Comprehensive transcriptome profiling of squamous cell carcinoma of horn in Bos indicus

Abstract

Squamous cell carcinoma (SCC) of horn is frequently observed in Bos indicus affecting 1% of cattle population and accounting 83.34% of total tumours found. The transcriptome profile of horn cancer (HC) tissue and the matched normal (HN) tissue were analysed by RNA-seq using Roche 454 sequencing. A total of 1 504 900 reads comprising of 612 MB data were used to identify differentially expressed genes using CLC Genomic Workbench. These include up-regulation of KRT6A, KRT6B, KRT6C, KRT14, SFN, KRT84, PI3, COL17A1, ANLN, SERPINB5 and down-regulation of BOLA, SCGB1A1, CXCL17, KRT19, BPIFB1, NR4A1 and TFF3 in HC, which are involved in regulation of gene transcription, cell proliferation, apoptosis, cell survival and metabolic pathways. The qPCR analysis of several targets suggested concordance of gene expression profile with RNA-seq analysis. The present findings would provide basis for further screening of genes and identification of markers for early diagnosis and therapeutic intervention of HC.

Identification and Validation of an Immune-Related RNA Signature to Predict Survival of Patients With Head and Neck Squamous Cell Carcinoma

“…For example, ADGRE1 encodes F4/80 antigen which was expressed in immune cells and used as a monocytemacrophage marker in mice (Waddell et al, 2018). KRT84 has been reported to be up-regulated in squamous cell carcinoma and involved in metabolic pathways (Koringa et al, 2016). Sancisi found that CDH6 was highly expressed in thyroid tumor patients and could be as a regulator of invasiveness in thyroid tumors (Sancisi et al, 2013).…”

Identification of Differentially Expressed Genes between Original Breast Cancer and Xenograft Using Machine Learning Algorithms

“…As a functional mediator, Krt6b connects Krt5 with Krt19 through protein–protein interaction [ 79 ]. Krt6b shows negatively correlated expression pattern with Krt19 during tumorigenesis [ 80 ]. Therefore, the strong interaction between KRT19 and KRT5 has been indicated by previous experiments.…”

Upregulation of Bpifb1 expression in the parotid glands of non‐obese diabetic mice

“…There might be a specific reason for the difficulty of detecting the full size of the protein by immunoblotting. Polymorphisms of Bpifb1 have been reported (Koringa et al , ; Saferali et al , ), and these might prevent detection of the full size protein.…”