Silico functional genomics

5’ untranslated regions (5’UTRs) are essential modulators of protein translation. Predicting the impact of 5’UTR variants is challenging and rarely performed in routine diagnostics. Here, we present a combined approach of a comprehensive prioritization strategy and functional assays to evaluate 5’UTR variation in two large cohorts of patients with inherited retinal diseases (IRDs).

21p vicwell 29-02-2024 3 1   Download

Drought is the most disastrous abiotic stress that severely affects agricultural productivity worldwide. Understanding the biological basis of drought-regulated traits, requires identification and an in-depth characterization of genetic determinants using model organisms and high-throughput technologies.

24p vinarcissa 21-03-2023 3 1   Download

Cyclic nucleotide-gated channels (CNGCs) are ligand-gated calcium signaling channels, play vital biological functions. Nonetheless, the CNGC gene families have not been well studied in Brassicaceae which includes commercially important and evolutionary model crops. Here, using in silico approaches, we recognized 414 CNGC genes in sixteen sequenced genomes of Brassicaceae species, which represent 10 genera of 8 tribes, ranging between 10‒51 genes.

53p lyhuyenthu 31-01-2023 8 2   Download

Single-nucleotide polymorphisms (SNPs) in microRNAs (miRNAs) and their target binding sites affect miRNA function and are involved in biological processes and diseases, including bovine mastitis, a frequent inflammatory disease.

10p vihagrid 30-01-2023 3 3   Download

In silico functional genomics have become a driving force in the way we interpret and use gene expression data, enabling researchers to understand which biological pathways are likely to be affected by the treatments or conditions being studied.

12p vijeeni2711 24-07-2021 4 0   Download

Mitogen Activated Protein Kinase (MAPK) cascade is a fundamental pathway in organisms for signal transduction. Though it is well characterized in various plants, there is no systematic study of this cascade in tea.

17p vijeeni2711 30-06-2021 10 1   Download

Sweetpotato (Ipomoea batatas (L.) Lam.) serves as an important food source for human beings. βgalactosidase (bgal) is a glycosyl hydrolase involved in cell wall modification, which plays essential roles in plant development and environmental stress adaptation. However, the function of bgal genes in sweetpotato remains unclear.

13p vilichoo2711 23-06-2021 12 1   Download

With the development of Next Generation Sequencing technologies, the number of predicted proteins from entire (meta-) genomes has risen exponentially. While for some of these sequences protein functions can be inferred from homology, an experimental characterization is still a requirement for the determination of protein function.

11p viflorida2711 30-10-2020 14 2   Download

Bioactive peptides, including biological sources-derived peptides with different biological activities, are protein fragments that influence the functions or conditions of organisms, in particular humans and animals. Conventional methods of identifying bioactive peptides are time-consuming and costly.

10p viconnecticut2711 28-10-2020 18 1   Download

High-throughput sequencing can establish the functional capacity of a microbial community by cataloging the protein-coding sequences (CDS) present in the metagenome of the community. The relative performance of diferent computational methods for identifying CDS from whole-genome shotgun sequencing is not fully established.

13p vicolorado2711 22-10-2020 7 0   Download

Nitrogen is an essential macromolecule necessary for suitable growth and development of plants by playing a vital role in biochemical and physiological functions throughout the life cycle. Early node 93 (ENOD93-1) gene is well known for significantly responding to both N induction and N reduction in plants, but little is known about the structure and function of the ENOD93-1 protein in cereal crops. In this study, a putative ortholog of rice OsENOD93-1 gene was identified in the wheat genome.

11p kequaidan4 05-05-2020 23 1   Download

Understanding the sequence determinants of protein struc-ture, stabilityand folding is critical for understanding how natural proteins have evolved and how proteins can be engineeredtoperformnovel functions.Thecomplexityof the protein folding problem requires the abilityto search large volumes of sequence space for proteins with specific struc-tural or functional characteristics.

8p dell39 03-04-2013 39 3   Download

Mutagenesis is a powerful method directed towards mutating genes or engineering genome for functional analysis, producing mouse models of human disease, and understanding molecular mechanism of biodiversity at different levels of biological organizations. Several insights have been revealed through studies using experimental models, or in silico, on natural mutations in general and site-specific mutagenesis in particular. However, unified text on recent trends in mutagenesis is poorly available within a single cover.

255p maket1311 16-10-2012 40 2   Download

During the past two decades, reductionist biological science has generated new empirical data on the molecular foundations of biological structure and function at an accelerating rate. The list of organisms whose complete genomes have been sequenced is growing by the week. Annotations of these sequences are becoming more comprehensive, and databases of protein structure are growing at impressive, indeed formerly unimaginable rates.

261p beobobeo 01-08-2012 75 11   Download