Results 61 to 70 of about 10,955,529 (276)
Data structures based on k-mers for querying large collections of sequencing data sets
bioRxiv, 2019 High-throughput sequencing datasets are usually deposited in public repositories, e.g. the European Nucleotide Archive, to ensure reproducibility. As the amount of data has reached petabyte scale, repositories do not allow to perform online sequence ...
C. Marchet +5 more
semanticscholar +1 more source
Motor Evoked Potentials Improve Targeting in Deep Brain Stimulation Surgery
Neuromodulation: Technology at the Neural Interface, EarlyView., 2021 Abstract Objectives One of the main challenges posed by the surgical deep brain stimulation (DBS) procedure is the successful targeting of the structures of interest and avoidance of side effects, especially in asleep surgery. Here, intraoperative motor evoked potentials (MEPs) might serve as tool to identify the pyramidal tract.
Petyo Nikolov +7 more
wiley +1 more source
Probabilistic Models of k-mer Frequencies (Extended Abstract) [PDF]
, 2021 In this article, we review existing probabilistic models for modeling abundance of fixed-length strings (k-mers) in DNA sequencing data. These models capture dependence of the abundance on various phenomena, such as the size and repeat content of the genome, heterozygosity levels, and sequencing error rate.
Askar Gafurov +2 more
openaire +2 more sources
Indexing Arbitrary-Length k-Mers in Sequencing Reads
PLOS ONE, 2015 We propose a lightweight data structure for indexing and querying collections of NGS reads data in main memory. The data structure supports the interface proposed in the pioneering work by Philippe et al. for counting and locating $k$-mers in sequencing reads.
Tomasz Kowalski +2 more
openaire +5 more sources
Unique k-mers as Strain-Specific Barcodes for Phylogenetic Analysis and Natural Microbiome Profiling
International Journal of Molecular Sciences, 2020 The need for a comparative analysis of natural metagenomes stimulated the development of new methods for their taxonomic profiling. Alignment-free approaches based on the search for marker k-mers turned out to be capable of identifying not only species ...
V. Panyukov, S. Kiselev, O. Ozoline
semanticscholar +1 more source
BMC Genomics, 2015 The problem of supervised DNA sequence classification arises in several fields of computational molecular biology. Although this problem has been extensively studied, it is still computationally challenging due to size of the datasets that modern ...
R. Ounit +3 more
semanticscholar +1 more source
Annals of Clinical and Translational Neurology, EarlyView.ABSTRACT Mutations in myelin regulatory factor (MYRF) are linked to demyelinating disorders. We report a 38‐year‐old male who developed acute symmetric leukoencephalopathy mimicking a stroke following an influenza A virus infection. While clinical symptoms markedly improved with corticosteroids, MRI revealed persistent white matter lesions, contrasting
Jinghan Hu +5 more
wiley +1 more source
Association mapping from sequencing reads using k-mers
bioRxiv, 2017 Genome wide association studies (GWAS) rely on microarrays, or more recently mapping of whole-genome sequencing reads, to genotype individuals. The reliance on prior sequencing of a reference genome for the organism on which the association study is to ...
A. Rahman +3 more
semanticscholar +1 more source
Advanced Functional Materials, EarlyView.This review highlights recent advances in label‐free optical biosensors based on 2D materials and rationally designed mixed‐dimensional nanohybrids, emphasizing their synergistic effects and novel functionalities. It also discusses multifunctional sensing platforms and the integration of machine learning for intelligent data analysis.
Xinyi Li, Yonghao Fu, Yuehe Lin, Dan Du
wiley +1 more source
A random forest classifier for detecting rare variants in NGS data from viral populations
Computational and Structural Biotechnology Journal, 2017 We propose a random forest classifier for detecting rare variants from sequencing errors in Next Generation Sequencing (NGS) data from viral populations. The method utilizes counts of varying length of k-mers from the reads of a viral population to train
Raunaq Malhotra +3 more
doaj +1 more source