Current Bioinformatics - Volume 18, Issue 5, 2023

Introduction: Severe Acute Respiratory Syndrome Coronavirus – 2, SARS-CoV-2, is a wellknown virus for its fatal infectivity and widespread impact on the health of the worldwide population. Genome sequencing is critical in understanding the virus’s behavior, origin, and genetic variants. This article conducts an extensive literature review on the SARS-CoV-2 genome, including its Genome Structure, Genome Analysis, Evolution, Read More

Background: Gene expression signatures provide a promising diagnostic tool for many diseases, including cancer. However, there remain multiple issues related to the quality of gene expression data, which may impede the analysis and interpretation of differential gene expression in cancer. Objective: We aimed to address existing issues related to the quality of gene expression data and to devise improved quality control (QC Read More

Background: Investigators using metagenomic sequencing to study microbiomes often trim and decontaminate reads without knowing their effect on downstream analyses. Objective: This study was designed to evaluate the impacts JGI trimming and decontamination procedures have on assembly and binning metrics, placement of MAGs into species trees, and functional profiles of MAGs extracted from complex rhizosphe Read More

Background: Careful consideration is required for detecting significant features (proteins or peptides) in LC-MS proteomics studies using multivariable regression analyses. In proteomics data, missing values can arise due to random errors, bad samples, features below the detection limit in specific samples, etc. Further, expression data are always prone to heterogeneity due to technical/biological reasons. Missing val Read More

Background: Bovine viral diarrhea virus (BVDV) can cause diarrhea, abortion, and immunosuppression in cattle, imposing huge economic losses for the global cattle industry. The pathogenic and immune mechanisms of BVDV remain elusive. The development of a BVDV-gene knowledge base can provide clues to reveal the interaction of BVDV with host cells. However, the traditional method of manually establishing a knowledge ba Read More