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genomics
41 downloads
70 views

Comparing inferences among datasets generated using short read sequencing may provide insight into the concerted effects of evolutionary processes across organisms, but comparisons are complicated by biases introduced during dataset assembly. Sequence similarity...

["Bioinformatics","Evolutionary Studies","Genetics","Genomics","Molecular Biology"]
doi:10.7287/peerj.preprints.864v1
26 downloads
146 views

Background. Studies of ancestry are difficult in the tomato because it crosses with many wild relatives and species in the tomato clade that have diverged very recently. As a result, the phylogeny in relation to its closest relatives remains uncertain. By using...

["Agricultural Science","Bioinformatics","Evolutionary Studies","Genomics","Plant Science"]
doi:10.7717/peerj.793
24 downloads
24 views

Culex pipiens, an invasive mosquito and vector of West Nile virus in the US, has two morphologically indistinguishable forms that differ dramatically in behavior and physiology. Cx. pipiens form pipiens is primarily a bird-feeding temperate mosquito, while the...

["Entomology","Evolutionary Studies","Genomics","Taxonomy"]
doi:10.7717/peerj.807
15 downloads
131 views

CITED1 is a non-DNA binding transcriptional co-regulator whose expression can distinguish the ‘proliferative’ from ‘invasive’ signature in the phenotype-switching model of melanoma. We have found that, in addition to other ‘proliferative’ signature genes, CITED1...

["Bioinformatics","Cell Biology","Genomics","Molecular Biology"]
doi:10.7717/peerj.788
8 downloads
66 views

BACKGROUND: Kidney transplantation is the treatment of choice for most patients with end-stage renal disease and existing data suggest that post transplant graft function is a predictor of kidney graft failure. METHODS: Exome sequencing of DNA from kidney graft...

["Genomics","Immunology","Nephrology"]
doi:10.7287/peerj.preprints.854v1
51 downloads
71 views

In Drosophila melanogaster, the male-specific lethal (MSL) complex has been studied extensively for its role in upregulating male X-linked genes. Recent advances in high-throughput technologies have improved our understanding of how the MSL complex mediates dosage...

["Computational Biology","Genetics","Genomics"]
doi:10.7717/peerj.771
41 downloads
129 views

The post-genomic era is characterized by the direct acquisition and analysis of genomic data with many applications, including the enhancement of the understanding of microbial epidemiology and pathology. However, there are a number of molecular approaches to survey...

["Biodiversity","Evolutionary Studies","Genetics","Genomics","Epidemiology"]
doi:10.7717/peerj.761
23 downloads
88 views

The ability of Shiga toxin-producing Escherichia coli (STEC) to cause severe illness in humans is determined by multiple host factors and bacterial characteristics, including Shiga toxin (Stx) subtype. Given the link between Stx2a subtype and disease severity,...

["Bioinformatics","Genetics","Genomics","Microbiology"]
doi:10.7717/peerj.739
364 downloads
554 views

The whale shark (Rhincodon typus) has by far the largest body size of any elasmobranch (shark or ray) species and is therefore also the largest extant species of the paraphyletic assemblage commonly referred to as “fishes”. As both a phenotypic extreme and a member...

["Aquaculture, Fisheries and Fish Science","Bioinformatics","Genomics","Marine Biology","Immunology"]
doi:10.7287/peerj.preprints.837v1
15 downloads
27 views

Background: A major goal of RNA-Seq data analysis is to reconstruct the full set of gene transcripts expressed in a biological sample in order to quantify their expression levels. The process typically involves multiple steps including mapping short sequence reads...

["Bioinformatics","Genomics","Pediatrics"]
doi:10.7287/peerj.preprints.833v1
1,032 downloads
1,118 views

The sequencing, assembly, and basic analysis of microbial genomes, once a painstaking and expensive undertaking, has become almost trivial for research labs with access to standard molecular biology and computational tools. However, there are a wide variety of...

["Bioinformatics","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.453v2
49 downloads
259 views

Many biological processes depend on very few copies of intervening elements, which makes such processes particularly susceptible to the stochastic fluctuations of these elements. The intrinsic stochasticity of certain processes is propagated across biological levels,...

["Evolutionary Studies","Genetics","Genomics"]
doi:10.7717/peerj.750
156 downloads
868 views

Filamentous cells belonging to the candidate bacterial phylum KSB3 were previously identified as the causative agent of fatal filament overgrowth (bulking) in a high-rate industrial anaerobic wastewater treatment bioreactor. Here, we obtained near complete genomes...

["Biodiversity","Biotechnology","Genomics","Microbiology","Taxonomy"]
doi:10.7717/peerj.740
56 downloads
105 views

The genetic code defines the relationship between a protein and its coding DNA sequence. It was presumed that most frameshifts would yield non-functional, truncated or cytotoxic products. In this study, we report that in E. coli, a frameshift β-lactamase (bla)...

["Computational Biology","Evolutionary Studies","Genetics","Genomics","Molecular Biology"]
doi:10.7287/peerj.preprints.806v1
28 downloads
17 views

Selenoprotein P (SEPP1) distributes selenium (Se) throughout the body via the circulatory system. The Se content of SEPP1 varies from 7 to 18 Se atoms depending on the species, but the reason for this variation remains unclear. Herein we provide evidence that vertebrate...

["Evolutionary Studies","Genomics","Nutrition"]
doi:10.7287/peerj.preprints.784v1

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