A5083612556- Chromosomal and Genetic Variations
- Animal Genetics and Reproduction
- Plant Disease Resistance and Genetics
- Genetic diversity and population structure
- Genomics and Phylogenetic Studies
- RNA and protein synthesis mechanisms
- Molecular Biology Techniques and Applications
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- Nuclear Structure and Function
- Algorithms and Data Compression
- Fractal and DNA sequence analysis
- Genomics and Rare Diseases
- Genetic Neurodegenerative Diseases
- Genetic Mapping and Diversity in Plants and Animals
University of Colorado Anschutz Medical Campus
2025
Centre for Cellular and Molecular Biology
2017-2023
Academy of Scientific and Innovative Research
2019-2023
European Molecular Biology Laboratory
2022
Microsatellites, or Simple Sequence Repeats (SSRs), are short tandem repeats of 1-6 nt motifs present in all genomes. Emerging evidence points to their role cellular processes and gene regulation. Despite the huge resource genomic information currently available, SSRs have been studied a limited context compared across relatively few species.We identified ~ 685 million eukaryotic microsatellites analyzed trends 15 taxonomic subgroups from protists mammals. The distribution reveals...
Abstract Motivation Microsatellites or Simple Sequence Repeats (SSRs) are short tandem repeats of DNA motifs present in all genomes. They have long been used for a variety purposes the areas population genetics, genotyping, marker-assisted selection and forensics. Numerous studies highlighted their functional roles genome organization gene regulation. Though several tools currently available to identify SSRs from genomic sequences, they significant limitations. Results We novel algorithm...
DNA tandem repeats (TRs) are crucial for genomic functions like protein binding, chromatin modulation, splicing, and gene regulation. Abnormal length variations in TRs, especially expansions, associated with over 60 neurodegenerative diseases. The function stability of a TR locus is dependent on its sequencing composition purity. Recent studies report the disease causing propensity non canonical motif expansions loci, highlight intricate polymorphism dynamics complex loci encompassing...
Abstract Approximately 8% of the human genome consists repetitive elements called tandem repeats (TRs): short (STRs) 1–6 bp motifs and variable number (VNTRs) 7 + motifs. TR variants contribute to several dozen monogenic diseases but remain understudied enigmatic. It remains comparatively challenging interpret clinical significance variants, particularly relative single nucleotide variants. We present STRchive ( http://strchive.org/ ), a dynamic resource consolidating information on disease...
Microsatellites are short tandem repeats of 1-6 nucleotide motifs, studied for their utility as genome markers and in forensics. Recent evidence points to the role microsatellites important regulatory functions, length polymorphisms at coding regions linked various neurodegenerative disorders humans. show a taxon-specific enrichment eukaryotic genomes, evolution remains poorly understood. Though other databases exist, they fall on several fronts. MSDB (MicroSatellite DataBase) is collection...
Microsatellites, also known as Simple Sequence Repeats (SSRs), are short tandem repeats of 1–6 nt motifs present in all genomes, particularly eukaryotes. Besides their usefulness genome markers, SSRs have been shown to perform important regulatory functions, and variations length at coding regions linked several disorders humans. Microsatellites show a taxon-specific enrichment eukaryotic some may be functional. MSDB (Microsatellite Database) is collection >650 million from 6,893 species...
Eukaryotic genome is compartmentalized into structural and functional domains. One of the concepts higher order organization chromatin posits that DNA organized in constrained loops behave as independent Nuclear Matrix (NuMat), a ribo-proteinaceous nucleoskeleton, provides basis for this organization. sequences located at base are known Attachment Regions (MARs). NuMat relates to multiple nuclear processes partly cell type specific composition. It biochemically defined structure several...
Nuclear matrix (NuMat) is the fraction of eukaryotic nucleus insoluble to detergents and high-salt extractions that manifests as a pan-nuclear fiber-granule network. NuMat consists ribonucleoprotein complexes, members crucial nuclear functional modules, DNA fragments. Although captures organization nonchromatin space, very little known about components within NuMat. To understand components, we subfractionated it with increasing concentrations chaotrope guanidinium hydrochloride (GdnHCl)...
Abstract Microsatellites, also known as Simple Sequence Repeats (SSRs), are evolutionarily conserved repeat elements distributed non-randomly in all genomes. Many studies have investigated their pattern of occurrence order to understand role, but identification has largely been non-exhaustive and limited a few related species or model organisms. Here, we identify ~685 million microsatellites from 719 eukaryotes analyze evolutionary trends protists mammals. We document novel patterns uniquely...
Summary Numerical or vector representations of DNA sequences have been applied for identification specific sequence characteristics and patterns which are not evident in their character (A, C, G, T) representations. These transformations often reveal a mathematical structure to the can be captured efficiently using established methods. One such transformation, 2-bit format, represents each nucleotide only two bits instead eight efficient storage genomic data. Here we describe property that...
ABSTRACT Nuclear Matrix (NuMat) is the fraction of eukaryotic nucleus insoluble to detergents and high-salt extractions that manifests as a pan-nuclear fiber-granule network. NuMat consists ribonucleoprotein complexes, members crucial nuclear functional modules, DNA fragments. Although captures organization non-chromatin space, very little known about component within NuMat. To understand components, we subfractionated it with increasing concentrations chaotrope Guanidinium Hydrochloride...
Abstract Background Eukaryotic genome is compartmentalized into structural and functional domains. One of the concepts higher order organization chromatin posits that DNA organized in constrained loops behave as independent Nuclear Matrix (NuMat), a ribo-proteinaceous nucleoskeleton, provides basis for this organization. sequences located at base are known M atrix A ttachment R egions (MARs). NuMat relates to multiple nuclear processes partly cell type specific composition. It biochemically...