SARS-CoV-2 causes ongoing pandemic coronavirus disease of 2019 (COVID-19), infects the cells lower respiratory tract that leads to a cytokine storm in significant number patients resulting severe pneumonia, shortness breathing, and organ failure. Extensive studies suggested role Vitamin D suppressing COVID-19 reducing viral infection; however, precise molecular mechanism is not clearly known. In this work, bioinformatics systems biology approaches were used understand induced pathways...

The current study provides information on Bacillus spp. contamination along with present status in commercially available poultry and animal feeds as well animal-derived products Bangladesh. research has been conducted to determine if feed its components are a source of food chain. Out 180 different feeds, milk, egg, human stool samples, 218 were isolated identified by cultural morphology, microscopic, biochemical, molecular characteristics where B. cereus, subtilis, amyloliquefaciens,...

Background: Loss of control on cell division is an important factor for the development non-small lung cancer (NSCLC), however, its molecular mechanism and gene regulatory network are not clearly understood. This study utilized systems bioinformatics approach to reveal "driver-network" involve in tumorigenic processes NSCLC. Methods: A meta-analysis expression data NSCLC was integrated with protein-protein interaction (PPI) construct network. MCODE iRegulone were used identify local clusters...

We report an advanced web server, the plant-specific small noncoding RNA interference tool pssRNAit, which can be used to design a pool of interfering RNAs (siRNAs) for highly effective, specific, and nontoxic gene silencing in plants. In developing this tool, we integrated transcript dataset plants, several rules governing silencing, series computational models biological mechanism (RNAi) pathway. The designed siRNAs construct long double-strand expressed through virus-induced (VIGS) or...

Background The newly identified betacoronavirus SARS-CoV-2 is the causative pathogen of coronavirus disease 2019 (COVID-19) that killed more than 3.5 million people till now. cytokine storm induced in severe COVID-19 patients causes hyper-inflammation, primary reason for respiratory and multi-organ failure fatality. This work uses a rational computational strategy to identify existing drug molecules target host pathways reduce storm. Results We used “ response signature network ” consist 36...

In past, numerous methods have been developed for predicting efficacy of short interfering RNA (siRNA). However these fully complementary siRNA against a gene. Best author's knowledge no method has mismatch this study, systematic attempt made to identify highly effective as well siRNAs silencing gene.Support vector machine (SVM) based models using composition, binary and hybrid pattern siRNAs. We achieved maximum correlation 0.67 between predicted actual model. All were trained tested on...

Dicer, an RNase III enzyme, plays a vital role in the processing of pre-miRNAs for generating miRNAs. The structural and sequence features on pre-miRNA which can facilitate position efficiency cleavage are not well known. A precise by Dicer is crucial because inaccurate produce miRNA with different seed regions alter repertoire target genes. In this study, novel method has been developed to predict sites using Support Vector Machine. We used dataset experimentally validated human hairpins...

The Nipah virus (NiV) belongs to the Henipavirus genus is a serious public health concern causing numerous outbreaks with higher fatality rate. Unfortunately, there no effective medication available for NiV. To investigate possible inhibitors of NiV infection, we used in silico techniques discover treatment candidates this work. As are not any approved treatments NiV-enveloped attachment glycoprotein was set as target our study, which responsible binding and entering host cells. Our drug...

The polyadenylation signal plays a key role in determining the site for addition of polyadenylated tail to nascent mRNA and its mutation(s) are reported many diseases. Thus, identifying poly(A) sites is important understanding regulation stability mRNA. In this study, Support Vector Machine (SVM) models have been developed predicting signals DNA sequence using 100 nucleotides, each upstream downstream signal. Here, we introduced novel split nucleotide frequency technique, thus achieved...

Human immunodeficiency virus (HIV) is responsible for millions of deaths every year. The current treatment involves the use multiple antiretroviral agents that may harm patients due to their toxic nature. RNA interference (RNAi) a potent candidate future HIV, uses short interfering (siRNA/shRNA) silencing HIV genes. In this study, attempts have been made create database HIVsirDB siRNAs genes.HIVsirDB manually curated inhibiting provides comprehensive information about each siRNA or shRNA....

Subsistence farming still predominates in many places across the globe including India. Crops and livestock are often integral key components of subsistence practiced generally by smallholder farmers. A precise documentation traditional practices involving native diversity with overall objectives their conservation showcasing role addressing livelihood security farmers was done present study. This case study undertaken three underprivileged districts India representing specific...

