Results 11 to 20 of about 306,835 (260)

Identification of optimum sequencing depth especially for de novo genome assembly of small genomes using next generation sequencing data. [PDF]

PLoS ONE, 2013
Next Generation Sequencing (NGS) is a disruptive technology that has found widespread acceptance in the life sciences research community. The high throughput and low cost of sequencing has encouraged researchers to undertake ambitious genomic projects ...
Aarti Desai, Veer Singh Marwah, Akshay Yadav, Vineet Jha, Kishor Dhaygude, Ujwala Bangar, Vivek Kulkarni, Abhay Jere   +7 more
doaj   +1 more source

The Most Frequently Used Sequencing Technologies and Assembly Methods in Different Time Segments of the Bacterial Surveillance and RefSeq Genome Databases

Frontiers in Cellular and Infection Microbiology, 2020
Whole genome sequencing has become a powerful tool in modern microbiology. Especially bacterial genomes are sequenced in high numbers. Whole genome sequencing is not only used in research projects, but also in surveillance projects and outbreak ...
Bo Segerman, Bo Segerman
doaj   +1 more source

AFLAP: assembly-free linkage analysis pipeline using k-mers from genome sequencing data

Genome Biology, 2021
Our assembly-free linkage analysis pipeline (AFLAP) identifies segregating markers as k-mers in the raw reads without using a reference genome assembly for calling variants and provides genotype tables for the construction of unbiased, high-density ...
Kyle Fletcher, Lin Zhang, Juliana Gil, Rongkui Han, Keri Cavanaugh, Richard Michelmore   +5 more
doaj   +1 more source

Capture of complete ciliate chromosomes in single sequencing reads reveals widespread chromosome isoforms

BMC Genomics, 2019
Background Whole-genome shotgun sequencing, which stitches together millions of short sequencing reads into a single genome, ushered in the era of modern genomics and led to a rapid expansion of the number of genome sequences available.
Kelsi A. Lindblad, Jananan S. Pathmanathan, Sandrine Moreira, John R. Bracht, Robert P. Sebra, Elizabeth R. Hutton, Laura F. Landweber   +6 more
doaj   +1 more source

In Silico Whole Genome Sequencer and Analyzer (iWGS): a Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies

G3: Genes, Genomes, Genetics, 2016
The availability of genomes across the tree of life is highly biased toward vertebrates, pathogens, human disease models, and organisms with relatively small and simple genomes.
Xiaofan Zhou, David Peris, Jacek Kominek, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas   +5 more
doaj   +1 more source

ABySS-Explorer: Visualizing Genome Sequence Assemblies [PDF]

IEEE Transactions on Visualization and Computer Graphics, 2009
One bottleneck in large-scale genome sequencing projects is reconstructing the full genome sequence from the short subsequences produced by current technologies. The final stages of the genome assembly process inevitably require manual inspection of data inconsistencies and could be greatly aided by visualization.
Cydney B. Nielsen, Shaun D. Jackman, Inanç Birol, Steven J. M. Jones   +3 more
openaire   +2 more sources

Long-read sequencing of the zebrafish genome reorganizes genomic architecture

BMC Genomics, 2022
Background Nanopore sequencing technology has revolutionized the field of genome biology with its ability to generate extra-long reads that can resolve regions of the genome that were previously inaccessible to short-read sequencing platforms.
Yelena Chernyavskaya, Xiaofei Zhang, Jinze Liu, Jessica Blackburn   +3 more
doaj   +1 more source

Development and validation of an rDNA operon based primer walking strategy applicable to de novo bacterial genome finishing.

Frontiers in Microbiology, 2015
Advances in sequencing technology have drastically increased the depth and feasibility of bacterial genome sequencing. However, little information is available that details the specific techniques and procedures employed during genome sequencing despite ...
Alexander William Eastman, Alexander William Eastman, Ze-Chun eYuan, Ze-Chun eYuan   +3 more
doaj   +1 more source

A pilot study for channel catfish whole genome sequencing and de novo assembly

BMC Genomics, 2011
Background Recent advances in next-generation sequencing technologies have drastically increased throughput and significantly reduced sequencing costs.
Jiang Yanliang, Lu Jianguo, Peatman Eric, Kucuktas Huseyin, Liu Shikai, Wang Shaolin, Sun Fanyue, Liu Zhanjiang   +7 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