Search
Search Results
-
Genome-Informed Discovery of Genes and Framework of Functional Genes in Wheat
The complete reference genome of wheat was released in 2018 (IWGSC in Science 361:eaar7191, 2018), and since then many wheats genomic resources have...
-
Biome-specific distribution of Ni-containing carbon monoxide dehydrogenases
Ni-containing carbon monoxide dehydrogenase (Ni-CODH) plays an important role in the CO/CO 2 -based carbon and energy metabolism of microbiomes....
-
Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes
BackgroundAs most viruses remain uncultivated, metagenomics is currently the main method for virus discovery. Detecting viruses in metagenomic data...
-
Phage-inclusive profiling of human gut microbiomes with Phanta
Due to technical limitations, most gut microbiome studies have focused on prokaryotes, overlooking viruses. Phanta, a virome-inclusive gut microbiome...
-
TAGOPSIN: collating taxa-specific gene and protein functional and structural information
BackgroundThe wealth of biological information available nowadays in public databases has triggered an unprecedented rise in multi-database search...
-
Assembly, Annotation and Visualization of NGS Data
The next-generation sequencing technologies have revolutionized the field of agriculture with the advent of ever-evolving chemistries and a reduction...
-
Small open reading frames: a comparative genetics approach to validation
Open reading frames (ORFs) with fewer than 100 codons are generally not annotated in genomes, although bona fide genes of that size are known. Newer...
-
Databases and Protein Structures
Bioinformatics databases contain biological data from scientific experiments, most importantly DNA and protein sequences and protein structures....
-
Tamock: simulation of habitat-specific benchmark data in metagenomics
BackgroundSimulated metagenomic reads are widely used to benchmark software and workflows for metagenome interpretation. The results of metagenomic...
-
Datenbanken und Proteinstrukturen
Bioinformatik-Datenbanken enthalten biologische Daten aus wissenschaftlichen Experimenten, vor allem DNA- und Proteinsequenzen und Proteinstrukturen....
-
EchinoDB: an update to the web-based application for genomic and transcriptomic data on echinoderms
BackgroundHere we release a new version of EchinoDB, EchinoDB v2.0 ( https://echinodb.uncc.edu ). EchinoDB is a database of genomic and...
-
Technologies Promoting Genome-Based Taxonomy
Whole-genome sequencing (WGS) has proven to be a reliable method. Additionally, it is a commonly used approach in research and surveillance...
-
DNA Methylation Data Analysis Using Msuite
DNA methylation is a widespread epigenetic modification responsible for many biological regulation pathways. The development of various powerful...
-
Unveiling the microbial diversity and functional dynamics of Shiv Kund, Sohna hot spring, India through a shotgun metagenomics approach
In this research, we examined the microbial diversity in Sohna hot spring, Haryana, India using shotgun metagenome sequencing based on the Illumina...
-
Long Intergenic Noncoding RNA (lincRNA) Discovery from Non-Strand-Specific RNA-Seq Data
Long noncoding RNAs (lncRNAs) are transcripts over 200 base pairs in length without discernible protein coding potential. Long intergenic noncoding...
-
BDDBlast—A Memory Efficient Architecture for Pairwise Alignments
BLAST, or Basic Local Alignment Search Tool, is one of the most widely used bioinformatics tools today. However, as biological data accumulates, its...
-
Bioinformatic analysis of structures and encoding genes of Escherichia coli surface polysaccharides sheds light on the heterologous biosynthesis of glycans
BackgroundSurface polysaccharides (SPs), such as lipopolysaccharide (O antigen) and capsular polysaccharide (K antigen), play a key role in the...
-
Optimized bacterial community characterization through full-length 16S rRNA gene sequencing utilizing MinION nanopore technology
BackgroundAccurate identification of bacterial communities is crucial for research applications, diagnostics, and clinical interventions. Although...
-
Characteristics and Complete Genome Analysis of a Pathogenic Aeromonas Veronii SJ4 from Diseased Siniperca Chuatsi
As an opportunistic pathogen, Aeromonas veronii can cause hemorrhagic septicemia of various aquatic animals. In our present study, a dominant strain...
-
Insulin and circadian rhythm genes of the Nile rat (Arvicanthis niloticus) are conserved and orthologous to those in the rat, mouse and human
The African grass or Nile rat (NR) ( Arvicanthis niloticus ) is a herbivorous diurnal rodent which is used as a biological model for research on type 2...
