Effects of Let-7c on the processing of hepatitis B virus associated liver diseases.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36057607", "kind": "science-record", "revision": 5, "content_hash": "sha256:09f7f957d1d4ca40e82f61d5af727506a670a9f4f5fe5ba4bb907994ffbfdd16", "created_at": "2026-11-01T18:15:14Z", "updated_at": "2026-11-01T22:49:57Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Effects of Let-7c on the processing of hepatitis B virus associated liver diseases.", "doi": "10.1186/s13027-022-00458-8", "pmid": "36057607", "authors": ["Like Zhang", "Xia Jiang", "Guiqi Wang", "Tatsuo Kanda", "Osamu Yokosuka", "Congjie Zhai", "Lei Zhang", "Peng Liu", "Zengren Zhao", "Zhongxin Li"], "journal": "Infectious agents and cancer", "year": 2022, "abstract": "BACKGROUND: The most common type of cancer of the digestive system is hepatocellular carcinoma. In China, many patients harbour HBV. The lin28B/Let-7c/MYC axis is associated with the occurrence of many cancers. Therefore, we aimed to illuminate the function of the lin28B/Let-7c/MYC axis in hepatocellular carcinoma. We aimed to evaluate the critical involvement of lin28B and Let-7c in the carcinogenesis of human hepatocellular carcinoma (B-HCC).\nMETHODS: Data from the GEO database were used to analyse differentially expressed genes and IRGs. A protein - protein interaction (PPI) network and Venn diagram were generated to analyse relationships. Real-time RT-PCR, Western blotting, and cell counting kit-8 assays were used to examine the association of lin28B, Let-7c, and MYC with cell proliferation.\nRESULTS: A total of 2552 functionally annotated differentially expressed RNAs were analysed in HBV patients from the GSE135860 database. In addition, 46 let-7c target genes were screened in HBV patients, and the interactions were analysed through PPI network analysis. The results confirmed that Let-7c and its target genes play a key role in HBV-related diseases. Next, we discovered a gradual decrease in Let-7c expression during the progression from HBV-associated chronic hepatitis (B-CH) and HBV-associated liver cirrhosis (B-LC) to B-HCC. We found evidence for a negative association between lin28B expression and Let-7c expression. The expression of MYC was obviously upregulated when Let-7c was inhibited.\nCONCLUSION: Our results highlight that Let-7c and lin28B participate in the carcinogenesis of HBV-associated diseases through the lin28B/Let-7c/MYC axis.", "claims": [{"id": "claim-method", "statement": "R software’s limma package was used to carry out the differential gene analysis. A false discovery rate (FDR) < 0.05 and log2 | fold change |> 1 were employed as cut-off values.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36057607", "locator": "sections[4] \"Identification of DEGs\" paragraph 2", "quote": "R software’s limma package was used to carry out the differential gene analysis. A false discovery rate (FDR) < 0.05 and log2 | fold change |> 1 were employed as cut-off values."}], "state": "complete"}, {"id": "claim-data-access", "statement": "All data generated during this study are included in this published article. The data that support the findings of this study are available from [https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE135860] but restrictions apply to the availability of these data, which were used under license for the current study, and so are not publicly available.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36057607", "locator": "sections[29] \"notes\" paragraph 1", "quote": "All data generated during this study are included in this published article. The data that support the findings of this study are available from [https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE135860] but restrictions apply to the availability of these data, which were used under license for the current study, and so are not publicly available."}], "state": "complete"}, {"id": "claim-target-result", "statement": "A total of 2552 functionally annotated differentially expressed RNAs were analysed in HBV patients from the GSE135860 database.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36057607", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "A total of 2552 functionally annotated differentially expressed RNAs were analysed in HBV patients from the GSE135860 database."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "A total of 2552 functionally annotated differentially expressed RNAs were analysed in HBV patients from the GSE135860 database.", "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:36057607"], "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:GSE135860"], "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:GSE135860"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:36057607", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1186/s13027-022-00458-8", "sha256": "sha256:09fff7153ecfebb6146519dc6f7efab6967bb22a2997b35439bfed4eb5aee7db", "bytes": 30135, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1186/s13027-022-00458-8", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC9440497", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE135860", "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=GSE135860", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE135860", "version": null, "note": "All data generated during this study are included in this published article. The data that support the findings of this study are available from [https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE135860] but restrictions apply to the availability of these data, which were used under license for the current study, and so are not publicly available.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "All data generated during this study are included in this published article. The data that support the findings of this study are available from [https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE135860] but restrictions apply to the availability of these data, which were used under license for the current study, and so are not publicly available.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM4036712", "GSM4036713", "GSM4036714", "GSM4036715", "GSM4036716", "GSM4036717", "GSM4036718", "GSM4036719", "GSM4036720", "GSM4036721", "GSM4036722", "GSM4036723"], "sample_count": 12, "group_sizes": null, "group_sizes_basis": null, "platform": "16791", "taxon": "Homo sapiens", "title": "Multi-omics analysis to study hepatitis B virus-host interaction", "resolution_checked_at": "2026-11-01T18:06:43Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}], "gaps": ["asset:data:geo:GSE135860 not downloaded", "asset:data:geo:GSE135860 licence not read"]}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": "differential_expression", "specific": "limma_voom", "label": "Differential expression analysis", "dsl_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["count_matrix_with_condition"], "evidence": {"score": 1.0, "band": "verbatim", "quote": "R software’s limma package was used to carry out the differential gene analysis. 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Real-time RT-PCR, Western blotting, and cell counting kit-8 assays were used to"], "order_basis": "paper_text_order:709", "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": ["ichuan Medical College, Nanchong, China). We cultured human hepatoma HepG2 cells in Dulbecco’s mod", ", calculated by Chi-square test Cell culture HepG2.2.15 cells containing the complete HBV genom", "Nanchong, China). We cultured human hepatoma HepG2 cells in Dulbecco’s modified Eagle’s medium,", "CH serum samples. c Let-7c expression in the HepG2 group and HepG2.2.15 group. The last group w"], "order_basis": "paper_text_order:4169", "id": "assay:2"}, {"role": "data_generation", "definition_id": "qpcr", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["tion of lin28B in the B-HCC samples. We used real-time PCR to detect expression. Overall, the results w", "fected by HBV. 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