Xanthomonas axonopodis Virulence Is Promoted by a Transcription Activator-Like Effector–Mediated Induction of a SWEET Sugar Transporter in Cassava
The gene-for-gene concept has historically been applied to describe a specific resistance
interaction wherein single genes from the host and the pathogen dictate the outcome. These …
interaction wherein single genes from the host and the pathogen dictate the outcome. These …
The progress of multi-omics technologies: determining function in lactic acid bacteria using a systems level approach
Lactic Acid Bacteria (LAB) have long been recognized as having a significant impact
ranging from commercial to health domains. A vast amount of research has been carried out …
ranging from commercial to health domains. A vast amount of research has been carried out …
SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data
Quality control (QC) and preprocessing are essential steps for sequencing data analysis to
ensure the accuracy of results. However, existing tools cannot provide a satisfying solution …
ensure the accuracy of results. However, existing tools cannot provide a satisfying solution …
N6-methyladenosine-dependent RNA structural switches regulate RNA–protein interactions
RNA-binding proteins control many aspects of cellular biology through binding single-
stranded RNA binding motifs (RBMs),,. However, RBMs can be buried within their local RNA …
stranded RNA binding motifs (RBMs),,. However, RBMs can be buried within their local RNA …
RNA sequencing and analysis
KR Kukurba, SB Montgomery - Cold Spring Harbor Protocols, 2015 - cshprotocols.cshlp.org
RNA sequencing (RNA-Seq) uses the capabilities of high-throughput sequencing methods
to provide insight into the transcriptome of a cell. Compared to previous Sanger sequencing …
to provide insight into the transcriptome of a cell. Compared to previous Sanger sequencing …
HTSeq—a Python framework to work with high-throughput sequencing data
Motivation: A large choice of tools exists for many standard tasks in the analysis of high-
throughput sequencing (HTS) data. However, once a project deviates from standard …
throughput sequencing (HTS) data. However, once a project deviates from standard …
Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads
Background Adapter trimming is a prerequisite step for analyzing next-generation
sequencing (NGS) data when the reads are longer than the target DNA/RNA fragments …
sequencing (NGS) data when the reads are longer than the target DNA/RNA fragments …
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
De novo assembly of RNA-seq data enables researchers to study transcriptomes without the
need for a genome sequence; this approach can be usefully applied, for instance, in …
need for a genome sequence; this approach can be usefully applied, for instance, in …
Longitudinal analysis of microbial interaction between humans and the indoor environment
The bacteria that colonize humans and our built environments have the potential to
influence our health. Microbial communities associated with seven families and their homes …
influence our health. Microbial communities associated with seven families and their homes …
A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data
Motivation: Open-source bacterial genome assembly remains inaccessible to many
biologists because of its complexity. Few software solutions exist that are capable of …
biologists because of its complexity. Few software solutions exist that are capable of …