Results 21 to 30 of about 306,835 (260)

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

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

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

High-Quality de novo Chromosome-Level Genome Assembly of a Single Bombyx mori With BmNPV Resistance by a Combination of PacBio Long-Read Sequencing, Illumina Short-Read Sequencing, and Hi-C Sequencing

Frontiers in Genetics, 2021
The reference genomes of Bombyx mori (B. mori), Silkworm Knowledge-based database (SilkDB) and SilkBase, have served as the gold standard for nearly two decades.
Min Tang, Suqun He, Xun Gong, Xun Gong, Peng Lü, Rehab H. Taha, Keping Chen   +6 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

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

Rab14 regulates the transport of human papillomavirus to the trans‐Golgi network for infectious cell entry

FEBS Letters, EarlyView.
This study reveals that the small GTPase Rab14 is necessary for human papillomavirus (HPV) infection and plays an essential role in the transport of virions to the trans‐Golgi network (TGN). HPV in the early endosome (EE), which harbors GTP‐bound Rab14, is transported to the TGN through the switch of Rab14 from its GTP‐bound to GDP‐bound form.
Yoshiyuki Ishii, Iwao Kukimoto
wiley   +1 more source

Whole genome amplification and de novo assembly of single bacterial cells.

PLoS ONE, 2009
BackgroundSingle-cell genome sequencing has the potential to allow the in-depth exploration of the vast genetic diversity found in uncultured microbes.
Sébastien Rodrigue, Rex R Malmstrom, Aaron M Berlin, Bruce W Birren, Matthew R Henn, Sallie W Chisholm   +5 more
doaj   +1 more source