Results 11 to 20 of about 4,090,293 (192)

Optical mapping as a routine tool for bacterial genome sequence finishing [PDF]

BMC Genomics, 2007
Background In sequencing the genomes of two Xenorhabdus species, we encountered a large number of sequence repeats and assembly anomalies that stalled finishing efforts.
Gaudriault Sophie, Forst Steve, Du Zijin, Darby Creg, Bode Helge B, Barbazuk Brad, Miller Nancy, Henkhaus John, Goldman Barry S, Norton Stacie, Latreille Phil, Goodner Brad, Goodrich-Blair Heidi, Slater Steven   +13 more
doaj   +2 more sources

Validation of rice genome sequence by optical mapping [PDF]

BMC Genomics, 2007
Background Rice feeds much of the world, and possesses the simplest genome analyzed to date within the grass family, making it an economically relevant model system for other cereal crops. Although the rice genome is sequenced, validation and gap closing
Pape Louise, Churas Chris P, Place Michael, Bechner Michael C, Zhou Shiguo, Leong Sally A, Runnheim Rod, Forrest Dan K, Goldstein Steve, Livny Miron, Schwartz David C   +10 more
doaj   +3 more sources

Rapid whole genome optical mapping of Plasmodium falciparum [PDF]

Malaria Journal, 2011
Background Immune evasion and drug resistance in malaria have been linked to chromosomal recombination and gene copy number variation (CNV). These events are ideally studied using comparative genomic analyses; however in malaria these analyses are not as
Johnson Jake D, Kirkup Benjamin C, Riley Matthew C, Lesho Emil P, Ockenhouse Christian F   +4 more
doaj   +3 more sources

Whole-genome shotgun optical mapping of rhodospirillumrubrum [PDF]

Applied and Environmental Microbiology, 2004
Rhodospirillum rubrum is a phototrophic purple non-sulfur bacterium known for its unique and well-studied nitrogen fixation and carbon monoxide oxidation systems, and as a source of hydrogen and biodegradable plastics production.
Briska, Adam, Zhou, S., Briska, A., Lapidus, Alla, Lim, Alex, Goldstein, S., Roberts, Gary P., Zhang, Y., Goldstein, Steve, Zhou, Shiguo, Han, Cliff S., Reslewic, Susan, Runnheim, Rod, Schwartz, David C., Zhang, Yaoping, Runnheim, R., Forrest,Dan, Reslewic, S., Lim, A., Place, M., Roberts, G. P., Han, C. S., Forrest, D., Lapidus, A., Schwartz, D. C., Schwartz,David C., Churas, C., Place, Mike, Forrest, Dan, Churas, Chris   +29 more
core   +6 more sources

Optical mapping of the Mycobacterium avium subspecies paratuberculosis genome [PDF]

BMC Genomics, 2009
Background Infection of cattle with Mycobacterium avium subspecies paratuberculosis (M. ap) causes severe economic losses to the dairy industry in the USA and worldwide. In an effort to better examine diversity among M.
Schwartz David C, Zhou Shiguo, Schramm Timothy M, Wu Chia-wei, Talaat Adel M   +4 more
doaj   +3 more sources

Optical genome mapping identified deletions, inversions, and insertions in hemophilia [PDF]

Blood Advances
Boyan Liu, Lu Zhou, Lijuan Cao, Haoning Liu, Laigen Tong, Zichan Zhang, Hongjie Shen, Changgeng Ruan, Yafeng Zhou, Miao Jiang   +9 more
doaj   +4 more sources

Optical mapping in plant comparative genomics [PDF]

GigaScience, 2015
Optical mapping has been widely used to improve de novo plant genome assemblies, including rice, maize, Medicago, Amborella, tomato and wheat, with more genomes in the pipeline. Optical mapping provides long-range information of the genome and can more easily identify large structural variations.
Tang, Haibao, Lyons, Eric, Town, Christopher D   +2 more
openaire   +2 more sources

Sequencing and Optical Genome Mapping for the Adventurous Chemist

Chemical & Biomedical Imaging
This review provides a comprehensive overview of the chemistries and workflows of the sequencing methods that have been or are currently commercially available, providing a very brief historical introduction to each method. The main optical genome mapping approaches are introduced in the same manner, although only a subset of these are or have ever ...
Elizabete Ruppeka Rupeika, Laurens D’Huys, Volker Leen, Johan Hofkens   +3 more
doaj   +4 more sources

Unveiling genomic rearrangements in engineered iPSC lines by optical genome mapping. [PDF]

Mol Ther Methods Clin Dev
ABSTRACT We demonstrate here the use of optical genome mapping (OGM) to detect genetic alterations arising from gene editing by various technologies in human induced pluripotent stem cells (iPSCs). OGM enables an unbiased and comprehensive analysis of the entire genome, allowing the detection of genomic structural variants (SVs) of all ...
Finlay D, Hor P, Goldenson BH, Li XH, Murad R, Kaufman DS, Vuori K.   +6 more
europepmc   +5 more sources

OMGS: Optical Map-based Genome Scaffolding [PDF]

Journal of Computational Biology, 2019
Abstract Due to the current limitations of sequencing technologies, de novo genome assembly is typically carried out in two stages, namely contig (sequence) assembly and scaffolding.
Weihua Pan, Tao Jiang 0001, Stefano Lonardi   +2 more
openaire   +5 more sources