Results 21 to 30 of about 308,496 (260)

Fully Phased Sequence of a Diploid Human Genome Determined de Novo from the DNA of a Single Individual

G3: Genes, Genomes, Genetics, 2020
In recent years, improved sequencing technology and computational tools have made de novo genome assembly more accessible. Many approaches, however, generate either an unphased or only partially resolved representation of a diploid genome, in which ...
llya Soifer, Nicole L. Fong, Nelda Yi, Andrea T. Ireland, Irene Lam, Matthew Sooknah, Jonathan S. Paw, Paul Peluso, Gregory T. Concepcion, David Rank, Alex R. Hastie, Vladimir Jojic, J. Graham Ruby, David Botstein, Margaret A. Roy   +14 more
doaj   +1 more source

LDscaff: LD-based scaffolding of de novo genome assemblies

BMC Bioinformatics, 2020
Background Genome assembly is fundamental for de novo genome analysis. Hybrid assembly, utilizing various sequencing technologies increases both contiguity and accuracy.
Zicheng Zhao, Yingxiao Zhou, Shuai Wang, Xiuqing Zhang, Changfa Wang, Shuaicheng Li   +5 more
doaj   +1 more source

Comparison of ONT and CCS sequencing technologies on the polyploid genome of a medicinal plant showed that high error rate of ONT reads are not suitable for self-correction

Chinese Medicine, 2022
Background Many medicinal plants are known for their complex genomes with high ploidy, heterozygosity, and repetitive content which pose severe challenges for genome sequencing of those species. Long reads from Oxford nanopore sequencing technology (ONT)
Peng Zeng, Zunzhe Tian, Yuwei Han, Weixiong Zhang, Tinggan Zhou, Yingmei Peng, Hao Hu, Jing Cai   +7 more
doaj   +1 more source

Genome assembly of Vitis rotundifolia Michx. using third-generation sequencing (Oxford Nanopore Technologies)

Труды по прикладной ботанике, генетике и селекции, 2021
The immune North American grapevine species Vitis rotundifolia Michaux (subgen. Muscadinia Planch.) is regarded as a potential donor of disease resistance genes, withstanding such dangerous diseases of grapes as powdery and downy mildews.
M. M. Agakhanov, E. A. Grigoreva, E. K. Potokina, P. S. Ulianich, Y. V. Ukhatova   +4 more
doaj   +1 more source

Tigmint: correcting assembly errors using linked reads from large molecules

BMC Bioinformatics, 2018
Background Genome sequencing yields the sequence of many short snippets of DNA (reads) from a genome. Genome assembly attempts to reconstruct the original genome from which these reads were derived.
Shaun D. Jackman, Lauren Coombe, Justin Chu, Rene L. Warren, Benjamin P. Vandervalk, Sarah Yeo, Zhuyi Xue, Hamid Mohamadi, Joerg Bohlmann, Steven J.M. Jones, Inanc Birol   +10 more
doaj   +1 more source

Enhancement of de novo sequencing, assembly and annotation of the Mongolian gerbil genome with transcriptome sequencing and assembly from several different tissues

BMC Genomics, 2019
Background The Mongolian gerbil (Meriones unguiculatus) has historically been used as a model organism for the auditory and visual systems, stroke/ischemia, epilepsy and aging related research since 1935 when laboratory gerbils were separated from their ...
Shifeng Cheng, Yuan Fu, Yaolei Zhang, Wenfei Xian, Hongli Wang, Benedikt Grothe, Xin Liu, Xun Xu, Achim Klug, Elizabeth A. McCullagh   +9 more
doaj   +1 more source

Completion of draft bacterial genomes by long-read sequencing of synthetic genomic pools

BMC Genomics, 2020
Background Illumina technology currently dominates bacterial genomics due to its high read accuracy and low sequencing cost. However, the incompleteness of draft genomes generated by Illumina reads limits their application in comprehensive genomics ...
Hooman Derakhshani, Steve P. Bernier, Victoria A. Marko, Michael G. Surette   +3 more
doaj   +1 more source

High-speed whole-genome sequencing of a Whippet: Rapid chromosome-level assembly and annotation of an extremely fast dog’s genome

GigaByte
The time required for genome sequencing and de novo assembly depends on the interaction between laboratory work, sequencing capacity, and the bioinformatics workflow, often constrained by external sequencing services.
Marcel Nebenführ , David Prochotta , Alexander Ben Hamadou , Axel Janke , Charlotte Gerheim , Christian Betz , Carola Greve , Hanno Jörn Bolz   +7 more
doaj   +1 more source

Diversity and complexity in neural organoids

FEBS Letters, EarlyView.
Neural organoid research aims to expand genetic diversity on one side and increase tissue complexity on the other. Chimeroids integrate multiple donor genomes within single organoids. Self‐organising multi‐identity organoids, exogenous cell seeding, or enforced assembly of region‐specific organoids contribute to tissue complexity.
Ilaria Chiaradia, Madeline A. Lancaster
wiley   +1 more source

Effects of GC bias in next-generation-sequencing data on de novo genome assembly. [PDF]

PLoS ONE, 2013
Next-generation-sequencing (NGS) has revolutionized the field of genome assembly because of its much higher data throughput and much lower cost compared with traditional Sanger sequencing. However, NGS poses new computational challenges to de novo genome
Yen-Chun Chen, Tsunglin Liu, Chun-Hui Yu, Tzen-Yuh Chiang, Chi-Chuan Hwang   +4 more
doaj   +1 more source