Results 21 to 30 of about 452,095 (265)

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

Assembler for de novo assembly of large genomes [PDF]

Proceedings of the National Academy of Sciences, 2013
Significance Assembling a large genome faces three challenges: assembly quality, computer memory requirement, and execution time. Our developed assembler, JR-Assembler, uses ( a ) a strategy that selects good seeds for contig construction, ( b
Te-Chin, Chu, Chen-Hua, Lu, Tsunglin, Liu, Greg C, Lee, Wen-Hsiung, Li, Arthur Chun-Chieh, Shih   +5 more
openaire   +2 more sources

Comparison of whole genome assemblies of the human genome [PDF]

Nucleic Acids Research, 2002
A fundamental problem in the human genome project is uncovering the correct assembly of the human genome. Many studies, including transcriptional analysis, SNP detection and characterization, gene finding and EST clustering, use genome assemblies as templates so it is important to determine the consistency among the various whole genome assemblies.
Eric C, Rouchka, Warren, Gish, David J, States   +2 more
openaire   +2 more sources

Improvements in the sequencing and assembly of plant genomes

GigaByte, 2021
Advances in DNA sequencing have made it easier to sequence and assemble plant genomes. Here, we extend an earlier study, and compare recent methods for long read sequencing and assembly.
Priyanka Sharma , Othman Al-Dossary , Bader Alsubaie , Ibrahim Al-Mssallem , Onkar Nath , Neena Mitter , Gabriel Rodrigues Alves Margarido , Bruce Topp , Valentine Murigneux , Ardashir Kharabian Masouleh , Agnelo Furtado , Robert J. Henry   +11 more
doaj   +1 more source

Integrating genome assemblies with MAIA [PDF]

Bioinformatics, 2010
Abstract Motivation:  De novo assembly of a eukaryotic genome with next-generation sequencing data is still a challenging task. Over the past few years several assemblers have been developed, often suitable for one specific type of sequencing data.
Jurgen F. Nijkamp, Wynand Winterbach, Marcel van den Broek, Jean-Marc Daran, Marcel J. T. Reinders, Dick de Ridder   +5 more
openaire   +4 more sources

PACVr: plastome assembly coverage visualization in R

BMC Bioinformatics, 2020
Background Plastid genomes typically display a circular, quadripartite structure with two inverted repeat regions, which challenges automatic assembly procedures.
Michael Gruenstaeudl, Nils Jenke
doaj   +1 more source

On the sequencing and assembly of the human genome [PDF]

Proceedings of the National Academy of Sciences, 2002
On June 26, 2000, Celera Genomics and the International Human Genome Sequencing Consortium (HGSC) announced at the White House the completion of the first assembly of the human genome and the completion of a rough draft, respectively. In February of 2001, the two teams simultaneously published their analyses of the genome sequences generated (1, 2 ...
Eugene W, Myers, Granger G, Sutton, Hamilton O, Smith, Mark D, Adams, J Craig, Venter   +4 more
openaire   +2 more sources

LazyB: fast and cheap genome assembly [PDF]

Algorithms for Molecular Biology, 2021
Abstract Background Advances in genome sequencing over the last years have lead to a fundamental paradigm shift in the field. With steadily decreasing sequencing costs, genome projects are no longer limited by the cost of raw sequencing data, but rather by computational problems associated with genome assembly.
Thomas Gatter, Sarah von Löhneysen, Jörg Fallmann, Polina Drozdova, Tom Hartmann, Peter F. Stadler   +5 more
openaire   +4 more sources

A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)

Scientific Data, 2023
As plentiful high-quality genome assemblies have been accumulated, reference-guided genome assembly can be a good approach to reconstruct a high-quality assembly.
Daehong Kwon, Nayoung Park, Suyeon Wy, Daehwan Lee, Han-Ha Chai, In-Cheol Cho, Jongin Lee, Kisang Kwon, Heesun Kim, Youngbeen Moon, Juyeon Kim, Woncheoul Park, Jaebum Kim   +12 more
doaj   +1 more source

The genome sequence of Inga leiocalycina Benth. [version 1; peer review: 2 approved]

Wellcome Open Research
We present a genome assembly from an individual of Inga leiocalycina (Streptophyta; Magnoliopsida; Fabales; Fabaceae). The genome sequence has a total length of 948.00 megabases. Most of the assembly is scaffolded into 13 chromosomal pseudomolecules. The
R. Toby Pennington, Catherine Kidner, Rowan J. Schley, Alex D. Twyford, Kyle G. Dexter, Todd P. Michael   +5 more
doaj   +1 more source