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Illuminating an ecological blackbox: using high throughput sequencing to characterize the plant virome across scales
F Maclot, T Candresse, D Filloux… - Frontiers in …, 2020 - frontiersin.org
The ecology of plant viruses began to be explored at the end of the 19th century. Since then,
major advances have revealed mechanisms of virus-host-vector interactions in various …
major advances have revealed mechanisms of virus-host-vector interactions in various …
A benchmark study of k-mer counting methods for high-throughput sequencing
SC Manekar, SR Sathe - GigaScience, 2018 - academic.oup.com
The rapid development of high-throughput sequencing technologies means that hundreds of
gigabytes of sequencing data can be produced in a single study. Many bioinformatics tools …
gigabytes of sequencing data can be produced in a single study. Many bioinformatics tools …
Gerbil: a fast and memory-efficient k-mer counter with GPU-support
M Erbert, S Rechner, M Müller-Hannemann - Algorithms for Molecular …, 2017 - Springer
Background A basic task in bioinformatics is the counting of k-mers in genome sequences.
Existing k-mer counting tools are most often optimized for small k< 32 and suffer from …
Existing k-mer counting tools are most often optimized for small k< 32 and suffer from …
[HTML][HTML] Convergent and lineage-specific genomic differences in limb regulatory elements in limbless reptile lineages
Loss of limbs evolved many times in squamate reptiles. Here we investigated the genomic
basis of convergent limb loss in reptiles. We sequenced the genomes of a closely related …
basis of convergent limb loss in reptiles. We sequenced the genomes of a closely related …
Alignment-free inference of hierarchical and reticulate phylogenomic relationships
We are amidst an ongoing flood of sequence data arising from the application of high-
throughput technologies, and a concomitant fundamental revision in our understanding of …
throughput technologies, and a concomitant fundamental revision in our understanding of …
Kourami: graph-guided assembly for novel human leukocyte antigen allele discovery
Accurate ty** of human leukocyte antigen (HLA) is important because HLA genes play
important roles in immune responses and disease genesis. Previously available …
important roles in immune responses and disease genesis. Previously available …
Phenotype loss is associated with widespread divergence of the gene regulatory landscape in evolution
Detecting the genomic changes underlying phenotypic changes between species is a main
goal of evolutionary biology and genomics. Evolutionary theory predicts that changes in cis …
goal of evolutionary biology and genomics. Evolutionary theory predicts that changes in cis …
Advances in long-read single-cell transcriptomics
Long-read single-cell transcriptomics (scRNA-Seq) is revolutionizing the way we profile
heterogeneity in disease. Traditional short-read scRNA-Seq methods are limited in their …
heterogeneity in disease. Traditional short-read scRNA-Seq methods are limited in their …
[PDF][PDF] Computational errors and biases in short read next generation sequencing
I Abnizova, R te Boekhorst, YL Orlov - J Proteomics Bioinform, 2017 - academia.edu
Proteomics & Bioinformatics Page 1 Research Article Review Article Irina et al., J Proteomics
Bioinform 2017, 10:1 DOI: 10.4172/jpb.1000420 Journal of Proteomics & Bioinformatics Jou rn …
Bioinform 2017, 10:1 DOI: 10.4172/jpb.1000420 Journal of Proteomics & Bioinformatics Jou rn …
Dynamics of soil microbial communities involved in carbon cycling along three successional forests in southern China
M Hu, S Zhou, X **ong, X Wang, Y Sun… - Frontiers in …, 2024 - frontiersin.org
Dynamics of plant communities during forest succession have been received great attention
in the past decades, yet information about soil microbial communities that are involved in …
in the past decades, yet information about soil microbial communities that are involved in …