "GSM1855042", "GSM1855043", "GSM1855044", "GSM1855045", "GSM1855046", "GSM1855047", "GSM1855048", "GSM1855049", "GSM1855050", "GSM1855051", "GSM1855052", "GSM1855053", "GSM1855054", "GSM1855055", "GSM1855056", "GSM1855057", "GSM1855058", "GSM1855059", "GSM1855060", "GSM1855061", "GSM1855062", "GSM1855063", "GSM1855064", "GSM1855065", "GSM1855066", "GSM1855067", "GSM1855068", "GSM1855069", "GSM1855070", "GSM1855071", "GSM1855072", "GSM1855073", "GSM1855074", "GSM1855075", "GSM1855076", "GSM1855077", "GSM1855078", "GSM1855079", "GSM1855080", "GSM1855081", "GSM1855082", "GSM1855083", "GSM1855084", "GSM1855085", "GSM1855086", "GSM1855087", "GSM1855088", "GSM1855089", "GSM1855090", "GSM1855091", "GSM1855092", "GSM1855093", "GSM1855094", "GSM1855095", "GSM1855096", "GSM1855097", "GSM1855098", "GSM1855099", "GSM1855100", "GSM1855101", "GSM1855102", "GSM1855103", "GSM1855104", "GSM1855105", "GSM1855106", "GSM1855107", "GSM1855108", "GSM1855109", "GSM1855110", "GSM1855111", "GSM1855112", "GSM1855113", "GSM1855114", "GSM1855115", "GSM1855116", "GSM1855117", "GSM1855118", "GSM1855119", "GSM1855120", "GSM1855121", "GSM1855122", "GSM1855123", "GSM1855124", "GSM1855125", "GSM1855126", "GSM1855127", "GSM1855128", "GSM1855129", "GSM1855130", "GSM1855131", "GSM1855132", "GSM1855133", "GSM1855134", "GSM1855135", "GSM1855136", "GSM1855137", "GSM1855138", "GSM1855139", "GSM1855140", "GSM1855141", "GSM1855142", "GSM1855143", "GSM1855144", "GSM1855145", "GSM1855146", "GSM1855147", "GSM1855148", "GSM1855149", "GSM1855150", "GSM1855151", "GSM1855152", "GSM1855153", "GSM1855154", "GSM1855155", "GSM1855156", "GSM1855157", "GSM1855158", "GSM1855159", "GSM1855160", "GSM1855161", "GSM1855162", "GSM1855163", "GSM1855164", "GSM1855165", "GSM1855166", "GSM1855167", "GSM1855168", "GSM1855169", "GSM1855170", "GSM1855171", "GSM1855172", "GSM1855173", "GSM1855174", "GSM1855175", "GSM1855176", "GSM1855177", "GSM1855178", "GSM1855179", "GSM1855180", "GSM1855181", "GSM1855182", "GSM1855183", "GSM1855184", "GSM1855185", "GSM1855186", "GSM1855187", "GSM1855188", "GSM1855189", "GSM1855190", "GSM1855191", "GSM1855192", "GSM1855193", "GSM1855194", "GSM1855195", "GSM1855196", "GSM1855197", "GSM1855198", "GSM1855199", "GSM1855200", "GSM1855201", "GSM1855202", "GSM1855203", "GSM1855204", "GSM1855205", "GSM1855206", "GSM1855207", "GSM1855208", "GSM1855209", "GSM1855210", "GSM1855211", "GSM1855212", "GSM1855213", "GSM1855214", "GSM1855215", "GSM1855216", "GSM1855217", "GSM1855218", "GSM1855219", "GSM1855220", "GSM1855221", "GSM1855222", "GSM1855223", "GSM1855224", "GSM1855225", "GSM1855226", "GSM1855227", "GSM1855228", "GSM1855229", "GSM1855230", "GSM1855231", "GSM1855232", "GSM1855233", "GSM1855234", "GSM1855235", "GSM1855236", "GSM1855237", "GSM1855238"], "sample_count": 442, "group_sizes": null, "group_sizes_basis": null, "platform": "15048", "taxon": "Homo sapiens", "title": "KRAS mutation-associated gene expression, p53 and STK11 mutations, proliferation and immune surveillance in lung adenocarcinoma", "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:32904605:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:214214dc2c72d7f1b9138b9769e01e6b6bb3cb46143c359f6fa20461fc07ff8e", "bytes": 953, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[1]#tab1", "version": null, "note": "Survival status and clinicopathological parameters in ADC specimens.", "structure": {"pmcid": "PMC7456490", "section_index": 13, "section_title": "3.1. AHNAK2 Upregulated in Lung Adenocarcinoma Samples and Associated with Poor Prognosis", "row_count": 23, "column_count": 5}, "table": {"label": "Table 1", "caption": "Survival status and clinicopathological parameters in ADC specimens.", "rows": [["Characteristics", "Total", "Survival status", "P value"], ["Died, n = 46", "Alive, n = 29"], ["Gender", "", "", "", "0.482"], ["Female", "37", "21", "16", ""], ["Male", "38", "25", "13", ""], ["Age (years)", "", "", "", "0.482"], ["<60", "37", "21", "16", ""], ["≥60", "38", "25", "13", ""], ["Tumor size (cm)", "", "", "", "1.000"], ["≤3", "23", "14", "9", ""], [">3", "52", "32", "20", ""], ["Lymph node metastasis", "", "", "", "<0.001∗"], ["Absent", "37", "15", "22", ""], ["Present", "38", "31", "7", ""], ["Distant metastases", "", "", "", "0.078"], ["Absent", "65", "37", "28", ""], ["Present", "10", "9", "1", ""], ["TNM stage", "", "", "", "0.004∗"], ["I-II", "38", "17", "21", ""], ["III-IV", "37", "29", "8", ""], ["AHNAK2 expression", "", "", "", "0.017∗"], ["Low", "35", "16", "19", ""], ["High", "40", "30", "10", ""]], "row_count": 23, "column_count": 