-
CRISPR-based tools for plant genome engineering
Molecular tools adapted from bacterial CRISPR (clustered regulatory interspaced short palindromic repeat) adaptive immune systems have been demonstrated in an increasingly wide... -
NLR diversity, helpers and integrated domains: making sense of the NLR IDentity
Plant innate immunity relies on genetically predetermined repertoires of immune receptors to detect pathogens and trigger an effective immune response. A large proportion of... -
Cerox1 and microRNA-488-3p noncoding RNAs jointly regulate mitochondrial comp...
To generate energy efficiently, the cell is uniquely challenged to co-ordinate the abundance of electron transport chain protein subunits expressed from both nuclear and... -
A chromosome conformation capture ordered sequence of the barley genome
The International Barley Genome Sequencing Consortium reports sequencing and assembly of a reference genome for barley, Hordeum vulgare. -
Rapid Diagnosis of Lower Respiratory Infection using Nanopore-based Clinical ...
Lower respiratory infections (LRIs) accounted for three million deaths worldwide in 2016, the leading infectious cause of mortality. The “gold standard” for investigation of... -
Y Chromosome Sequences Reveal a Short Beringian Standstill, Rapid Expansion, ...
The Americas were the last inhabitable continents to be occupied by humans, with a growing multidisciplinary consensus for entry 15–25 thousand years ago (kya) from northeast... -
Comparison of Efficiency and Specificity of CRISPR-Associated (Cas) Nucleases...
Molecular tools adapted from bacterial CRISPR (Clustered Regulatory Interspaced Short Palindromic Repeats) systems for adaptive immunity have become widely used for plant genome... -
Independent assessment and improvement of wheat genome assemblies using Fosil...
The accurate sequencing and assembly of very large, often polyploid, genomes remain a challenging task, limiting long range sequence information and phased sequence variation... -
New approaches for metagenome assembly with short reads
In recent years, the use of longer range read data combined with advances in assembly algorithms has stimulated big improvements in the contiguity and quality of genome... -
ViCTree: an automated framework for taxonomic classification from protein seq...
The increasing rate of submission of genetic sequences into public databases is providing a growing resource for classifying the organisms that these sequences represent. To aid... -
Heterarchy of transcription factors driving basal and luminal cell phenotypes...
Heterarchy of transcription factors driving basal and luminal cell phenotypes in human urothelium -
Zinc finger nuclease-mediated precision genome editing of an endogenous gene ...
Sequence‐specific nucleases have been used to engineer targeted genome modifications in various plants. While targeted gene knockouts resulting in loss of function have been... -
Efficient and accurate detection of splice junctions from RNAseq with Portcullis
Next generation sequencing (NGS) technologies enable rapid and cheap genome-wide transcriptome analysis, providing vital information about gene structure, transcript expression... -
Genomics of habitat choice and adaptive evolution in a deep-sea fish
Intraspecific diversity promotes evolutionary change, and when partitioned among geographic regions or habitats can form the basis for speciation. Marine species live in an... -
New approaches for assembly of short-read metagenomic data
In recent years, the use of longer-range read data combined with advances in assembly algorithms has stimulated big improvements in the contiguity and quality of genome... -
Identification of master regulators in goblet cells and Paneth cells using tr...
Dysfunction of intestinal epithelial cells is often associated with severe gut pathologies, such as inflammatory bowel disease (IBD). Although transcriptional signatures of... -
A quantitative model for characterizing the evolutionary history of mammalian...
Characterizing the evolutionary history of a gene’s expression profile is a critical component for understanding the relationship between genotype, expression, and phenotype.... -
Sixteen diverse laboratory mouse reference genomes define strain-specific hap...
We report full-length draft de novo genome assemblies for 16 widely used inbred mouse strains and find extensive strain-specific haplotype variation. We identify and... -
Biodiversity-function relationships in methanogenic communities
Methanogenic communities play a crucial role in carbon cycling and biotechnology (anaerobic digestion), but our understanding of how their diversity, or composition in general,... -
SPECTRE: a suite of phylogenetic tools for reticulate evolution
Split-networks are a generalization of phylogenetic trees that have proven to be a powerful tool in phylogenetics. Various ways have been developed for computing such networks,...