A miRNA Combination as Promising Biomarker for Hepatocellular Carcinoma Diagnosis: A Study Based on Bioinformatics Analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:30310500", "kind": "science-record", "revision": 8, "content_hash": "sha256:64e069b41f5398abb2c90a64a9b7cd9de27fa9083bcfb72cda1be2d96f8a8305", "created_at": "2026-11-01T15:40:38Z", "updated_at": "2026-11-01T22:00:05Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "A miRNA Combination as Promising Biomarker for Hepatocellular Carcinoma Diagnosis: A Study Based on Bioinformatics Analysis.", "doi": "10.7150/jca.26101", "pmid": "30310500", "authors": ["Jia Ji", "Hao Chen", "Xiao-Ping Liu", "Yu-Hui Wang", "Chang-Liang Luo", "Wu-Wen Zhang", "Wen Xie", "Fu-Bing Wang"], "journal": "Journal of Cancer", "year": 2018, "abstract": "Background: miRNAs dysregulate in hepatocellular carcinoma (HCC), showing promise for diagnostic biomarkers which may be found through exploration of differentially expressed miRNAs when comparing HCC and normal liver tissues. Materials and Methods: In the present research, candidate miRNAs were selected and verified using screening dataset GSE12717 and training dataset GSE10694, respectively. A miRNA combination was constructed using stepwise logistic regression analysis and validated using two datasets GSE74618 and TCGA. Target genes of miRNAs in the combination were obtained using a miRNA target gene prediction database. Functional analysis was conducted using an online tool DAVID. We also analyzed the mRNA-Seq data of project LIHC from TCGA to identify the hub target genes of the miRNAs. Results: A miRNA combination, which is composed of hsa-miR-221 and hsa-miR-29c was defined in this study. The miRNA combination is more effective in discriminating HCC patients from normal individuals than individual miRNAs. Additionally, the combined miRNAs showed a lower misdiagnosis rate than AFP in HCC diagnosis. In terms of the functional analysis, a total of 27 target genes of hsa-miR-221 and 96 target genes of hsa-miR-29c were obtained. Among which, INSIG1 was the common target of the two miRNAs. It was also found that both previously mentioned miRNAs played important roles in the regulation of transcription, cell proliferation, and involvement in cancer-related pathways. Lastly, 2 hub target genes of hsa-miR-221 and 16 hub target genes of hsa-miR-29c were obtained. Conclusion: We established a miRNA combination as a promising tool for HCC diagnosis, and the target genes we predicted provide possible points of penetration for researching these two miRNAs in HCC.", "claims": [{"id": "claim-method", "statement": "Spearman's rank correlation was employed to analyze the relationship between miRNAs and miRNA combinations with clinicopathological variables.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30310500", "locator": "sections[7] \"Analysis of the correlation of miRNAs and miRNA combination with clinicopathological variables\" paragraph 2", "quote": "Spearman's rank correlation was employed to analyze the relationship between miRNAs and miRNA combinations with clinicopathological variables."}], "state": "complete"}, {"id": "claim-data-access", "statement": "An original microarray dataset, GSE12717 was downloaded from NCBI-Gene Expression Omnibus database (NCBI-GEO) (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE12717), which is based on the platform of GPL7274 CapitalBio human/mouse/rat non-coding RNA microarray. Expression of 347 miRNAs in 5 human HCC tumor samples and 3 healthy liver samples were available, of which 313 human miRNAs were selected for further analysis.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30310500", "locator": "sections[4] \"Dataset collection and miRNA screening\" paragraph 2", "quote": "An original microarray dataset, GSE12717 was downloaded from NCBI-Gene Expression Omnibus database (NCBI-GEO) (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE12717), which is based on the platform of GPL7274 CapitalBio human/mouse/rat non-coding RNA microarray. Expression of 347 miRNAs in 5 human HCC tumor samples and 3 healthy liver samples were available, of which 313 human miRNAs were selected for further analysis."}], "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:30310500"], "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:GSE10694"], "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:GSE10694"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:30310500", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.7150/jca.26101", "sha256": "sha256:fedd6a83faca908d15711230d96b2ef463ba27735b5b39c42c77dc000b2ce943", "bytes": 50992, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.7150/jca.26101", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC6171011", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE10694", "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=GSE10694", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE10694", "version": null, "note": "An original microarray dataset, GSE12717 was downloaded from NCBI-Gene Expression Omnibus database (NCBI-GEO) (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE12717), which is based on the platform of GPL7274 CapitalBio human/mouse/rat non-coding RNA microarray. 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