Differential analysis revealing APOC1 to be a diagnostic and prognostic marker for liver metastases of colorectal cancer.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:34141744", "kind": "science-record", "revision": 8, "content_hash": "sha256:9f0bc941d9c59d7ec58912f5a47d624667abf82ff67dd214f2117f5fc17bf089", "created_at": "2026-11-01T15:41:39Z", "updated_at": "2026-11-01T22:46:53Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Differential analysis revealing APOC1 to be a diagnostic and prognostic marker for liver metastases of colorectal cancer.", "doi": "10.12998/wjcc.v9.i16.3880", "pmid": "34141744", "authors": ["Hai-Yu Shen", "Fang-Ze Wei", "Qian Liu"], "journal": "World journal of clinical cases", "year": 2021, "abstract": "BACKGROUND: Colorectal cancer (CRC) is one of the most malignant gastrointestinal cancers worldwide. The liver is the most important metastatic target organ, and liver metastasis is the leading cause of death in patients with CRC. Owing to the lack of sensitive biomarkers and unclear molecular mechanism, the occurrence of liver metastases cannot be predicted and the clinical outcomes are bad for liver metastases. Therefore, it is very important to identify the diagnostic or prognostic markers for liver metastases of CRC.\nAIM: To investigate the highly differentially expressed genes (HDEGs) and prognostic marker for liver metastases of CRC.\nMETHODS: Data from three NCBI Gene Expression Omnibus (GEO) datasets were used to show HDEGs between liver metastases of CRC and tumour or normal samples. These significantly HDEGs of the three GEO datasets take the interactions. And these genes were screened through an online tool to explore the prognostic value. Then, TIMER and R package were utilized to investigate the immunity functions of the HDEGs and gene set enrichment analysis was used to explore their potential functions.\nRESULTS: Based on the selection criteria, three CRC datasets for exploration (GSE14297, GSE41258, and GSE49355) were chosen. Venn diagrams were used to show HDEGs common to the six groups and 47 HDEGs were obtained. The HDEGs were shown by using STRING and Cytoscape software. Based on the TCGA database, APOC1 showed significantly different expression between N2 and N0, and N2 and N1. And there was also a significant difference in expression between T2 and T4, and between T2 and T3. In 20 paired CRC and normal tissues, quantitative real-time polymerase chain reaction illustrated that the APOC1 mRNA was strongly upregulated in CRC tissues (P = 0.014). PrognoScan and GEPIA2 revealed the prognostic value of APOC1 for overall survival and disease-free survival in CRC (P < 0.05). TIMER showed that APOC1 has a close relationship with immune infiltration (P < 0.05).\nCONCLUSION: APOC1 is a biomarker that is associated with both the diagnosis and prognosis of liver metastases of CRC.", "claims": [{"id": "claim-method", "statement": "Then, they were screened using R package ‘limma’ for normalisation and HDEG identification.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34141744", "locator": "sections[5] \"Identification of HDEGs in CRC samples\" paragraph 2", "quote": "Then, they were screened using R package ‘limma’ for normalisation and HDEG identification."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Technical appendix, statistical code, and dataset available from the corresponding author at fcwpumch@163.com.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34141744", "locator": "sections[30] \"Data sharing statement\" paragraph 2", "quote": "Technical appendix, statistical code, and dataset available from the corresponding author at fcwpumch@163.com."}], "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:34141744"], "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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