miR-34c-5p mediates the cellular malignant behaviors of oral squamous cell carcinoma through targeted binding of TRIM29.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:34790743", "kind": "science-record", "revision": 3, "content_hash": "sha256:5c4fa16ebfd048727d273ba63f0867bb64e8f4408267968baee358b51fb740ab", "created_at": "2026-11-01T17:36:29Z", "updated_at": "2026-11-01T21:26:38Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "miR-34c-5p mediates the cellular malignant behaviors of oral squamous cell carcinoma through targeted binding of TRIM29.", "doi": "10.21037/atm-21-4679", "pmid": "34790743", "authors": ["Yuchen Shen", "Changsheng Sun", "Bowen Zhao", "Haobing Guo", "Jianhao Li", "Yanyun Xia", "Miaomiao Liu", "Songlin Piao", "Wuliji Saiyin"], "journal": "Annals of translational medicine", "year": 2021, "abstract": "BACKGROUND: This investigation examined the effects of the microRNA miR-34c-5p on the proliferation, migration, and invasion of oral squamous cell carcinoma (OSCC) and the mechanisms involved.\nMETHODS: The Gene Expression Omnibus (GEO) database was used to filter the chips, and the GEO2R software (https://www.ncbi.nlm.nih.gov/geo/geo2r/) was used to analyze the microarray data (GSE28100 and GSE45238). Gene set enrichment analysis (GSEA) was used to study the relationship between the expression of miR-34c-5p and the distant metastasis and pathological grade of OSCC. The correlation between TRIM29 (tripartite motif containing 29) expression and the malignant clinical phenotype of OSCC was also examined. The mRNA and protein expression levels of miR-34c-5p and TRIM29 were measured by real time quantitative reverse transcription polymerase chain reaction (RT-qPCR) and Western blot analysis. The proliferation, migration, invasion and apoptosis of the human oral squamous carcinoma cell lines CAL-27 and Tca8113 was assessed by performing cell-counting kit-8 (CCK-8) assays, colony formation assays, transwell tests, wound scratch tests and flow cytometry. Luciferase reporter assays were used to predict the relationship between miR-34c-5p and TRIM29. A xenograft nude model was established and used to evaluate the effect of miR-34c-5p on tumor growth in female BALB/c mice.\nRESULTS: The expression of miR-34c-5p was significantly correlated with the proliferation, migration, and metastasis of OSCC. Overexpression of miR-34c-5p promoted the proliferation, migration, and invasion of CAL-27 and Tca8113 cells, and suppressed their apoptosis. Inversely, low expression of miR-34c-5p suppressed the proliferation, migration, and invasion of CAL-27 and Tca8113 cells, and promoted their apoptosis. Overexpression of miR-34c-5p promoted tumor growth in the xenograft nude mice model. The expression of TRIM29 was related to malignant clinical phenotype of OSCC. Overexpression of TRIM29 inhibited the proliferation, migration and invasion of CAL-27 and Tca8113 cell, and induced their apoptosis. TRIM29 knockout had just the opposite effect. Importantly, miR-34c-5p binds to TRIM29 and inhibited TRIM29 expression.\nCONCLUSIONS: MiR-34c-5p regulates the proliferation, migration, invasion, and apoptosis of OSCC through targeted binding of TRIM29. This may represent a novel therapeutic target for the treatment of patients with OSCC.", "claims": [{"id": "claim-method", "statement": "Unpaired t-tests with Welch’s correction were performed using GraphPad Prism 7.0 software.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34790743", "locator": "sections[17] \"Statistical analysis\" paragraph 2", "quote": "Unpaired t-tests with Welch’s correction were performed using GraphPad Prism 7.0 software."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data Sharing Statement: Available at https://dx.doi.org/10.21037/atm-21-4679", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34790743", "locator": "sections[30] \"(untitled)\" paragraph 1", "quote": "Data Sharing Statement: Available at https://dx.doi.org/10.21037/atm-21-4679"}], "state": "complete"}, {"id": "claim-target-result", "statement": "miR-34c-5p regulates OSCC cell proliferation, migration, invasion, and apoptosis through targeted binding of TRIM29.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:34790743", "locator": "sections[0] \"Abstract\" paragraph 4", "quote": "MiR-34c-5p regulates the proliferation, migration, invasion, and apoptosis of OSCC through targeted binding of TRIM29."