Propagation, detection and correction of errors using the sequence database network
Nucleotide and protein sequences stored in public databases are the cornerstone of many
bioinformatics analyses. The records containing these sequences are prone to a wide range …
bioinformatics analyses. The records containing these sequences are prone to a wide range …
The ATCC genome portal: microbial genome reference standards with data provenance
B Benton, S King, SR Greenfield… - Microbiology …, 2021 - Am Soc Microbiol
Lack of data provenance negatively impacts scientific reproducibility and the reliability of
genomic data. The ATCC Genome Portal (https://genomes. atcc. org) addresses this by …
genomic data. The ATCC Genome Portal (https://genomes. atcc. org) addresses this by …
Ten simple rules for investigating (meta) genomic data from environmental ecosystems
Metagenomics is the sequencing and study of DNA directly from environmental samples and
is an approach used in microbial ecology to explore the diversity and functions of microbial …
is an approach used in microbial ecology to explore the diversity and functions of microbial …
PPIT: an R package for inferring microbial taxonomy from nifH sequences
Motivation Linking microbial community members to their ecological functions is a central
goal of environmental microbiology. When assigned taxonomy, amplicon sequences of …
goal of environmental microbiology. When assigned taxonomy, amplicon sequences of …
Characterizing Antarctic fish assemblages using eDNA obtained from marine sponge bycatch specimens
International conservation goals have been set to mitigate Southern Ocean ecosystem
deterioration, with multiple monitoring programs evaluating progress towards those goals …
deterioration, with multiple monitoring programs evaluating progress towards those goals …
DFAST_QC: quality assessment and taxonomic identification tool for prokaryotic Genomes
Background Accurate taxonomic classification in genome databases is essential for reliable
biological research and effective data sharing. Mislabeling or inaccuracies in genome …
biological research and effective data sharing. Mislabeling or inaccuracies in genome …
A machine learning framework for discovery and enrichment of metagenomics metadata from open access publications
M Nassar, AB Rogers, F Talo', S Sanchez… - …, 2022 - academic.oup.com
Metagenomics is a culture-independent method for studying the microbes inhabiting a
particular environment. Comparing the composition of samples (functionally/taxonomically) …
particular environment. Comparing the composition of samples (functionally/taxonomically) …
Concatenated 16S rRNA sequence analysis improves bacterial taxonomy
B Paul - F1000Research, 2023 - pmc.ncbi.nlm.nih.gov
Background: Microscopic, biochemical, molecular, and computer-based approaches are
extensively used to identify and classify bacterial populations. Advances in DNA sequencing …
extensively used to identify and classify bacterial populations. Advances in DNA sequencing …
The Australian Biosecurity Genomic Database: a new resource for high-throughput sequencing analysis based on the National Notifiable Disease List of Terrestrial …
Abstract The Australian Biosecurity Genomic Database (ABGD) is a curated collection of
reference viral genome sequences based on the Australian National Notifiable Disease List …
reference viral genome sequences based on the Australian National Notifiable Disease List …
Impacts of environmental stress on resistance and resilience of algal‐associated bacterial communities
Algal‐associated bacteria are fundamental to the ecological success of marine green
macroalgae such as Caulerpa. The resistance and resilience of algal‐associated microbiota …
macroalgae such as Caulerpa. The resistance and resilience of algal‐associated microbiota …