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genomics
26 downloads
128 views

Comparing inferences among datasets generated using short read sequencing may provide insight into the concerted impacts of divergence, gene flow and selection across organisms, but comparisons are complicated by biases introduced during dataset assembly. Sequence...

["Bioinformatics","Evolutionary Studies","Genetics","Genomics","Molecular Biology"]
doi:10.7717/peerj.895
45 downloads
31 views

The Pan I locus in Atlantic cod lies in a genomic island of divergence extending over a large genomic region. The locus has two divergent alleles, defined by a single DraI restriction site, that have been related to behavioral differences of habitat selection by...

["Animal Behavior","Aquaculture, Fisheries and Fish Science","Evolutionary Studies","Genetics","Genomics"]
doi:10.7287/peerj.preprints.956v1
125 downloads
379 views

Stable associations between bacterial endosymbionts and insect hosts provide opportunities to explore genome evolution in the context of established mutualisms and assess the roles of selection and genetic drift across host lineages and habitats. Blochmannia, obligate...

["Evolutionary Studies","Genomics","Microbiology"]
doi:10.7717/peerj.881
185 downloads
669 views

Recently, a number of protocols extending RNA-sequencing to the single-cell regime have been published. However, we were concerned that the additional steps to deal with such minute quantities of input sample would introduce serious biases that would make analysis...

["Bioinformatics","Biotechnology","Computational Biology","Genomics"]
doi:10.7717/peerj.869
70 downloads
139 views

The perilipins are lipid droplet surface proteins that contribute to fat metabolism by controlling the access of lipids to lipolytic enzymes. Perilipins have been identified in organisms as diverse as metazoa, fungi, and amoebas but strikingly not in nematodes....

["Bioinformatics","Cell Biology","Genomics"]
doi:10.7287/peerj.preprints.904v2
91 downloads
376 views

Amplifications or deletions of genome segments, known as copy number variants (CNVs), have been associated with many diseases. Read depth analysis of next-generation sequencing (NGS) is an essential method of detecting CNVs. However, genome read coverage is frequently...

["Bioinformatics","Computational Biology","Genomics"]
doi:10.7717/peerj.836
100 downloads
210 views

Summary: HapFlow is a python application for visualising haplotypes present in high-throughput sequencing data. HapFlow identifies nucleotide variant profiles in raw read sequences and creates an abstract visual representation of these profiles to make haplotypes...

["Bioinformatics","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.895v1
1,022 downloads
7,049 views

Although brain imaging studies have demonstrated that listening to music alters human brain structure and function, the molecular mechanisms mediating those effects remain unknown. With the advent of genomics and bioinformatics approaches, these effects of music...

["Genetics","Genomics"]
doi:10.7717/peerj.830
104 downloads
131 views

Alternative splicing enables a single gene to produce multiple mRNA isoforms by varying splice site selection. In animals, alternative splicing of mRNA isoforms between cell types is widespread and supports cellular differentiation. In plants, at least 20% of multi-exon...

["Agricultural Science","Bioinformatics","Genomics","Molecular Biology","Plant Science"]
doi:10.7287/peerj.preprints.594v2
52 downloads
366 views

Calorie restriction is known to extend lifespan among organisms by a debating mechanism underlying nitric oxide-driven mitochondrial biogenesis. We report here that nitric oxide generators including artemisinin, sodium nitroprusside, and L-arginine mimics calorie...

["Biochemistry","Genomics","Pharmacology"]
doi:10.7717/peerj.822
130 downloads
547 views

Neisseria gonorrhoeae is the causative agent of gonorrhea, a sexually transmitted infection (STI) of major importance. As a result of antibiotic resistance, there are now limited options for treating patients. We collected draft genome sequence data and associated...

["Bioinformatics","Evolutionary Studies","Genomics","Microbiology","Infectious Diseases"]
doi:10.7717/peerj.806
43 downloads
75 views

Substantial health disparities exist between African Americans and Caucasians in the United States. Copy number variations (CNVs) are one form of human genetic variations that have been linked with complex diseases and often occur at different frequencies among...

["Bioinformatics","Genetics","Genomics"]
doi:10.7717/peerj.677
96 downloads
467 views

When computing alignments of DNA sequences to a large genome, a key element in achieving high processing throughput is to prioritize locations in the genome where high-scoring mappings might be expected. We formulated this task as a series of list-processing operations...

["Bioinformatics","Genomics","Computational Science"]
doi:10.7717/peerj.808
149 downloads
547 views

Background. Most genetic disorders are caused by single nucleotide variations (SNVs) or small insertion/deletions (indels). High throughput sequencing has broadened the catalogue of human variation, including common polymorphisms, rare variations or disease causing...

["Bioinformatics","Genetics","Genomics"]
doi:10.7717/peerj.796
226 downloads
341 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

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