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "miR-34c-5p regulates OSCC cell proliferation, migration, invasion, and apoptosis through targeted binding of TRIM29.", "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:34790743"], "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:GSE28100"], "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:GSE28100"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:34790743", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.21037/atm-21-4679", "sha256": "sha256:dd66fe41bda913674636f12f2a80c9a594333dc13f7228ee4cb3a20f53e0725c", "bytes": 51070, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.21037/atm-21-4679", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC8576676", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE28100", "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=GSE28100", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE28100", "version": null, "note": "Data Sharing Statement: Available at https://dx.doi.org/10.21037/atm-21-4679", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "Data Sharing Statement: Available at https://dx.doi.org/10.21037/atm-21-4679", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM696148", "GSM696149", "GSM696150", "GSM696151", "GSM696152", "GSM696153", "GSM696154", "GSM696155", "GSM696156", "GSM696157", "GSM696158", "GSM696159", "GSM696160", "GSM696161", "GSM696162", "GSM696163", "GSM696164", "GSM696165", "GSM696166", "GSM696167"], "sample_count": 20, "group_sizes": null, "group_sizes_basis": null, "platform": "10850", "taxon": "Homo sapiens", "title": "Differential expression of microRNAs between oral squamous cell carcinoma and healthy control tongues", "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:GSE45238", "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=GSE45238", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE45238", "version": null, "note": "Data Sharing Statement: Available at https://dx.doi.org/10.21037/atm-21-4679", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "Data Sharing Statement: Available at https://dx.doi.org/10.21037/atm-21-4679", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1099620", "GSM1099621", "GSM1099622", "GSM1099623", "GSM1099624", "GSM1099625", "GSM1099626", "GSM1099627", "GSM1099628", "GSM1099629", "GSM1099630", "GSM1099631", "GSM1099632", "GSM1099633", "GSM1099634", "GSM1099635", "GSM1099636", "GSM1099637", "GSM1099638", "GSM1099639", "GSM1099640", "GSM1099641", "GSM1099642", "GSM1099643", "GSM1099644", "GSM1099645", "GSM1099646", "GSM1099647", "GSM1099648", "GSM1099649", "GSM1099650", "GSM1099651", "GSM1099652", "GSM1099653", "GSM1099654", "GSM1099655", "GSM1099656", "GSM1099657", "GSM1099658", "GSM1099659", "GSM1099660", "GSM1099661", "GSM1099662", "GSM1099663", "GSM1099664", "GSM1099665", "GSM1099666", "GSM1099667", "GSM1099668", "GSM1099669", "GSM1099670", "GSM1099671", "GSM1099672", "GSM1099673", "GSM1099674", "GSM1099675", "GSM1099676", "GSM1099677", "GSM1099678", "GSM1099679", "GSM1099680", "GSM1099681", "GSM1099682", "GSM1099683", "GSM1099684", "GSM1099685", "GSM1099686", "GSM1099687", "GSM1099688", "GSM1099689", "GSM1099690", "GSM1099691", "GSM1099692", "GSM1099693", "GSM1099694", "GSM1099695", "GSM1099696", "GSM1099697", "GSM1099698", "GSM1099699"], "sample_count": 80, "group_sizes": null, "group_sizes_basis": null, "platform": "8179", "taxon": "Homo sapiens", "title": "Identification of oral carcinoma miRNA involved in Wnt/b-catenin signaling", "resolution_checked_at": "2026-11-01T17:30:42Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}], "gaps": ["asset:data:geo:GSE28100 not downloaded", "asset:data:geo:GSE28100 licence not read", "asset:data:geo:GSE45238 not downloaded", "asset:data:geo:GSE45238 licence not read"]}, "analysis": {"state": "complete", "methods": [{"id": "method-1", "family": "group_comparison", "specific": "welch_t_test", "label": "Group comparison", "dsl_operations": ["welch_t"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["two_or_more_groups_continuous"], "evidence": {"score": 1.0, "band": "verbatim", "quote": "Unpaired t-tests with Welch’s correction were performed using GraphPad Prism 7.0 software."