[HTML][HTML] Advances in optical mapping for genomic research
Recent advances in optical mapping have allowed the construction of improved genome
assemblies with greater contiguity. Optical mapping also enables genome comparison and …
assemblies with greater contiguity. Optical mapping also enables genome comparison and …
PerFSeeB: designing long high-weight single spaced seeds for full sensitivity alignment with a given number of mismatches
V Titarenko, S Titarenko - BMC bioinformatics, 2023 - Springer
Background Technical progress in computational hardware allows researchers to use new
approaches for sequence alignment problems. For a given sequence, we usually use …
approaches for sequence alignment problems. For a given sequence, we usually use …
Fast genomic optical map assembly algorithm using binary representation
P Stawczyk, R Nowak - arXiv preprint arXiv:2210.06865, 2022 - arxiv.org
Reducing the cost of sequencing genomes provided by next-generation sequencing
technologies has greatly increased the number of genomic projects. As a result, there is a …
technologies has greatly increased the number of genomic projects. As a result, there is a …
Space-efficient indexing of spaced seeds for accurate overlap computation of raw optical mapping data
A key problem in processing raw optical mapping data (Rmaps) is finding Rmaps originating
from the same genomic region. These sets of related Rmaps can be used to correct errors in …
from the same genomic region. These sets of related Rmaps can be used to correct errors in …
[PDF][PDF] Improving Contiguity and Accuracy in Genome Assembly.
R Walve - 2023 - helda.helsinki.fi
Though genome analysis is used in other places, understanding the effects genes have on
humans is arguably its most significant use. A fundamental roadblock to genome analysis is …
humans is arguably its most significant use. A fundamental roadblock to genome analysis is …
Finding Overlapping Rmaps via Clustering
K Mukherjee, D Dole-Muinos, M Rossi… - IEEE/ACM …, 2021 - ieeexplore.ieee.org
Optical mapping is a method for creating high resolution restriction maps of an entire
genome. Optical mapping has been largely automated, and first produces single molecule …
genome. Optical mapping has been largely automated, and first produces single molecule …
Determining optical mapping errors by simulations
Motivation Optical mapping is a complementary technology to traditional DNA sequencing
technologies, such as next-generation sequencing (NGS). It provides genome-wide, high …
technologies, such as next-generation sequencing (NGS). It provides genome-wide, high …
Finding Overlapping Rmaps via Gaussian Mixture Model Clustering
K Mukherjee, M Rossi, D Dole-Muinos, A Ajayi… - bioRxiv, 2021 - biorxiv.org
Optical mapping is a method for creating high resolution restriction maps of an entire
genome. Optical mapping has been largely automated, and first produces single molecule …
genome. Optical mapping has been largely automated, and first produces single molecule …
Algorithms for Single-Molecule Optical Maps
K Mukherjee - 2021 - search.proquest.com
Optical maps are high resolution restriction maps that give a unique numeric representation
to a genome. Used in concert with sequence reads, they provide a useful tool for genome …
to a genome. Used in concert with sequence reads, they provide a useful tool for genome …
Assembly of Two CCDD Rice Genomes, Oryza grandiglumis and Oryza latifolia, and the Study of Their Evolutionary Changes
AO Alsantely - 2021 - repository.kaust.edu.sa
Every day more than half of the world consumes rice as a primary dietary resource. Thus,
rice is one of the most important food crops in the world. Rice and its wild relatives are part of …
rice is one of the most important food crops in the world. Rice and its wild relatives are part of …