Results 221 to 230 of about 225,232 (252)

mapquik: Efficient low-divergence mapping of long reads in minimizer space

2022
AbstractDNA sequencing data continues to progress towards longer reads with increasingly lower sequencing error rates. We focus on the critical problem of mapping, or aligning, low-divergence sequences from long reads (PacBio HiFi) to a reference genome, which poses challenges in terms of accuracy and computational resources when using cutting-edge ...
Barış Ekim, Kristoffer Sahlin, Paul Medvedev, Bonnie Berger, Rayan Chikhi   +4 more
openaire   +1 more source

Accelerating the Next Generation Long Read Mapping with the FPGA-Based System

IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2014
To compare the newly determined sequences against the subject sequences stored in the databases is a critical job in the bioinformatics. Fortunately, recent survey reports that the state-of-the-art aligners are already fast enough to handle the ultra amount of short sequence reads in the reasonable time.
Peng, Chen, Chao, Wang, Xi, Li, Xuehai, Zhou   +3 more
openaire   +2 more sources

No-mapping mapping of Oxford Nanopore long reads

2023
Strzoda, Tomasz, Cruz-Garcia, Lourdes, Najim, Mustafa, Badie, Christophe, Polańska, Joanna   +4 more
openaire   +2 more sources

Chromosome-scale assemblies of plant genomes using nanopore long reads and optical maps

Nature Plants, 2018
Plant genomes are often characterized by a high level of repetitiveness and polyploid nature. Consequently, creating genome assemblies for plant genomes is challenging. The introduction of short-read technologies 10 years ago substantially increased the number of available plant genomes.
Belser, Caroline, Istace, Benjamin, Denis, Erwan, Dubarry, Marion, Baurens, Franc-Christophe, Falentin, Cyril, Genete, Mathieu, Berrabah, Wahiba, Chèvre, Anne-Marie, Delourme, Régine, Deniot, Gwenaëlle, Denoeud, France, Duffe, Philippe, Engelen, Stefan, Lemainque, Arnaud, Manzanares-Dauleux, Maria, Martin, Guillaume, Morice, Jérôme, Noel, Benjamin, Vekemans, Xavier, D’hont, Angelique, Rousseau-Gueutin, Mathieu, Barbe, Valérie, Cruaud, Corinne, Wincker, Patrick, Aury, Jean-Marc   +25 more
openaire   +5 more sources

Abstract 7026: Multi-omic genomic mapping with long read sequencing

Cancer Research
Abstract Gene transcription is regulated by the complex interplay between histone post-translational modifications (PTMs), chromatin associated proteins (CAPs), and DNA methylation (DNAme). Mapping their genomic locations and examining the relationships between these chromatin elements is a powerful approach to decipher mechanisms of ...
Bryan J. Venters, Paul W. Hook, Vishnu S. Kumary, Alli R. Hickman, James T. Anderson, Anup Vaidya, Ryan J. Ezell, Jonathan M. Burg, Zu-Wen Sun, Martis W. Cowles, Winston Timp, Michael-Christopher Keogh   +11 more
openaire   +1 more source

Long-Read Single-Molecule Optical Maps

2022
Assaf Grunwald, Yael Michaeli, Yuval Ebenstein   +2 more
openaire   +1 more source

Mapping genomic loci implicates genes and synaptic biology in schizophrenia

Nature, 2022
Vassily Trubetskoy, Antonio F Pardiñas, Georgia Panagiotaropoulou   +2 more
exaly  

Long-Read Low-Pass Sequencing for High-Resolution Trait Mapping

Accelerating crop improvement is critical to meeting food security demands in a changing climate. Long-read sequencing offers advantages over short-reads in resolving structural variations (SVs) and aligning to complex genomes, but its high cost has limited adoption in breeding programs.
Kendall C. Lee, Walid Korani, Philip C. Bentz, Sameer Pokhrel, Peggy Ozias-Akins, Alex Harkess, Justin Vaughn, Josh Clevenger   +7 more
openaire   +1 more source

Mapping the genomic diaspora of gastric cancer

Nature Reviews Cancer, 2021
Khay-Guan Yeoh, Patrick Tan
exaly  

A systemic approach to mapping participation with low-carbon energy transitions

Nature Energy, 2021
Jason Chilvers, Rob Bellamy, Helen Pallett   +2 more
exaly