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Computational CPU-GPU Template for Pre-processing of Floating-Point MS Data
The data from MS spectra is usually stored as short list of numbers. To process these spectra, more often than not, one has to “see” inside the data...
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Biogeography of the Living Lymnaeidae
The distribution of the recent Lymnaeidae across continents and zoogeographical regions of the world is reviewed, with a brief characteristic of the...
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Phylogeny and Taxonomy of the Family Lymnaeidae
A new three-locus (COI + 16S rRNA +28S rRNA) phylogeny of the living representatives of the family Lymnaeidae, which covers the majority of recent...
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The Potential Role of Medicinal Plants, Traditional Herbal Medicines, and Formulations to Overcome SARS-CoV-2 Induced Health Crisis
Since December 2019, the infection of Severe Acute Respiratory Syndrome-related Coronavirus 2 (SARS-CoV-2), also known as novel coronavirus, has been...
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Reproductive Strategies, Genetic Diversity, and Invasive Ability in Lymnaeidae
Lymnaeid snails are simultaneous hermaphrodites that have a worldwide distribution, inhabiting freshwater areas from almost all continents ranging...
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Multiallelic Maximal Perfect Haplotype Blocks with Wildcards via PBWT
Computing maximal perfect blocks of a given panel of haplotypes is a crucial task for efficiently solving problems such as polyploid haplotype...
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Suffix sorting via matching statistics
We introduce a new algorithm for constructing the generalized suffix array of a collection of highly similar strings. As a first step, we construct a...
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Indexing and searching petabase-scale nucleotide resources
Searching vast and rapidly growing nucleotide content in resources, such as runs in the Sequence Read Archive and assemblies for whole-genome shotgun...
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Transgenerational expression profiles of a sex related and an epigenetic control gene in the rotifer Brachionus plicatilis in relation to environmental predictability
A non-genetic transgenerational inhibitory effect on sexual reproduction has been demonstrated in Brachionus plicatilis in relation to environmental...
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Literature based discovery of alternative TCM medicine for adverse reactions to depression drugs
BackgroundIn recent years, Traditional Chinese Medicine (TCM) and alternative medicine have been widely used along with western drugs as a...
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Scalable, ultra-fast, and low-memory construction of compacted de Bruijn graphs with Cuttlefish 2
The de Bruijn graph is a key data structure in modern computational genomics, and construction of its compacted variant resides upstream of many...
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A review: structure–activity relationship between saponins and cellular immunity
Saponins, which exhibit many different biological and pharmacological activities, are present in a wide range of plant species and in some marine...
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Cultural Patterns of Soil Cultivation in Europe 2: Monotheistic Context
Early moves towards monotheism were documented in Greece in the 6th century BCE. At the time, this was combined with a philosophy of humans made of...
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Therapeutic potential of autophagy activators and inhibitors in lung and breast cancer- a review
Autophagy is a cellular process that eliminates damaged components of cytoplasm via the lysosome. Autophagy supports cells and tissues to remain...
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Pulchinenoside B4 ameliorates oral ulcers in rats by modulating gut microbiota and metabolites
AbstractPulchinenoside B4, a natural saponin monomer from the Pulsatilla plant, plays an important role as an immunomodulator in the treatment of...
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Quantitative Proteome Data Analysis of Tandem Mass Tags Labeled Samples
In mass spectrometry-based proteomics, relative quantitative approaches enable differential protein abundance analysis. Isobaric labeling strategies,...
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A survey on de novo assembly methods for single-molecular sequencing
BackgroundThe single-molecular sequencing (SMS) is under rapid development and generating increasingly long and accurate sequences. De novo assembly...
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Strobealign: flexible seed size enables ultra-fast and accurate read alignment
Read alignment is often the computational bottleneck in analyses. Recently, several advances have been made on seeding methods for fast sequence...
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HGGA: hierarchical guided genome assembler
BackgroundDe novo genome assembly typically produces a set of contigs instead of the complete genome. Thus additional data such as genetic linkage...
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Population Components of Pests
Understanding the population dynamics of pests is crucial in agricultural pest management. This book chapter, "Population Components of Pests,"...