Whole‐genome sequencing approaches for conservation biology: Advantages, limitations and practical recommendations
AP Fuentes‐Pardo, DE Ruzzante - Molecular ecology, 2017 - Wiley Online Library
Whole‐genome resequencing (WGR) is a powerful method for addressing fundamental
evolutionary biology questions that have not been fully resolved using traditional methods …
evolutionary biology questions that have not been fully resolved using traditional methods …
[HTML][HTML] Repetitive DNA and next-generation sequencing: computational challenges and solutions
TJ Treangen, SL Salzberg - Nature Reviews Genetics, 2012 - nature.com
Repetitive DNA sequences are abundant in a broad range of species, from bacteria to
mammals, and they cover nearly half of the human genome. Repeats have always …
mammals, and they cover nearly half of the human genome. Repeats have always …
Characterization and visualization of tandem repeats at genome scale
Tandem repeat (TR) variation is associated with gene expression changes and numerous
rare monogenic diseases. Although long-read sequencing provides accurate full-length …
rare monogenic diseases. Although long-read sequencing provides accurate full-length …
Rewiring of the fruit metabolome in tomato breeding
Humans heavily rely on dozens of domesticated plant species that have been further
improved through intensive breeding. To evaluate how breeding changed the tomato fruit …
improved through intensive breeding. To evaluate how breeding changed the tomato fruit …
A universal SNP and small-indel variant caller using deep neural networks
Despite rapid advances in sequencing technologies, accurately calling genetic variants
present in an individual genome from billions of short, errorful sequence reads remains …
present in an individual genome from billions of short, errorful sequence reads remains …
A high-coverage Neandertal genome from Vindija Cave in Croatia
To date, the only Neandertal genome that has been sequenced to high quality is from an
individual found in Southern Siberia. We sequenced the genome of a female Neandertal …
individual found in Southern Siberia. We sequenced the genome of a female Neandertal …
ANGSD: analysis of next generation sequencing data
Background High-throughput DNA sequencing technologies are generating vast amounts of
data. Fast, flexible and memory efficient implementations are needed in order to facilitate …
data. Fast, flexible and memory efficient implementations are needed in order to facilitate …
[HTML][HTML] Clonal seeds from hybrid rice by simultaneous genome engineering of meiosis and fertilization genes
C Wang, Q Liu, Y Shen, Y Hua, J Wang, J Lin… - Nature …, 2019 - nature.com
Heterosis, or hybrid vigor, is exploited by breeders to produce elite high-yielding crop lines,
but beneficial phenotypes are lost in subsequent generations owing to genetic segregation …
but beneficial phenotypes are lost in subsequent generations owing to genetic segregation …
[HTML][HTML] Integrating mapping-, assembly-and haplotype-based approaches for calling variants in clinical sequencing applications
High-throughput DNA sequencing technology has transformed genetic research and is
starting to make an impact on clinical practice. However, analyzing high-throughput …
starting to make an impact on clinical practice. However, analyzing high-throughput …
[HTML][HTML] Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA
As modern humans migrated out of Africa, they encountered many new environmental
conditions, including greater temperature extremes, different pathogens and higher …
conditions, including greater temperature extremes, different pathogens and higher …