24 downloads
212 views

Background In spite of the emergence of RNA sequencing (RNA-seq), microarrays remain in widespread use for gene expression analysis in the clinic. There are over 767,000 RNA microarrays from human samples in public repositories, which are an invaluable resource...

["Genomics","Molecular Biology"]
doi:10.7717/peerj.4133
20 downloads
118 views

Vibrio harveyi is a Gram-negative, halophilic bacterium that is an opportunistic pathogen of commercially farmed marine vertebrate species. To understand the pathogenicity of this species, the genome of V. harveyi QT520 was analyzed and compared to that of other...

["Aquaculture, Fisheries and Fish Science","Genomics","Microbiology"]
doi:10.7717/peerj.4127
41 downloads
215 views

Abscisic acid (ABA) receptor pyrabactin resistance1/PYR1-like/regulatory components of ABA receptor (PYR1/PYL/RCAR) (named PYLs for simplicity) are core regulators of ABA signaling, and have been well studied in Arabidopsis and rice. However, knowledge is limited...

["Bioinformatics","Evolutionary Studies","Genomics","Plant Science"]
doi:10.7717/peerj.4126
48 downloads
143 views

Availability of snake genome sequences has opened up exciting areas of research on comparative genomics and gene diversity. One of the challenges in studying snake genomes is the acquisition of biological material from live animals, especially from the venomous...

["Biodiversity","Bioinformatics","Evolutionary Studies","Genomics"]
doi:10.7717/peerj.4104
35 downloads
154 views

Integrating genomic information into cattle breeding is an important approach to exploring genotype-phenotype relationships for complex traits related to diary and meat production. To assist with genomic-based selection, a reference map of interactome is needed...

["Agricultural Science","Genetics","Genomics"]
doi:10.7717/peerj.4107
33 downloads
322 views

Background Lung cancer is considered as one of the most frequent and deadly cancers with high mortality all around the world. It is critical to find new biomarkers for early diagnosis of lung cancer, especially lung squamous cell carcinoma (LUSC). The Cancer Genome...

["Bioinformatics","Genomics","Molecular Biology","Public Health"]
doi:10.7717/peerj.4101
65 downloads
610 views

The amino acid content of the proteins encoded by a genome may predict the coding potential of that genome and may reflect lifestyle restrictions of the organism. Here, we calculated the Kullback–Leibler divergence from the mean amino acid content as a metric to...

["Bioinformatics","Computational Biology","Genomics","Microbiology","Statistics"]
doi:10.7717/peerj.4026
45 downloads
223 views

Recently, Docker technology has received increasing attention throughout the bioinformatics community. However, its implementation has not yet been mastered by most biologists; accordingly, its application in biological research has been limited. In order to popularize...

["Bioinformatics","Computational Biology","Genomics","Microbiology"]
doi:10.7717/peerj.3948
69 downloads
373 views

The consumption of raw fish has increased considerably in the West, since it is said to be potentially healthier than processed fish (for containing omega 3 and 6, essential amino acids and vitamins). However this potential benefit, as well as the taste, value...

["Food Science and Technology","Genomics"]
doi:10.7717/peerj.4006
64 downloads
286 views

Background Streptomyces are well known for their capability to produce many bioactive secondary metabolites with medical and industrial importance. Here we report a novel bioactive phenazine compound, 6-((2-hydroxy-4-methoxyphenoxy) carbonyl) phenazine-1-carboxylic...

["Bioinformatics","Biotechnology","Genomics","Drugs and Devices"]
doi:10.7717/peerj.3738
48 downloads
88 views

Olfactory systems in insects are used to detect volatile chemical odors, and play crucial roles in survival, reproduction, and mediating key behaviors. Here, RNA sequencing technology was used to sequence and assemble the antennal transcriptome of Heortia vitessoides,...

["Entomology","Genomics"]
doi:10.7287/peerj.preprints.3433v1
95 downloads
398 views

Assay for Transposase Accessible Chromatin (ATAC-seq) is an open chromatin profiling assay that is adapted to interrogate chromatin accessibility from small cell numbers. ATAC-seq surmounted a major technical barrier and enabled epigenome profiling of clinical...

["Bioinformatics","Computational Biology","Genomics","Human-Computer Interaction","Computational Science"]
doi:10.7717/peerj.4040
150 downloads
586 views

The advent of next-generation sequencing tools has made it possible to conduct fine-scale surveys of population differentiation and genome-wide scans for signatures of selection in non-model organisms. Such surveys are of particular importance in sharply declining...

["Conservation Biology","Genomics","Marine Biology","Climate Change Biology"]
doi:10.7717/peerj.4077
76 downloads
524 views

Transcriptome resources for social insects have the potential to provide new insight into polyphenism, i.e., how divergent phenotypes arise from the same genome. Here we present a transcriptome based on paired-end RNA sequencing data for the ant Formica exsecta...

["Bioinformatics","Computational Biology","Entomology","Evolutionary Studies","Genomics"]
doi:10.7717/peerj.3998
39 downloads
93 views

Effective approaches for assessing mitochondrial DNA (mtDNA) variation are important to multiple scientific disciplines. Mitochondrial haplogroups characterize branch points in the phylogeny of mtDNA. Several tools exist for mitochondrial haplogroup classification....

["Genetics","Genomics"]
doi:10.7287/peerj.preprints.3420v1

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