A beginner's guide to eukaryotic genome annotation
M Yandell, D Ence - Nature Reviews Genetics, 2012 - nature.com
The falling cost of genome sequencing is having a marked impact on the research
community with respect to which genomes are sequenced and how and where they are …
community with respect to which genomes are sequenced and how and where they are …
The Genome 10K Project: a way forward
The Genome 10K Project was established in 2009 by a consortium of biologists and
genome scientists determined to facilitate the sequencing and analysis of the complete …
genome scientists determined to facilitate the sequencing and analysis of the complete …
JBrowse 2: a modular genome browser with views of synteny and structural variation
We present JBrowse 2, a general-purpose genome annotation browser offering enhanced
visualization of complex structural variation and evolutionary relationships. It retains core …
visualization of complex structural variation and evolutionary relationships. It retains core …
A pan-genomic approach to genome databases using maize as a model system
MR Woodhouse, EK Cannon, JL Portwood, LC Harper… - BMC plant biology, 2021 - Springer
Research in the past decade has demonstrated that a single reference genome is not
representative of a species' diversity. MaizeGDB introduces a pan-genomic approach to …
representative of a species' diversity. MaizeGDB introduces a pan-genomic approach to …
vcfr: a package to manipulate and visualize variant call format data in R
Software to call single‐nucleotide polymorphisms or related genetic variants has converged
on the variant call format (VCF) as the output format of choice. This has created a need for …
on the variant call format (VCF) as the output format of choice. This has created a need for …
Design of a synthetic yeast genome
We describe complete design of a synthetic eukaryotic genome, Sc2. 0, a highly modified
Saccharomyces cerevisiae genome reduced in size by nearly 8%, with 1.1 megabases of …
Saccharomyces cerevisiae genome reduced in size by nearly 8%, with 1.1 megabases of …
The Arabidopsis information resource: making and mining the “gold standard” annotated reference plant genome
TZ Berardini, L Reiser, D Li, Y Mezheritsky, R Muller… - genesis, 2015 - Wiley Online Library
Summary The Arabidopsis Information Resource (TAIR) is a continuously updated, online
database of genetic and molecular biology data for the model plant Arabidopsis thaliana that …
database of genetic and molecular biology data for the model plant Arabidopsis thaliana that …
JBrowse: a dynamic web platform for genome visualization and analysis
Background JBrowse is a fast and full-featured genome browser built with JavaScript and
HTML5. It is easily embedded into websites or apps but can also be served as a standalone …
HTML5. It is easily embedded into websites or apps but can also be served as a standalone …
Modelling the impacts of pests and diseases on agricultural systems
The improvement and application of pest and disease models to analyse and predict yield
losses including those due to climate change is still a challenge for the scientific community …
losses including those due to climate change is still a challenge for the scientific community …
The comprehensive antibiotic resistance database
The field of antibiotic drug discovery and the monitoring of new antibiotic resistance
elements have yet to fully exploit the power of the genome revolution. Despite the fact that …
elements have yet to fully exploit the power of the genome revolution. Despite the fact that …