Therapeutic effect of microRNA-21 on differentially expressed hub genes in gastric cancer based on systems biology.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:38081950", "kind": "science-record", "revision": 2, "content_hash": "sha256:9e399c5738d756a1b8ad2765e8ff83f814ff1e36c0b1b0bba4162283f2661fff", "created_at": "2026-11-01T19:03:01Z", "updated_at": "2026-11-01T21:32:08Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Therapeutic effect of microRNA-21 on differentially expressed hub genes in gastric cancer based on systems biology.", "doi": "10.1038/s41598-023-49225-8", "pmid": "38081950", "authors": ["Hesam Ghafouri Kalajahi", "AmirHossein Yari", "Mohammad Amini", "Tunc Catal", "Mahya Ahmadpour Youshanlui", "Omid Pourbagherian", "Cigdem Sezer Zhmurov", "Ahad Mokhtarzadeh"], "journal": "Scientific reports", "year": 2023, "abstract": "Gastric cancer (GC) is a leading cause of mortality for many people. Cancer's initiating factors are poorly understood. miR-21 has a crucial function in several malignancies, particularly GC. Furthermore, it has been shown that miR-21 is critical for the emergence and advancement of GC. This work intends to identify new genes which expression is associated with the activity of mir-21 in GC and to investigate the effect of downregulation of mir-21 on these genes and gastric tumorigenesis. We utilized the gene expression profiles of GCs from an Array database (GSE13911) from the Gene Expression Omnibus (GEO) dataset to find differentially expressed genes (DEGs) between control and gastric cancer groups. Using weighted gene correlation network analysis (WGCNA) in R, the Gene co-expression network was reconstructed. The microRNA-mRNA network was then reconstructed using the miRWalk database, and by investigating the microRNA-mRNA network, the genes that have an association with mir-21 were found. To implement the functional investigation, MKN and AGS cell lines were transfected with anti-miR-21 next. Subsequently, MTT proliferation was utilized to assess the cell's vitality. qRT-PCR was then used to evaluate the anticipated levels of gene expression in both GC cell lines. This study discovered and predicted CCL28, NR3C2, and SNYPO2 as the targets of miR-21 (GC), which are downregulated through gastric tumorigenesis, showing great potential as therapeutic and diagnostic targets. The suppression of miR-21 in gastric GC cells led to the inhibition of cell proliferation and decreased expression of CCL28, NR3C2, and SNYPO2 genes. This study established that miR-21, via downregulating these genes, contributes significantly to the development of GC. In addition, systems biology techniques identified CCL28, NR3C2, and SNYPO2 genes as possible GC surveillance and therapy components.", "claims": [{"id": "claim-method", "statement": "To investigate the effect of miR-21 suppression on GC cell proliferation, MTT assay was employed (Fig. 8).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38081950", "locator": "sections[9] \"The effect of miR-21 suppression on GC cell proliferation\" paragraph 2", "quote": "To investigate the effect of miR-21 suppression on GC cell proliferation, MTT assay was employed (Fig. 8)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "All data generated or analyzed in the current research are provided within the manuscript.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38081950", "locator": "sections[29] \"notes\" paragraph 1", "quote": "All data generated or analyzed in the current research are provided within the manuscript."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "", "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:38081950"], "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. 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