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10 articles for “Functional Annotation”
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Bioinformatics Tools and Databases for Functional Annotation of Genomes
Abstract: Functional annotation of genomes plays a crucial role in understanding the functions and characteristics of genes. Bioinformatics tools and databases have greatly contributed to this field by providing valuable resources for gene function prediction, pathway analysis, and comparative genomics. This abstract provides an overview of these tools and databases and highlights their significance in functional annotation. Ensembl is a popular bioinformatics tool that offers comprehensive genome annotation and browsing capabilities. …
Published in Research and Reviews : Journal of Computational Biology · Vol. 12, Issue 1, 2023 · pp. 31–35 Read article
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Gene Annotation of Cancer Vaccine for Homo sapiens
Abstract: Objectives: Gene annotation helps us to deduce the structural and functional aspects of a gene that encodes for a functional protein in our body. Thus, by determining the coding sequence and gene location we can derive meaningful insights as to what these genes do in our body. In this study, an unknown gene, cancer vaccine for Homo sapiens has been studied and annotated. Methods: This study was based on a …
Published in International Journal of Molecular Biotechnological Research · Vol. 2, Issue 1, 2024 · pp. 1–14 Read article
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Identification of Hub Genes and Enriched Gene Ontology & Pathways in Idiopathic Pulmonary Fibrosis Through Bioinformatics Approaches
Abstract: Idiopathic Pulmonary Fibrosis (IPF) is a progressive interstitial lung disease marked by aberrant remodeling of lung tissue and excessive extracellular matrix deposition, ultimately leading to respiratory failure. Despite ongoing research, the molecular mechanisms underlying IPF remain incompletely understood. This research aims to uncover differentially expressed genes (DEGs) and related biological pathways through an integrated analysis of microarray data. Two publicly available datasets, GSE110147 and GSE53845, were obtained from the Gene …
Published in Research & Reviews: A Journal of Bioinformatics · Vol. 13, Issue 1, 2026 · pp. 1–13 Read article
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Leucoanthocyanidin Reductase (LAR) Gene Analysisin Reductase
Abstract: Leucoanthocyanidin reductase (LAR) catalyzes the synthesis of catechin that is first step in PA biosynthesis. LAR involved in production of the flavan-3-ol. LAR gene is involved in proanthocyanidine production in several plants. Proanthocyanidins are plant secondary metabolites and occur in a wide range of plants and play an important role in defense against herbivores. The analysis of 50 proteins by global alignment of EF148325 with other ortholog sequences which have …
Published in Research and Reviews : A Journal of Immunology · Vol. 3, Issue 2, 2013 · pp. 15–27 Read article
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Unveiling Actionable Pathogenic Genes for Precision Oncology in Brain Cancers: Glioblastoma and Astrocytoma
Abstract: Glioblastoma (GBM) and astrocytoma are aggressive primary brain tumors characterized by significant molecular heterogeneity, complicating effective treatment. This study employed targeted next-generation sequencing of 529 cancer-associated genes on matched tumor-normal pairs from GBM and astrocytoma patients. Somatic variants were identified using a rigorous bioinformatic pipeline adhering to GATK Best Practices, with variant allele frequencies (VAF) calculated to assess clonal dominance. Functional annotation and driver mutation classification were performed using Ensemble …
Published in Research and Reviews : Journal of Computational Biology · Vol. 15, Issue 2, 2026 · pp. 43–59 Read article
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Tools and Techniques for Whole-Genome Alignments
Abstract: The prediction of evolutionary relationships between two or more genomes at the nucleotide level is known as whole-genome alignment (WGA). It possesses characteristics of both gene orthology prediction and collinear sequence alignment. WGAs are useful for genome-wide analyses like phylogenetic inference, genome annotation, and function prediction. So many solutions have been developed despite the fact that this problem is difficult. This article provides an overview of the approaches used to …
Published in Research and Reviews : Journal of Computational Biology · Vol. 11, Issue 2, 2022 · pp. 36–38 Read article
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The Basics of Genomics, Proteogenomics: The Demands and Roles that Proteomics can Fulfil in Genome Annotation
Abstract: The science of genomes: scientists have only recently gone from analysing a few or a limited number of genes at a time to investigating thousands of genes, moving from the study of inheritance units to the investigation of an organism's entire genome. The science of genomes, or "genomics," was originally focused to determining DNA sequences (the nucleotide order on a specific fragment of DNA), but it quickly evolved to a …
Published in Research and Reviews : Journal of Computational Biology · Vol. 10, Issue 3, 2021 · pp. 10–12 Read article
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To Explore and Download the Genome Sequence of Drosophila Melanogaster at NCBI
Abstract: Drosophila melanogaster is one of the most intensively studied organisms in biology, serving as a model system for many developmental and cellular processes shared by higher eukaryotes, including humans. A shotgun whole-genome sequencing strategy was used to sequence almost the entire nucleotide of the approximately 120-megamegabase euchromatic portion of the Drosophila genome. It is supported by extensive clone-based sequences and high quality bacterial artificial chromosome maps. Work is being done …
Published in Research and Reviews : Journal of Computational Biology · Vol. 10, Issue 3, 2021 · pp. 4–6 Read article
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An Automated Smart Contract Repair Framework for Reentrancy, Integer Overflow, and Denial- of-Service Vulnerabilities
Abstract: This paper introduces a novel static analysis framework designed to bridge a long-standing gap in Ethereum smart contract security: the disconnect between vulnerability detection and automated remediation. Although widely adopted tools such as Slither and Oyente are highly effective at identifying security weaknesses, they stop short of providing actionable fixes. As a result, developers manually patch vulnerabilities, a process that is not only time-consuming but also susceptible to human error …
Published in Journal of Computer Technology & Applications · Vol. 17, Issue 1, 2026 · pp. 31–41 Read article
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Enhancing Profanity Detection in Dravidian Languages: Leveraging Language Models for Optimization and Improvement
Abstract: Detecting and documenting instances of abusive behaviour can significantly improve the quality of virtual environments. Given the vast amount of content published daily on social media, it is impractical for human annotators to manually identify potentially harmful content. Recent algorithmic initiatives, especially on platforms like Twitter, have advanced in abuse detection. However, for Dravidian texts, there remains a need to understand the context better and build robust language models for …
Published in Recent Trends in Programming languages · Vol. 11, Issue 2, 2024 · pp. 17–23 Read article