5, "numeric_cells": 55, "header_rows": 2, "locator": "section[13]/table-wrap[1]#tab1"}}, {"id": "asset:table:pmid:32904605:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:1dd83b8fafa883ddec36e945d7c129a3c2f493786030b12372dcc20bd7aae87b", "bytes": 473, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[2]#tab2", "version": null, "note": "Contribution of various potential prognostic factors to survival by Cox regression analysis in ADC specimens.", "structure": {"pmcid": "PMC7456490", "section_index": 13, "section_title": "3.1. AHNAK2 Upregulated in Lung Adenocarcinoma Samples and Associated with Poor Prognosis", "row_count": 4, "column_count": 4}, "table": {"label": "Table 2", "caption": "Contribution of various potential prognostic factors to survival by Cox regression analysis in ADC specimens.", "rows": [["", "Hazard ratio", "95% confidence interval", "P value"], ["Lymph node metastasis", "0.446", "0.214-0.928", "0.031∗"], ["TNM stage", "2.028", "0.993-4.143", "0.052"], ["AHNAK2 expression", "2.405", "1.300-4.451", "0.005∗"]], "row_count": 4, "column_count": 4, "numeric_cells": 10, "header_rows": 1, "locator": "section[13]/table-wrap[2]#tab2"}}, {"id": "asset:table:pmid:32904605:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:646807feaae60c0d7f4f478dea2f6dc2d3d4d1157dde81a9e5853d133cd9f916", "bytes": 1326, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[3]#tab3", "version": null, "note": "Univariate and multivariate Cox regression showed AHNAK2 could be an independent prognostic indicator.", "structure": {"pmcid": "PMC7456490", "section_index": 13, "section_title": "3.1. AHNAK2 Upregulated in Lung Adenocarcinoma Samples and Associated with Poor Prognosis", "row_count": 13, "column_count": 10}, "table": {"label": "Table 3", "caption": "Univariate and multivariate Cox regression showed AHNAK2 could be an independent prognostic indicator.", "rows": [["", "TCGA-LUAD (n = 469)", "GSE72094 (n = 385)", "GSE26939 (n = 98)"], ["HR", "95% CI", "P value", "HR", "95% CI", "P value", "HR", "95% CI", "P value"], ["Univariate", "", "", "", "", "", "", "", "", ""], ["Age", "1.006", "0.990-1.023", "0.449", "1.497", "1.028-2.181", "0.035∗", "1.023", "0.997-1.049", "0.085"], ["Gender", "1.032", "0.752-1.416", "0.845", "1.009", "0.989-1.029", "0.389", "1.67", "0.982-2.838", "0.058"], ["Stage", "1.693", "1.464-1.957", "<0.001∗", "1.653", "1.383-1.976", "<0.001∗", "1.317", "0.984-1.764", "0.064"], ["AHNAK2", "1.038", "1.022-1.054", "<0.001∗", "1.251", "1.083-1.445", "0.002∗", "1.147", "1.034-1.273", "0.009∗"], [""], ["Multivariate", "", "", "", "", "", "", "", "", ""], ["Age", "1.008", "0.993-1.024", "0.292", "1.614", "1.097-2.375", "0.015∗", "1.024", "0.996-1.053", "0.093"], ["Gender", "0.93", "0.674-1.282", "0.656", "1.004", "0.984-1.024", "0.716", "1.358", "0.779-2.367", "0.281"], ["Stage", "1.695", "1.462-1.966", "<0.001∗", "1.694", "1.408-2.038", "<0.001∗", "1.337", "0.977-1.83", "0.069"], ["AHNAK2", "1.038", "1.020-1.056", "<0.001∗", "1.207", "1.050-1.387", "0.008∗", "1.135", "1.028-1.253", "0.012∗"]], "row_count": 13, "column_count": 10, "numeric_cells": 78, "header_rows": 2, "locator": "section[13]/table-wrap[3]#tab3"}}], "gaps": ["asset:data:geo:GSE26939 not downloaded", "asset:data:geo:GSE26939 licence not read", "asset:data:geo:GSE72094 not downloaded", "asset:data:geo:GSE72094 licence not read"]}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": "survival_analysis", "specific": "kaplan_meier", "label": "Survival analysis", "dsl_operations": ["survival_km"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["time_to_event_with_censoring"], "evidence": {"score": 0.7, "band": "medium", "quote": "Kaplan-Meier"}}, {"id": "method-2", "family": "survival_analysis", "specific": "cox_proportional_hazards", "label": "Survival analysis", "dsl_operations": ["cox_ph"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["time_to_event_with_censoring"], "evidence": {"score": 0.7, "band": "medium", "quote": "Cox regression"}}, {"id": "method-3", "family": "correlation_analysis", "specific": "pearson", "label": "Correlation analysis", "dsl_operations": ["pearson_r"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["paired_numeric_columns"], "evidence": {"score": 0.8, "band": "high", "quote": "Pearson correlation"}}, {"id": "method-4", "family": "model_calibration", "specific": "decision_curve", "label": "Model calibration / clinical utility", "dsl_operations": ["calibration_bins", "net_benefit"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["predictions_and_outcomes"], "evidence": {"score": 0.7, "band": "medium", "quote": "decision curve analysis"}}, {"id": "method-5", "family": null, "specific": null, "label": "Kaplan–Meier survival analysis using ADC patient data from TCGA-LUAD, GSE72094, and GSE26939", "dsl_operations": [], "missing_operations": [], "expressible": null, "parameters": {}, "data_shapes": [], "evidence": {"score": 1.0, "band": "verbatim", "quote": "Kaplan–Meier analyses were performed to assess the role of AHNAK2 in predicting overall survival."