Results 61 to 70 of about 2,597,991 (390)

A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome [PDF]

, 2015
Citation: Chapman, J. A., Mascher, M., Buluç, A., Barry, K., Georganas, E., Session, A., . . . Rokhsar, D. S. (2015). A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome. Genome Biology, 16(1). doi:10.1186/s13059-
A Graner, A Kovach, A Zimin, Adam Session, AR Hastie, AR Quinlan, Aydın Buluç, B Nystedt, C Alkan, C Feuillet, C Feuillet, C Saintenac, CR Cavanagh, CW Nossa, D Arend, Daniel S Rokhsar, E Paux, EK Khlestkina, EP Wilhelm, Evangelos Georganas, EW Myers, F Choulet, G Zhang, Gary J Muehlbauer, H Li, H Li, HQ Ling, I Birol, International Barley Genome Sequencing Consortium, International Rice Genome Sequencing P, International Wheat Genome Sequencing Consortium, J Dolezel, J Jia, J Jurka, J Oeveren van, JA Chapman, JA Poland, Jarrod A Chapman, JC Venter, Jeremy Schmutz, Jerry Jenkins, Jesse A Poland, JJ Smith, JL Weber, K Arumuganathan, K Devos, K Mochida, Katherine A Yelick, KD Pruitt, Kerrie Barry, KR Bradnam, KS Caldwell, L Ramsay, Leonid Oliker, LG Neves, LJ Williams, M Mascher, M Mascher, M Mascher, M Mascher, M Muñoz-Amatriaín, M-C Luo, Martin Mascher, ME Sorrells, MJ Truco, MW Hahn, N Poursarebani, Nils Stein, P Green, PS Schnable, R Brenchley, R Flavell, Robbie Waugh, SF Altschul, SF Altschul, Sunish Sehgal, T Belova, The Mouse Genome Sequencing Consortium, Uwe Scholz, Veronika Strnadova, X Wang, X Xu, Y Wu, Z Zhang   +83 more
core   +5 more sources

JTK: targeted diploid genome assembler

Bioinformatics, 2023
Abstract Motivation Diploid assembly, or determining sequences of homologous chromosomes separately, is essential to elucidate genetic differences between haplotypes. One approach is to call and phase single nucleotide variants (SNVs) on a reference sequence. However, this approach becomes unstable on
Bansho Masutani, Yoshihiko Suzuki, Yuta Suzuki, Shinichi Morishita   +3 more
openaire   +2 more sources

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

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

Chromosome-level genome assembly reveals homologous chromosomes and recombination in asexual rotifer Adineta vaga

Science Advances, 2021
High-quality genome assembly of ancient asexual rotifer reveals homologous chromosomes that frequently recombine.
Paul Simion, Jitendra Narayan, A. Houtain, Alessandro Derzelle, Lyam Baudry, Emilien Nicolas, R. Arora, M. Cariou, C. Cruaud, F. Gaudray, C. Gilbert, Nadège Guiglielmoni, B. Hespeels, Djampa K. L. Kozlowski, K. Labadie, A. Limasset, M. Llirós, M. Marbouty, Matthieu Terwagne, J. Virgo, Richard Cordaux, E. G. Danchin, B. Hallet, R. Koszul, T. Lenormand, Jean‐François Flot, K. Van Doninck   +26 more
semanticscholar   +1 more source

OMSim : a simulator for optical map data [PDF]

, 2017
Motivation: The Bionano Genomics platform allows for the optical detection of short sequence patterns in very long DNA molecules (up to 2.5 Mbp). Molecules with overlapping patterns can be assembled to generate a consensus optical map of the entire ...
Audenaert, Pieter, Fostier, Jan, Miclotte, Giles, Plaisance, Stéphane, Rombauts, Stephane, Van de Peer, Yves   +5 more
core   +2 more sources

Improvement of the ayu (Plecoglossus altivelis) draft genome using Hi-C sequencing

BMC Research Notes, 2023
Objective The ayu or sweetfish Plecoglossus altivelis is ray-finned fish that is widely distributed in East Asia. The genome size of ayu was estimated at approximately 420 Mb.
Masatoshi Nakamoto, Takashi Sakamoto
doaj   +1 more source

Improved chromosome-level genome assembly and annotation of the seagrass, Zostera marina (eelgrass)

F1000Research, 2021
Background: Seagrasses (Alismatales) are the only fully marine angiosperms. Zostera marina (eelgrass) plays a crucial role in the functioning of coastal marine ecosystems and global carbon sequestration.
Xiao Ma, J. Olsen, T. Reusch, G. Procaccini, D. Kudrna, Melissa Williams, J. Grimwood, Shanmugam Rajasekar, J. Jenkins, J. Schmutz, Y. Van de Peer   +10 more
semanticscholar   +1 more source

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds [PDF]

Science, 2016
Hi-C for mosquito genomes Most genomes sequenced today are determined through the generation of short sequenced bits of DNA that are computationally pieced together like a jigsaw puzzle. This has resulted in the need for funds and additional data to fill
O. Dudchenko, S. Batra, Arina D. Omer, Sarah K Nyquist, Marie Hoeger, Neva C. Durand, M. Shamim, Ido Machol, E. Lander, A. P. Aiden, Erez Lieberman Aiden   +10 more
semanticscholar   +1 more source

Draft Genome Sequence of Kocuria sp. Strain UCD-OTCP (Phylum Actinobacteria). [PDF]

, 2013
Here, we present the draft genome of Kocuria sp. strain UCD-OTCP, a member of the phylum Actinobacteria, isolated from a restaurant chair cushion.
Coil, David A, Darling, Aaron E, Doctor, Jessica I, Eisen, Jonathan A, Lang, Jenna M   +4 more
core   +1 more source