Sequence assembly demystified
N Nagarajan, M Pop - Nature Reviews Genetics, 2013 - nature.com
Advances in sequencing technologies and increased access to sequencing services have
led to renewed interest in sequence and genome assembly. Concurrently, new applications …
led to renewed interest in sequence and genome assembly. Concurrently, new applications …
Recovering complete and draft population genomes from metagenome datasets
Assembly of metagenomic sequence data into microbial genomes is of fundamental value to
improving our understanding of microbial ecology and metabolism by elucidating the …
improving our understanding of microbial ecology and metabolism by elucidating the …
MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads
T Namiki, T Hachiya, H Tanaka… - Proceedings of the 2nd …, 2011 - dl.acm.org
Motivation: An important step of" metagenomics" analysis is the assembly of multiple
genomes from mixed sequence reads of multiple species in a microbial community. Most …
genomes from mixed sequence reads of multiple species in a microbial community. Most …
Synergistic association between cytochrome bd-encoded Proteiniphilum and reactive oxygen species (ROS)-scavenging methanogens in microaerobic-anaerobic …
Intermittent (every other day) microaerobic [picomolar oxygen by oxidation-reduction
potential (ORP) set at+ 25 mV above anaerobic baseline] digestion of lignocellulosic …
potential (ORP) set at+ 25 mV above anaerobic baseline] digestion of lignocellulosic …
Next-generation sequencing (NGS) in the microbiological world: How to make the most of your money
The Sanger sequencing method produces relatively long DNA sequences of unmatched
quality and has been considered for long time as the gold standard for sequencing DNA …
quality and has been considered for long time as the gold standard for sequencing DNA …
Occurrence of antibiotics in the main rivers of Shenzhen, China: Association with antibiotic resistance genes and microbial community
The occurrence and distribution of antibiotics were investigated in surface water and
sediment collected from the main rivers of Shenzhen, China. Total concentrations of 20 …
sediment collected from the main rivers of Shenzhen, China. Total concentrations of 20 …
Next-generation sequence assembly: four stages of data processing and computational challenges
S El-Metwally, T Hamza, M Zakaria… - PLoS computational …, 2013 - journals.plos.org
Decoding DNA symbols using next-generation sequencers was a major breakthrough in
genomic research. Despite the many advantages of next-generation sequencers, eg, the …
genomic research. Despite the many advantages of next-generation sequencers, eg, the …
Assembling metagenomes, one community at a time
Background Metagenomics allows unprecedented access to uncultured environmental
microorganisms. The analysis of metagenomic sequences facilitates gene prediction and …
microorganisms. The analysis of metagenomic sequences facilitates gene prediction and …
Assessment of common and emerging bioinformatics pipelines for targeted metagenomics
Targeted metagenomics, also known as metagenetics, is a high-throughput sequencing
application focusing on a nucleotide target in a microbiome to describe its taxonomic …
application focusing on a nucleotide target in a microbiome to describe its taxonomic …
Evaluating the performance of de novo assembly methods for venom-gland transcriptomics
Venom-gland transcriptomics is a key tool in the study of the evolution, ecology, function,
and pharmacology of animal venoms. In particular, gene-expression variation and coding …
and pharmacology of animal venoms. In particular, gene-expression variation and coding …