}}], "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": ["survival_km"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: kaplan_meier."}, "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": ["GSE72094", "GSE26939"], "resolved_accessions": ["GSE72094", "GSE26939"], "statements": ["The data used to support the findings of this study are included within the article."], "basis": "The paper names GSE72094, GSE26939 in Gene Expression Omnibus and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["survival_km"], "assets": ["source:pmid:32904605", "data:geo:GSE26939", "asset:table:pmid:32904605:1", "asset:table:pmid:32904605:2", "asset:table:pmid:32904605:3"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE26939"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:22:30Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 3, "usage": {"prompt_tokens": 31431, "completion_tokens": 2555, "cached_tokens": 792}}, "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:32904605", "type": "paper", "label": "pmid:32904605"}, {"id": "source:pmid:32904605", "type": "manuscript", "label": "PMID 32904605 full text"}, {"id": "data:geo:GSE26939", "type": "dataset", "label": "GEO GSE26939"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:32904605", "type": "paper", "label": "pmid:32904605"}, {"id": "source:pmid:32904605", "type": "manuscript", "label": "PMID 32904605 full text"}, {"id": "data:geo:GSE26939", "type": "dataset", "label": "GEO GSE26939"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-32904605", "type": "extraction", "used": ["source:pmid:32904605"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE26939", "type": "accession_resolution", "used": ["data:geo:GSE26939"], "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:32904605", "parent_hash": "sha256:18ca6fa40ac9e28c6684cea07918be23baef02cfe51b75c189acb451eafefea6", "fork_of": null, "generation": 6}, "gaps": ["asset:data:geo:GSE26939 licence not read", "asset:data:geo:GSE26939 not downloaded", "asset:data:geo:GSE72094 licence not read", "asset:data:geo:GSE72094 not downloaded", "execution.not_run", "method.reader_named_unmapped", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "data_generation", "definition_id": "transfection", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["ung adenocarcinoma. Finally, by transfecting siRNA, we examined the regulatory effect of AHNAK2", "Materials and Methods 2.6. Cell Culture and Transfection The ADC cell line (A549) was purchased from", "ere cultured continuously for 48 hours after transfection. 3.1. AHNAK2 Upregulated in Lung Adenocarcin", "40 that contains 10% fetal bovine serum. The siRNA sequences targeting AHNAK2 are as follows: 5"], "order_basis": "paper_text_order:1380", "id": "assay:1"}, {"role": "data_generation", "definition_id": "cell_culture", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["ife Science & Technology Co., Ltd. The cells cultured in a humidified chamber containing 5% CO2 at 37", "Culture and Transfection The ADC cell line (A549) was purchased from Procell Life Science & T"], "order_basis": "paper_text_order:2117", "id": "assay:2"}, {"role": "data_generation", "definition_id": "microarray", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["LUAD, we analyzed 80 samples from the tissue microarray. Among them, 5 cases were removed from the s"], "order_basis": "paper_text_order:2857", "id": "assay:3"}, {"role": "data_generation", "definition_id": "ihc", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["0.001, Figure 1(c)). Several representative immunohistochemically stained specimens were shown in Figure 1(b).", "h the multivariate Cox regression (Table 2). Immunohistochemical analysis of the expression of AHNAK2 in LUAD"], "order_basis": "paper_text_order:3433", "id": "assay:4"}, {"role": "analysis", "definition_id": "survival_analysis", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["survival_km"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.7, "evidence": ["Kaplan-Meier"], "order_basis": "consumes_earlier_output", "id": "assay:5"}]}