Results 41 to 50 of about 8,328,477 (294)

Utility of long-read sequencing for All of Us

Nature Communications, 2023
Abstract The All of Us (AoU) initiative aims to sequence the genomes of over one million Americans from diverse ethnic backgrounds to improve personalized medical care. In a recent technical pilot, we compare the performance of traditional short-read sequencing with long-read sequencing in a small cohort of samples from the HapMap ...
M. Mahmoud, Y. Huang, K. Garimella, P. A. Audano, W. Wan, N. Prasad, R. E. Handsaker, S. Hall, A. Pionzio, M. C. Schatz, M. E. Talkowski, E. E. Eichler, S. E. Levy, F. J. Sedlazeck   +13 more
openaire   +4 more sources

Sequencing output of short- and long-read RNA-seq.

, 2023
Sequencing output of short- and long-read RNA-seq.
Johnathon M. Hall (8431497), Alexander J. Ruthenburg (4585114), Amoldeep S. Kainth (17291225), Gabriela A. Haddad (17291228)   +3 more
core   +1 more source

Long-read sequencing data analysis for yeasts [PDF]

Nature Protocols, 2018
Long-read sequencing technologies have become increasingly popular due to their strengths in resolving complex genomic regions. As a leading model organism with small genome size and great biotechnological importance, the budding yeast Saccharomyces cerevisiae has many isolates currently being sequenced with long reads.
Yue, Jia-Xing, Liti, Gianni
openaire   +3 more sources

Long-read sequence and assembly of segmental duplications [PDF]

Nature Methods, 2018
We have developed a computational method based on polyploid phasing of long sequence reads to resolve collapsed regions of segmental duplications within genome assemblies. Segmental Duplication Assembler (SDA; https://github.com/mvollger/SDA ) constructs graphs in which paralogous sequence variants define the nodes and long-read sequences provide ...
Mitchell R. Vollger, Philip C. Dishuck, Melanie Sorensen, AnneMarie E. Welch, Vy Dang, Max L. Dougherty, Tina A. Graves-Lindsay, Richard K. Wilson, Mark J. P. Chaisson, Evan E. Eichler   +9 more
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Long-read sequencing provides uniform coverage across deletion-prone region in the virus genome.

, 2022
Panel A shows the percentage of the virus genome mapped sequencing reads (A) and virus genome fraction covered with Nanopore sequencing data (B), in the positive control (VR1986D ATCC SARS-CoV-2 RNA).
Li Chen (5749), Lora V. Hooper (9645168), Jeffrey SoRelle (11944587), Chaoying Liang (9666165), Jinchun Zhou (425820), Brandi Cantarel (3566111), Bo Zhang (6559), Carlos Arana (9666168), Matthew Brock (11510734), Prithvi Raj (6635063)   +9 more
core   +1 more source

FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS [PDF]

, 2021
Sequencing technologies have evolved dramatically since the first two bacterial genomes were published. Currently, due to second generation sequencing, millions of bacterial genomic sequences exist, although a significantly smaller amount represent ...
Amada El-Sabeh, El-Sabeh, Amada
core   +1 more source

Long-read sequence assembly of the gorilla genome [PDF]

Science, 2016
Improving on the gorilla genome Access to complete, high-quality genomes of nonhuman primates will also help us understand human biology. Gordon et al. used long-read sequencing technology to improve genome data on our close relative the gorilla.
Gordon, David, Huddleston, John, Chaisson, Mark JP, Hill, Christopher M, Kronenberg, Zev N, Munson, Katherine M, Malig, Maika, Raja, Archana, Fiddes, Ian, Hillier, LaDeana W, Dunn, Christopher, Baker, Carl, Armstrong, Joel, Diekhans, Mark, Paten, Benedict, Shendure, Jay, Wilson, Richard K, Haussler, David, Chin, Chen-Shan, Eichler, Evan E   +19 more
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LongQC: A Quality Control Tool for Third Generation Sequencing Long Read Data [PDF]

, 2019
We propose LongQC as an easy and automated quality control tool for genomic datasets generated by third generation sequencing (TGS) technologies such as Oxford Nanopore technologies (ONT) and SMRT sequencing from Pacific Bioscience (PacBio).
Yoshinori Fukasawa, Carty, K., Luca Ermini, Ermini, Luca, Fukasawa, Yoshinori, Wang, H., Min-Sin Cheung, Karen Carty, Wang, Hai, Hai Wang, Cheung, M. -S., Cheung, Ming Sin, Fukasawa, Y., Ermini, L., Carty, Karen   +14 more
core   +2 more sources

Long-Read Sequencing for the Metagenomic Analysis of Microbiomes

BioTechniques, 2023
One technology, long-read sequencing, and one research field, microbiome studies, have risen to prominence over the last decade. But how can one be used in the other? What changes are being wrought? And what limitations remain? [Graphic: see text]
openaire   +2 more sources

lra: A long read aligner for sequences and contigs

PLOS Computational Biology, 2021
It is computationally challenging to detect variation by aligning single-molecule sequencing (SMS) reads, or contigs from SMS assemblies. One approach to efficiently align SMS reads is sparse dynamic programming (SDP), where optimal chains of exact matches are found between the sequence and the genome.
Jingwen Ren, Mark J. P. Chaisson
openaire   +5 more sources