Next-generation sequencing and emerging technologies

KR Kumar, MJ Cowley, RL Davis - Seminars in thrombosis and …, 2024 - thieme-connect.com
Genetic sequencing technologies are evolving at a rapid pace with major implications for
research and clinical practice. In this review, the authors provide an updated overview of …

The ecology of environmental DNA and implications for conservation genetics

MA Barnes, CR Turner - Conservation genetics, 2016 - Springer
Environmental DNA (eDNA) refers to the genetic material that can be extracted from bulk
environmental samples such as soil, water, and even air. The rapidly expanding study of …

Towards complete and error-free genome assemblies of all vertebrate species

A Rhie, SA McCarthy, O Fedrigo, J Damas, G Formenti… - Nature, 2021 - nature.com
High-quality and complete reference genome assemblies are fundamental for the
application of genomics to biology, disease, and biodiversity conservation. However, such …

Broad host range of SARS-CoV-2 predicted by comparative and structural analysis of ACE2 in vertebrates

J Damas, GM Hughes, KC Keough… - Proceedings of the …, 2020 - National Acad Sciences
The novel coronavirus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is
the cause of COVID-19. The main receptor of SARS-CoV-2, angiotensin I converting enzyme …

A comparative genomics multitool for scientific discovery and conservation

Nature, 2020 - nature.com
Abstract The Zoonomia Project is investigating the genomics of shared and specialized traits
in eutherian mammals. Here we provide genome assemblies for 131 species, of which all …

RepeatModeler2 for automated genomic discovery of transposable element families

JM Flynn, R Hubley, C Goubert… - Proceedings of the …, 2020 - National Acad Sciences
The accelerating pace of genome sequencing throughout the tree of life is driving the need
for improved unsupervised annotation of genome components such as transposable …

OrthoFinder: phylogenetic orthology inference for comparative genomics

DM Emms, S Kelly - Genome biology, 2019 - Springer
Here, we present a major advance of the OrthoFinder method. This extends OrthoFinder's
high accuracy orthogroup inference to provide phylogenetic inference of orthologs, rooted …

Ensembl 2019

F Cunningham, P Achuthan, W Akanni… - Nucleic acids …, 2019 - academic.oup.com
Abstract The Ensembl project (https://www. ensembl. org) makes key genomic data sets
available to the entire scientific community without restrictions. Ensembl seeks to be a …

Earth BioGenome Project: Sequencing life for the future of life

HA Lewin, GE Robinson, WJ Kress… - Proceedings of the …, 2018 - National Acad Sciences
Increasing our understanding of Earth's biodiversity and responsibly stewarding its
resources are among the most crucial scientific and social challenges of the new …

Integrating Hi-C links with assembly graphs for chromosome-scale assembly

J Ghurye, A Rhie, BP Walenz, A Schmitt… - PLoS computational …, 2019 - journals.plos.org
Long-read sequencing and novel long-range assays have revolutionized de novo genome
assembly by automating the reconstruction of reference-quality genomes. In particular, Hi-C …