High-quality draft assemblies of mammalian genomes from massively parallel sequence data

…, JN Burton, BJ Walker, T Sharpe… - Proceedings of the …, 2011 - National Acad Sciences
Massively parallel DNA sequencing technologies are revolutionizing genomics by making it
possible to generate billions of relatively short (~100-base) sequence reads at very low cost. …

[HTML][HTML] A structural variation reference for medical and population genetics

…, CW Whelan, Y Huang, T Brookings, T Sharpe… - Nature, 2020 - nature.com
Structural variants (SVs) rearrange large segments of DNA 1 and can have profound
consequences in evolution and human disease 2 , 3 . As national biobanks, disease-association …

[HTML][HTML] Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans

…, UD Schumann, B Schwessinger, L Seyer, T Sharpe… - Nature, 2009 - nature.com
Phytophthora infestans is the most destructive pathogen of potato and a model organism for
the oomycetes, a distinct lineage of fungus-like eukaryotes that are related to organisms …

[HTML][HTML] Whole-genome resequencing reveals loci under selection during chicken domestication

…, MT Webster, L Jiang, M Ingman, T Sharpe… - Nature, 2010 - nature.com
Domestic animals are excellent models for genetic studies of phenotypic evolution 1 , 2 , 3 .
They have evolved genetic adaptations to a new environment, the farm, and have been …

[HTML][HTML] The genomic substrate for adaptive radiation in African cichlid fish

…, L Sanchez-Pulido, ME Santos, S Searle, T Sharpe… - Nature, 2014 - nature.com
Cichlid fishes are famous for large, diverse and replicated adaptive radiations in the Great
Lakes of East Africa. To understand the molecular mechanisms underlying cichlid phenotypic …

Subtype-specific genomic alterations define new targets for soft-tissue sarcoma therapy

…, JE Major, C Hatton, R Nicoletti, M Hanna, T Sharpe… - Nature …, 2010 - nature.com
Soft-tissue sarcomas, which result in approximately 10,700 diagnoses and 3,800 deaths per
year in the United States 1 , show remarkable histologic diversity, with more than 50 …

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

…, DC Schwartz, A Sergushichev, T Sharpe… - …, 2013 - academic.oup.com
Background The process of generating raw genome sequence data continues to become
cheaper, faster, and more accurate. However, assembly of such data into high-quality, finished …

Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences

…, J Jurka, M Kamal, E Mauceli, SMJ Searle, T Sharpe… - Nature, 2007 - nature.com
We report a high-quality draft of the genome sequence of the grey, short-tailed opossum (Monodelphis
domestica). As the first metatherian (‘marsupial’) species to be sequenced, the …

[HTML][HTML] The African coelacanth genome provides insights into tetrapod evolution

…, G Scapigliati, SMJ Searle, T Sharpe… - Nature, 2013 - nature.com
The discovery of a living coelacanth specimen in 1938 was remarkable, as this lineage of
lobe-finned fish was thought to have become extinct 70 million years ago. The modern …

Assemblathon 1: a competitive assessment of de novo short read assembly methods

…, D Przybylski, FJ Ribeiro, S Yin, T Sharpe… - Genome …, 2011 - genome.cshlp.org
Low-cost short read sequencing technology has revolutionized genomics, though it is only
just becoming practical for the high-quality de novo assembly of a novel large genome. We …