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bioinformatics
42 downloads
211 views

Background. Neuropeptides are important regulators of physiological processes and behavior. Although they tend to be generally well conserved, recent results using trancriptome sequencing on decapod crustaceans give the impression of significant differences between...

["Bioinformatics","Entomology","Evolutionary Studies","Marine Biology","Zoology"]
doi:10.7717/peerj.2043
16 downloads
255 views

Genome-wide association studies (GWAS) have uncovered thousands of associations between genetic variants and diseases. Using the same datasets, prediction of disease risk can be attempted. Phase information is an important biological structure that has seldom been...

["Bioinformatics","Computational Biology","Genomics","Epidemiology","Statistics"]
doi:10.7287/peerj.preprints.2074v1
34 downloads
260 views

Toll-like receptors (TLRs) play important role in the innate immune system. TLR15 is reported to have a unique role in defense against pathogens, but its structural and evolution characterizations are still poorly understood. In this study, we identified 57 completed...

["Bioinformatics","Immunology"]
doi:10.7717/peerj.2079
23 downloads
147 views

Background. Diurnal rhythms of protein synthesis controlled by the biological clock underlie the rhythmic physiology in the fruit fly, Drosophila melanogaster. In this study, we conducted a proteome-wide investigation of rhythmic protein accumulation in D. melanogaster....

["Biochemistry","Bioinformatics","Entomology","Molecular Biology"]
doi:10.7717/peerj.2080
25 downloads
845 views

Background. Massively parallel sequencing technology is being used to sequence highly diverse populations of DNA such as that derived from heterogeneous cell mixtures containing both wild-type and disease-related states. At the core of such molecule tagging techniques...

["Bioinformatics","Computational Biology","Genomics"]
doi:10.7717/peerj.2074
57 downloads
308 views

Background. Imaging biomarkers hold tremendous promise for precision medicine clinical applications. Development of such biomarkers relies heavily on image post-processing tools for automated image quantitation. Their deployment in the context of clinical research...

["Bioinformatics","Clinical Trials","Oncology","Radiology and Medical Imaging"]
doi:10.7717/peerj.2057
57 downloads
272 views

The majority of bacterial genome annotations are currently automated and based on a ‘gene by gene’ approach. Regulatory signals and operon structures are rarely taken into account which often results in incomplete and even incorrect gene function assignments. Here...

["Bioinformatics","Genomics","Microbiology"]
doi:10.7717/peerj.2056
37 downloads
175 views

Background. Xylella fastidiosa, the causative agent of various plant diseases including Pierce’s disease in the US, and Citrus Variegated Chlorosis in Brazil, remains a continual source of concern and economic losses, especially since almost all commercial varieties...

["Biochemistry","Bioinformatics","Genomics","Plant Science"]
doi:10.7717/peerj.2007
26 downloads
273 views

Zika virus (ZIKV), a mosquito borne disease, has been linked to congenital anomalies in humans. Recent outbreaks of ZIKV have caused the scientific community to focus on this previously neglected pathogen. Information regarding phosphorylation potential of ZIKV...

["Bioinformatics","Computational Biology","Virology"]
doi:10.7287/peerj.preprints.2047v2
1 download
48 views

Barbiturases have scarce structural information available and do not fit in the conventional group of proteins. It is contemplated that they play a role in catabolism of s-triazine herbicide compounds. Structure as well as interaction data information of barbiturase...

["Biochemistry","Bioinformatics","Computational Biology","Environmental Sciences","Microbiology"]
doi:10.7287/peerj.preprints.2070v1
11 downloads
32 views

GRNsight is a web application and service for visualizing models of gene regulatory networks (GRNs). A gene regulatory network consists of genes, transcription factors, and the regulatory connections between them which govern the level of expression of mRNA and...

["Bioinformatics","Graphics","Software Engineering"]
doi:10.7287/peerj.preprints.2068v1
40 downloads
860 views

Mock communities are an important tool for validating, optimizing, and comparing bioinformatics methods for microbial community analysis. We present mockrobiota, a public resource for sharing, validating, and documenting mock community data resources, available...

["Bioinformatics","Computational Biology","Ecology","Microbiology"]
doi:10.7287/peerj.preprints.2065v1
5 downloads
18 views

A traditional random variable X is a function that maps from a stochastic process to the real line (X,<=,d,+,.), where R is the set of real numbers, <= is the standard linear order relation on R, d(x,y)=|x-y| is the usual metric on R, and (R, +, .) is the standard...

["Bioinformatics","Computational Biology","Data Mining and Machine Learning","Data Science"]
doi:10.7287/peerj.preprints.2052v1
57 downloads
270 views

Physcion and chrysophanol induce defense responses against powdery mildew in cucumbers. The combination of these two compounds has synergistic interaction against the disease. We performed RNA-seq on cucumber leaf samples treated with physcion and chrysophanol...

["Agricultural Science","Bioinformatics","Genetics","Genomics","Plant Science"]
doi:10.7717/peerj.1991
40 downloads
370 views

1) DNA metabarcoding is a powerful tool to assess biodiversity by amplifying and sequencing a standardized gene marker region. However, typically used barcoding genes, such as the cytochrome c oxidase subunit I (COI) region for animals, are highly variable. Thus,...

["Biodiversity","Bioinformatics","Ecology","Genetics","Molecular Biology"]
doi:10.7287/peerj.preprints.2044v1

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