Identification of ABCA5 among ATP-Binding Cassette Transporter Family as a New Biomarker for Colorectal Cancer

Abstract

Background. The increasing incidence and mortality of colorectal cancer (CRC) urgently requires updated biomarkers. The ABC transporter family is a widespread family of membrane-bound proteins involved in the transportation of substrates associated with ATP hydrolysis, including metabolites, amino acids, peptides and proteins, sterols and lipids, organic and inorganic ions, sugars, metals, and drugs. They play an important role in the maintenance of homeostasis in the body. Purpose. This study aims to search for new markers in the ABC transporter gene family for diagnostic and prognostic purposes through data mining of The Cancer Genome Atlas (TCGA) and GEO (Gene Expression Omnibus) datasets. Methods. A total of 980 samples, including 684 CRC patients and 296 controls from five different datasets, were included for analysis. The construction of the PPI (protein-protein interaction) network and pathway analysis were performed in STRING database and DAVID (database for annotation, visualization, and integrated discovery), respectively. In addition, GSEA (gene set enrichment analysis) and WGCNA (weighted gene co-expression network analysis) were also used for functional analysis. Results. After several rounds of screening and validation, only the ABCB5 gene was retained among the 49 genes. Conclusions. The results demonstrated that ABCA5 expression is reduced in CRC and patients with high ABCA5 expression have better OS, which can provide guidance for better management and treatment of CRC in the future.

Adult-Onset Transcriptomic Effects of Developmental Exposure to Benzene in Zebrafish (Danio rerio): Evaluating a Volatile Organic Compound of Concern

“…ABCA5, the human ortholog, has functionality for peptide production with potential effects for late-onset Alzheimer's disease in humans and mice [58]. Recently, ABCA5 has also been called upon as a potential new biomarker of colorectal cancer, a health outcome that has also been associated with benzene exposure [59,60]. While the role of gtf3c3 is largely undetermined, several studies support its candidacy for neurodevelopmental disorders, namely, epileptic encephalopathy and intellectual disability [61,62].…”

Identification of differentially expressed genes and enriched pathways in inflammatory bowel disease using bioinformatics and next generation sequencing data analysis

“…Signaling pathways include GPCR ligand binding [58], signaling by GPCR [59], signal transduction [60], GPCR downstream signaling [61], immune system [62], hemostasis [63], neutrophil degranulation [64], infectious disease [65] and neuronal system [66] were responsible for progression of IBD. GPR15 [67], ZNF365 [68], IL2 [69], IGFBP3 [70], FASLG (Fas ligand) [71], BTNL2 [72], S100B [73], FAP (fibroblast ABCA5 [220], DAB1 [221], SPRY2 [222], ANXA1 [223], MTSS1 [224], CCR6 [225], PTPRB (protein tyrosine phosphatase receptor type B) [226], SLC4A4 [227], PTCH1 [228], IL9R [229], PCDH9 [230], GAS1 [231], SELE (selectin E) [232], GZMA (granzyme A) [233], GZMB (granzyme B) [234], EMP1 [235], ABCB4 [236], LGALS4 [237], CD69 [238], BTLA (B and T lymphocyte associated) [239], ARHGEF28 [240], RGMB (repulsive guidance molecule BMP co-receptor b) [241], GPR63 [242], CXCL5 [243], HNF4A [244], BATF2 [245], SYT7 [246], GCKR (glucokinase regulator) [247], IGF2 [248], SDC1 [249], IGHG1 [250], MMP9 [251], PRKCG (protein kinase C gamma) [252], HP (haptoglobin) [253], GDF15 [254], GPR84 [255], S100A12 [256], ANXA3 [257], CBS (cystathionine beta-synthase)…”