Abnormal expression of ATP1A1 and ATP1A2 in breast cancer

{"sci_version": "1.5", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:28529692", "kind": "science-record", "revision": 6, "content_hash": "sha256:116bf117cc3112c78abf15a5c35878e88e5fab508f979460005284568439dbe5", "created_at": "2026-11-01T11:44:20Z", "updated_at": "2026-11-03T13:56:33Z", "generator": {"name": "corpus-assay-engine", "run_id": "pilot-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Abnormal expression of ATP1A1 and ATP1A2 in breast cancer", "doi": "10.12688/f1000research.10481.1", "pmid": "28529692", "authors": ["Alexey Bogdanov", "Fedor Moiseenko", "Michael Dubina"], "journal": "F1000Research", "year": 2017, "abstract": "Breast cancer is the first in incidence and the second in death among all solid tumors occurring in women. The identification of molecular genetic abnormalities in breast cancer is important to improve the results of treatment. In the present study, we analyzed microarray data of breast cancer expression profiling (NCBI GEO database, accession GSE65194), focusing on Na +/K +-ATPase coding genes. We found overexpression of the ATP1A1 and down-regulation of the ATP1A2. We expect that our research could help to improve the understanding of predictive and prognostic features of breast cancer.\nKeywords: breast cancer, Na+/K+-ATPase, gene expression, abnormality, ATP1A1, ATP1A2", "claims": [{"id": "claim-method", "statement": "We utilized Transcriptome Analysis Console 3.0 software (Affymetrix, Inc. USA) to analyze the obtained CHP files and to detect differentially expressed genes using one-way between subjects ANOVA.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:28529692", "locator": "sections[2] \"Methods\" paragraph 2", "quote": "We utilized Transcriptome Analysis Console 3.0 software (Affymetrix, Inc. USA) to analyze the obtained CHP files and to detect differentially expressed genes using one-way between subjects ANOVA."}], "state": "complete"}, {"id": "claim-target-result", "statement": "ATP1A1 was overexpressed approximately 1.5 times in all groups of breast cancer samples (p<0.05). Coincidently, ATP1A2 expression decreased by more than 2 times (p<0.05).", "kind": "quantitative", "target": {"value": 1.5, "unit": "fold change (ATP1A1)", "tolerance": null, "source": "ATP1A1 was overexpressed approximately 1.5 times in all groups of breast cancer samples (p<0.05). Coincidently, ATP1A2 expression decreased by more than 2 times (p<0.05)."}, "evidence": [{"asset": "source:pmid:28529692", "locator": "sections[1] \"Introduction\" paragraph 4", "quote": "ATP1A1 was overexpressed approximately 1.5 times in all groups of breast cancer samples (p<0.05). Coincidently, ATP1A2 expression decreased by more than 2 times (p<0.05)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Raw data for Table 1 are available at:\nhttps://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE65194&format=file 22.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:28529692", "locator": "sections[4] \"Data and software availability\" paragraphs 1-3", "quote": "Raw data for Table 1 are available at:\nhttps://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE65194&format=file 22."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "In GSE65194 Affymetrix microarray data analyzed by one-way between-subjects ANOVA, ATP1A1 was overexpressed approximately 1.5-fold in all breast cancer groups (p<0.05), while ATP1A2 expression decreased by more than 2-fold (p<0.05).", "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:28529692"], "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:GSE65194"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "blocked", "blocked_on": "method:microarray_rma_normalise", "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {"alpha": 0.05, "design": "one-way between subjects", "software": "Transcriptome Analysis Console 3.0"}, "inputs": ["data:geo:GSE65194"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:run_analysis blocked on method:microarray_rma_normalise"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:28529692", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.12688/f1000research.10481.1", "sha256": "sha256:b52c152ee6cd127bf20948915bce7ef4e8d743048657f0fe8c3441f877d98c57", "bytes": 8810, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.12688/f1000research.10481.1", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC5428514", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE65194", "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=GSE65194", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE65194", "version": null, "note": "Raw data for Table 1 are available at:\nhttps://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE65194&format=file 22.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "Raw data for Table 1 are available at:\nhttps://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE65194&format=file 22.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1588970", "GSM1588971", "GSM1588972", "GSM1588973", "GSM1588974", "GSM1588975", "GSM1588976", "GSM1588977", "GSM1588978", "GSM1588979", "GSM1588980", "GSM1588981", "GSM1588982", "GSM1588983", "GSM1588984", "GSM1588985", "GSM1588986", "GSM1588987", "GSM1588988", "GSM1588989", "GSM1588990", "GSM1588991", "GSM1588992", "GSM1588993", "GSM1588994", "GSM1588995", "GSM1588996", "GSM1588997", "GSM1588998", "GSM1588999", "GSM1589000", "GSM1589001", "GSM1589002", "GSM1589003", "GSM1589004", "GSM1589005", "GSM1589006", "GSM1589007", "GSM1589008", "GSM1589009", "GSM1589010", "GSM1589011", "GSM1589012", "GSM1589013", "GSM1589014", "GSM1589015", "GSM1589016", "GSM1589017", "GSM1589018", "GSM1589019", "GSM1589020", "GSM1589021", "GSM1589022", "GSM1589023", "GSM1589024", "GSM1589025", "GSM1589026", "GSM1589027", "GSM1589028", "GSM1589029", "GSM1589030", "GSM1589031", "GSM1589032", "GSM1589033", "GSM1589034", "GSM1589035", "GSM1589036", "GSM1589037", "GSM1589038", "GSM1589039", "GSM1589040", "GSM1589041", "GSM1589042", "GSM1589043", "GSM1589044", "GSM1589045", "GSM1589046", "GSM1589047", "GSM1589048", "GSM1589049", "GSM1589050", "GSM1589051", "GSM1589052", "GSM1589053", "GSM1589054", "GSM1589055", "GSM1589056", "GSM1589057", "GSM1589058", "GSM1589059", "GSM1589060", "GSM1589061", "GSM1589062", "GSM1589063", "GSM1589064", "GSM1589065", "GSM1589066", "GSM1589067", "GSM1589068", "GSM1589069", "GSM1589070", "GSM1589071", "GSM1589072", "GSM1589073", "GSM1589074", "GSM1589075", "GSM1589076", "GSM1589077", "GSM1589078", "GSM1589079", "GSM1589080", "GSM1589081", "GSM1589082", "GSM1589083", "GSM1589084", "GSM1589085", "GSM1589086", "GSM1589087", "GSM1589088", "GSM1589089", "GSM1589090", "GSM1589091", "GSM1589092", "GSM1589093", "GSM1589094", "GSM1589095", "GSM1589097", "GSM1589098", "GSM1589099", "GSM1589101", "GSM1589103", "GSM1589105", "GSM1589107", "GSM1589109", "GSM1589110", "GSM1589111", "GSM1589112", "GSM1589113", "GSM1589114", "GSM1589115", "GSM1589116", "GSM1589117", "GSM1589118", "GSM1589119", "GSM1589120", "GSM1589121", "GSM1589122", "GSM1589123", "GSM1589124", "GSM1589125", "GSM1589126", "GSM1589127", "GSM1589128", "GSM1589129", "GSM1589130", "GSM1589131", "GSM1589132", "GSM1589133", "GSM1589134", "GSM1589135", "GSM1589136", "GSM1589137", "GSM1589138", "GSM1589139", "GSM1589140", "GSM1589141", "GSM1589142", "GSM1589143", "GSM1589144", "GSM1589145", "GSM1589146", "GSM1589147", "GSM1589148", "GSM1589149", "GSM1589150", "GSM1589151", "GSM1589152", "GSM1589153"], "sample_count": 178, "group_sizes": {"Luminal A": 29, "Luminal B": 30, "Her2": 39, "TNBC": 55, "Healthy": 11, "CellLine": 14}, "group_sizes_basis": "GEO sample metadata for GSE65194: 178 samples in six groups. The tumour and healthy cohort is 164 of them; the other 14 are cell-line samples. Sample metadata only; no data was downloaded.", "platform": "570", "taxon": "Homo sapiens", "title": "Expression profiling of breast cancer samples from Institut Curie (Maire cohort) --Affy CDF", "resolution_checked_at": "2026-11-01T11:38:18Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false, "software_access_statement_verbatim": "Expression Console 1.4 software and Transcriptome Analysis Console 3.0 software (Affymetrix, Inc. 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For this purpose, we used Expression Console 1.4 software (Affymetrix, Inc. USA)."}}, {"id": "method-2", "family": "group_comparison", "specific": "one-way between subjects ANOVA", "label": "One-way analysis of variance", "dsl_operations": ["group_comparison_anova"], "missing_operations": [], "expressible": true, "parameters": {"alpha": 0.05, "design": "one-way between subjects", "software": "Transcriptome Analysis Console 3.0"}, "data_shapes": ["grouped numeric gene-expression measurements"], "evidence": {"score": 1.0, "band": "verbatim", "quote": "We utilized Transcriptome Analysis Console 3.0 software (Affymetrix, Inc. 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ANOVA p-value 0.009016; source cell '1.53 (0.009016)'."}, {"id": "target-atp1a1-lum-a-p", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": 0.009016, "unit": "ANOVA p-value", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A1, Lum A; source cell '1.53 (0.009016)'."}, {"id": "target-atp1a1-lum-b", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": 1.38, "unit": "relative expression fold change", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A1, Lum B; ANOVA p-value 0.04454; source cell '1.38 (0.04454)'."}, {"id": "target-atp1a1-lum-b-p", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": 0.04454, "unit": "ANOVA p-value", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A1, Lum B; source cell '1.38 (0.04454)'."}, {"id": "target-atp1a1-her2", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": 1.66, "unit": "relative expression fold change", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A1, Her2; ANOVA p-value 0.005926; source cell '1.66 (0.005926)'."}, {"id": "target-atp1a1-her2-p", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": 0.005926, "unit": "ANOVA p-value", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A1, Her2; source cell '1.66 (0.005926)'."}, {"id": "target-atp1a1-tnbc", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": 1.44, "unit": "relative expression fold change", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A1, TNBC; ANOVA p-value 0.015725; source cell '1.44 (0.015725)'."}, {"id": "target-atp1a1-tnbc-p", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": 0.015725, "unit": "ANOVA p-value", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A1, TNBC; source cell '1.44 (0.015725)'."}, {"id": "target-atp1a2-lum-a", "claim_id": "claim-target-result", "operation": "group_comparison_anova", "expected_value": -2.49, "unit": "relative expression fold change", "tolerance": null, "state": "complete", "note": "Table 1, ATP1A2, Lum A; 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In the present study, we analyzed microarray data of breast cancer expression profiling (", "se, we used Expression Console 1.4 software (Affymetrix, Inc. USA). We utilized Transcriptome Analys", "Transcriptome Analysis Console 3.0 software (Affymetrix, Inc. USA) to analyze the obtained CHP files", "Transcriptome Analysis Console 3.0 software (Affymetrix, Inc. USA) are available after free customer"], "order_basis": "paper_text_order:275", "id": "assay:1"}, {"role": "analysis", "definition_id": "group_comparison", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["group_comparison_anova", "microarray_rma_normalise", "group_relative_expression"], "support_state": "partial", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["We utilized Transcriptome Analysis Console 3.0 software (Affymetrix, Inc. 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