Application and Comparison of Machine Learning and Database-Based Methods in Taxonomic Classification of High-Throughput Sequencing Data

Q Tian, P Zhang, Y Zhai, Y Wang… - Genome Biology and …, 2024 - academic.oup.com
The advent of high-throughput sequencing technologies has not only revolutionized the field
of bioinformatics but has also heightened the demand for efficient taxonomic classification …

An exploratory study of the gut microbiota in major depression with anxious distress

G Ritchie, E Strodl, S Parham, M Bambling… - Journal of Affective …, 2023 - Elsevier
Objectives To explore differences in the diversity and composition of the gut microbiome
between major depressive disorder (MDD) with and without anxious distress. Methods The …

Genomic signatures suggesting adaptation to ocean acidification in a coral holobiont from volcanic CO2 seeps

C Leiva, R Pérez-Portela, S Lemer - Communications Biology, 2023 - nature.com
Ocean acidification, caused by anthropogenic CO2 emissions, is predicted to have major
consequences for reef-building corals, jeopardizing the scaffolding of the most biodiverse …

Functional profiling of COVID-19 respiratory tract microbiomes

N Haiminen, F Utro, E Seabolt, L Parida - Scientific Reports, 2021 - nature.com
In response to the ongoing global pandemic, characterizing the molecular-level host
interactions of the new coronavirus SARS-CoV-2 responsible for COVID-19 has been at the …

DGCNN approach links metagenome-derived taxon and functional information providing insight into global soil organic carbon

LJ Gardiner, M Marshall, K Reusch… - npj Biofilms and …, 2024 - nature.com
Metagenomics can provide insight into the microbial taxa present in a sample and, through
gene identification, the functional potential of the community. However, taxonomic and …

Exploring microbial worlds: a review of whole genome sequencing and its application in characterizing the microbial communities

S Aminu, AA Ascandari, M Laamarti… - Critical Reviews in …, 2024 - Taylor & Francis
The classical microbiology techniques have inherent limitations in unraveling the complexity
of microbial communities, necessitating the pivotal role of sequencing in studying the …

Altered salivary microbiota profile in patients with abdominal aortic aneurysm

WZ Lin, BY Chen, P Qiu, LJ Zhou, YL Li, LJ Du, Y Liu… - Heliyon, 2023 - cell.com
Evidence suggests that the DNA of oral pathogens is detectable in the dilated aortic tissue of
abdominal aortic aneurysm (AAA), one of the most fatal cardiovascular diseases. However …

Pathogenic entero-and salivatypes harbour changes in microbiome virulence and antimicrobial resistance genes with increasing chronic liver disease severity

S Lee, B Arefaine, N Begum, M Stamouli, E Witherden… - bioRxiv, 2023 - biorxiv.org
ABSTRACT Background & Aims Life-threatening complications of cirrhosis are triggered by
bacterial infections, with the ever-increasing threat of antimicrobial resistance (AMR) …

Utilizing Automated Ontology Hierarchies to Evaluate Gene Functions

M Trinathbasu, S Sajith, R Mathialagan, C Bhatt… - 2024 - papers.ssrn.com
The rapid development of bioinformatics, making possible high throughput operation for
characterizing gene function across genome scale datasets; An example of a promise …