}}, {"id": "method-2", "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": 0.8, "band": "high", "quote": "Kaplan-Meier"}}], "targets": [], "gaps": []}, "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": ["welch_t"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: welch_t_test."}, "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": ["GSE28100", "GSE45238"], "resolved_accessions": ["GSE28100", "GSE45238"], "statements": ["Data Sharing Statement: Available at https://dx.doi.org/10.21037/atm-21-4679"], "basis": "The paper names GSE28100, GSE45238 in Gene Expression Omnibus (GEO) database and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["welch_t"], "assets": ["source:pmid:34790743", "data:geo:GSE28100"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE28100"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-11-01T17:07:52Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 5, "usage": {"prompt_tokens": 15630, "completion_tokens": 1347, "cached_tokens": 256}}, "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:34790743", "type": "paper", "label": "pmid:34790743"}, {"id": "source:pmid:34790743", "type": "manuscript", "label": "PMID 34790743 full text"}, {"id": "data:geo:GSE28100", "type": "dataset", "label": "GEO GSE28100"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:34790743", "type": "paper", "label": "pmid:34790743"}, {"id": "source:pmid:34790743", "type": "manuscript", "label": "PMID 34790743 full text"}, {"id": "data:geo:GSE28100", "type": "dataset", "label": "GEO GSE28100"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-34790743", "type": "extraction", "used": ["source:pmid:34790743"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE28100", "type": "accession_resolution", "used": ["data:geo:GSE28100"], "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:34790743", "parent_hash": "sha256:f908234e63645a7fed48e27e3ba8ee11c0fb5d5e7caaf6791d1b66f9ddb3c762", "fork_of": null, "generation": 2}, "gaps": ["asset:data:geo:GSE28100 licence not read", "asset:data:geo:GSE28100 not downloaded", "asset:data:geo:GSE45238 licence not read", "asset:data:geo:GSE45238 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"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": [".nih.gov/geo/geo2r/) was used to analyze the microarray data (GSE28100 and GSE45238). Gene set enric"], "order_basis": "paper_text_order:440", "id": "assay:1"}, {"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": ["rse transcription polymerase chain reaction (RT-qPCR) and Western blot analysis. The proliferatio", "transcription polymerase chain reaction (RT-qPCR) and Western blot analysis. The proliferatio"], "order_basis": "paper_text_order:940", "id": "assay:2"}, {"role": "data_generation", "definition_id": "western_blot", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["tion polymerase chain reaction (RT-qPCR) and Western blot analysis. The proliferation, migration, inva"], "order_basis": "paper_text_order:953", "id": "assay:3"}, {"role": "data_generation", "definition_id": "apoptosis_assay", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": [". The proliferation, migration, invasion and apoptosis of the human oral squamous carcinoma cell li", "L-27 and Tca8113 cells, and suppressed their apoptosis. Inversely, low expression of miR-34c-5p sup", "CAL-27 and Tca8113 cells, and promoted their apoptosis. Overexpression of miR-34c-5p promoted tumor", "f CAL-27 and Tca8113 cell, and induced their apoptosis. TRIM29 knockout had just the opposite effec"], "order_basis": "paper_text_order:1019", "id": "assay:4"}, {"role": "data_generation", "definition_id": "flow_cytometry", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["ys, transwell tests, wound scratch tests and flow cytometry. Luciferase reporter assays were used to pre"], "order_basis": "paper_text_order:1225", "id": "assay:5"}, {"role": "data_generation", "definition_id": "cell_culture", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.77, "evidence": ["American Type Culture Collection. Cells were cultured in Roswell Park Memorial Institute (RPMI)-1640"], "order_basis": "paper_text_order:2664", "id": "assay:6"}, {"role": "analysis", "definition_id": "group_comparison", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["welch_t"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["Unpaired t-tests with Welch’s correction were performed using GraphPad Prism 7.0 software."], "order_basis": "consumes_earlier_output", "id": "assay:7"}]}