Results 31 to 40 of about 383,643 (254)
Long-read sequence and assembly of segmental duplications [PDF]
Nature Methods, 2018 We have developed a computational method based on polyploid phasing of long sequence reads to resolve collapsed regions of segmental duplications within genome assemblies. Segmental Duplication Assembler (SDA; https://github.com/mvollger/SDA ) constructs graphs in which paralogous sequence variants define the nodes and long-read sequences provide ...
Mitchell R. Vollger +9 more
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long-read-tools.org: an interactive catalogue of analysis methods for long-read sequencing data [PDF]
GigaScience, 2021 Abstract Background The data produced by long-read third-generation sequencers have unique characteristics compared to short-read sequencing data, often requiring tailored analysis tools for tasks ranging from quality control to downstream processing.
Shanika L Amarasinghe +2 more
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lra: A long read aligner for sequences and contigs
PLOS Computational Biology, 2021 It is computationally challenging to detect variation by aligning single-molecule sequencing (SMS) reads, or contigs from SMS assemblies. One approach to efficiently align SMS reads is sparse dynamic programming (SDP), where optimal chains of exact matches are found between the sequence and the genome.
Jingwen Ren, Mark J. P. Chaisson
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Long-read sequence assembly of the gorilla genome [PDF]
Science, 2016 Improving on the gorilla genome Access to complete, high-quality genomes of nonhuman primates will also help us understand human biology. Gordon et al. used long-read sequencing technology to improve genome data on our close relative the gorilla.
Gordon, David +19 more
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Long-Read Sequencing for the Metagenomic Analysis of Microbiomes
BioTechniques, 2023 One technology, long-read sequencing, and one research field, microbiome studies, have risen to prominence over the last decade. But how can one be used in the other? What changes are being wrought? And what limitations remain? [Graphic: see text]
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FEBS Letters, EarlyView.We reconstituted Synechocystis glycogen synthesis in vitro from purified enzymes and showed that two GlgA isoenzymes produce glycogen with different architectures: GlgA1 yields denser, highly branched glycogen, whereas GlgA2 synthesizes longer, less‐branched chains.
Kenric Lee +3 more
wiley +1 more source
FEBS Letters, EarlyView.In this study, we found that human cervical‐derived adipocytes maintain intracellular iron level by regulating the expression of iron transport‐related proteins during adrenergic stimulation. Melanotransferrin is predicted to interact with transferrin receptor 1 based on in silico analysis.
Rahaf Alrifai +9 more
wiley +1 more source
Can long-read sequencing tackle the barriers, which the next-generation could not? A review
Pathology and Oncology ResearchThe large-scale heterogeneity of genetic diseases necessitated the deeper examination of nucleotide sequence alterations enhancing the discovery of new targeted drug attack points.
Nikolett Szakállas +6 more
doaj +1 more source
FEBS Letters, EarlyView.Embryo‐like structures (stembryos) are an innovative tool, but they are hindered by experimental variability and limited developmental potential. DNA methylation is crucial for mammalian development, but its status in stembryo models is poorly characterized.
Sara Canil +4 more
wiley +1 more source
Streamlining Quantitative Analysis of Long RNA Sequencing Reads [PDF]
International Journal of Molecular Sciences, 2020 Transcriptome analyses allow for linking RNA expression profiles to cellular pathways and phenotypes. Despite improvements in sequencing methodology, whole transcriptome analyses are still tedious, especially for methodologies producing long reads. Currently, available data analysis software often lacks cost- and time-efficient workflows.
Sebastian Oeck +3 more
openaire +5 more sources