Along with the canonical miRNA, distinct miRNA-like sequences called sibling miRNAs (sib-miRs) are generated from same pre-miRNA. Among them, isomeric featuring slight variations at terminals, relative to constitute a pool of (isomiRs). Despite high prevalence isomiRs in eukaryotes, their features and relevance remain elusive. In this study, we performed comprehensive analysis mature precursor miRNA (pre-miRNA) Arabidopsis understand regulatory targets. The influence isomiR terminal...

Abstract The BLM helicase protein plays a vital role in DNA replication and the maintenance of genomic integrity. Variation gene resulted defects repair mechanism was reported to be associated with Bloom syndrome (BS) cancer. Despite extensive investigation proteins humans, no attempt has previously been made comprehensively analyse single nucleotide polymorphism (SNPs) gene. In this study, comprehensive analysis SNPs on performed identify, characterize validate pathogenic using...

Abstract Background MicroRNAs (miRNAs) are produced by the sequential processing of a long hairpin RNA transcript Drosha and Dicer, an RNase III enzymes, form transitory small duplexes. One strand duplex, which incorporates into RNA-induced silencing complex (RISC) silences gene expression is called guide strand, or miRNA; while other duplex degraded passenger miRNA*. Predicting miRNA important for better understanding interference pathways. Results This paper describes support vector...

The epidermal growth factor receptor (EGFR) plays a crucial role in regulating cellular and survival, its dysregulation is implicated various cancers, making it prime target for cancer therapy. Natural compounds known as catechins have garnered attention promising anticancer agents. These exert their effects through diverse mechanisms, primarily by inhibiting tyrosine kinases (RTKs), protein family that includes the notable member EGFR. Catechins, characterized two chiral centers...

Abstract Hydrogel‐based stress‐strain sensors have attracted immense attention recently for developing wearable electronic devices and health‐monitoring systems owing to their intrinsic soft characteristics flexible nature. Developing hydrogel that has high conductivity, better mechanical performance, elasticity is necessary analysis or getting accurate measurement data. Hence, this study focuses on the development of novel conductive hydrogels with enhanced mechanical, swelling, sensing...

Brain cancer represents a highly aggressive malignant tumor with challenging prognosis and limited treatment options. Employing advanced analytical methods, including Kinase Enrichment Analysis Disease-Gene Network integration, the research identifies EGFR as crucial therapeutic target for brain cancer. EGFR, key player in cellular functions elevated various cancers, particularly cancer, is targeted using small molecule inhibitors like erlotinib gefitinib. Despite promising results,...

Lung adenocarcinoma (LUAD) is one of the leading global health challenges wherein novel therapeutic targets are much needed. In this systems bioinformatics study, we report that disruption long noncoding RNA (lncRNA) SFTA1P-centered network, respiratory gaseous exchange and surfactant-associated Biological Network (rgsBNet), consistent with impairing surfactant homeostasis function, thus warrants attention for future drug discovery development. We analyzed data from The Cancer Genome Atlas...

The emergence of a new coronavirus (CoV), severe acute respiratory syndrome 2 (SARS-CoV-2), responsible for disease in humans termed 2019 (COVID-19), became global threat health and the economy. SARS-CoV-2 genome is about 29,800-nucleotide-long plus-strand RNA that can form functionally important secondary higher-order structures called cis -acting elements. These elements interact with viral proteins, host or other RNAs be involved regulating translation replication processes encapsidation...

White Spot Syndrome Virus (WSSV) has emerged as one of the most prevalent and lethal viruses globally infects both shrimps crabs in aquatic environment. This study aimed to investigate occurrence WSSV different ghers Bangladesh virulence circulating phylotypes. We collected 360 shrimp (Penaeus monodon) 120 crab (Scylla sp.) samples from south-east (Cox's Bazar) south-west (Satkhira) coastal regions Bangladesh. The VP28 gene-specific PCR assays sequencing revealed statistically significant (p...

Medicinal plants are the major sources of traditional treatment disease in Indian subcontinent due to abundant presence and vast side effects synthetic drug. The present study was subjected observe vitro thrombolytic, antibacterial, vivo antidiarrheal activities methanol soluble fraction fruits Annona muricata. In thrombolytic activity assay, various concentrations (2 ─ 10 mg/ml) used dose dependently less potent found. maximum clot lysis 18.33% (p* < 0.05) achieved at mg/ml methanolic fruit...

Epithelial cancer cells that lose attachment from the extracellular matrix (ECM) to seed in a distant organ often undergo anoikis's specialized form of apoptosis. Recently, KDM3A (H3K9 demethylase) has been identified as critical effector anoikis cells. However, whether other histone demethylases are involved promoting or resisting remains elusive. We screened major and found both H3K27 demethylases, namely, KDM6A/B were highly expressed during ECM detachment. Inhibition activity by using...