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genomics
14 downloads
149 views

Understanding the population structure and genetic diversity of plant pathogens, as well as the effect of agricultural practices on pathogen evolution, are important for disease management. Developments in molecular methods have contributed to increasing the resolution...

["Agricultural Science","Bioinformatics","Genomics","Microbiology","Taxonomy"]
doi:10.7287/peerj.preprints.1998v3
32 downloads
296 views

The genome-wide study of epigenetic states requires the integrative analysis of histone modification ChIP-seq data. Here, we introduce an easy-to-use analytic framework to compare profiles of enrichment in histone modifications around classes of genomic elements,...

["Bioinformatics","Computational Biology","Genomics","Statistics"]
doi:10.7717/peerj.1981
30 downloads
207 views

Background. Fetal malformations and other structural abnormalities are relatively frequent findings in the course of routine prenatal ultrasonographic examination. Due to their considerable genetic and clinical heterogeneity, the underlying genetic cause is often...

["Genetics","Genomics","Medical Genetics"]
doi:10.7717/peerj.1955
13 downloads
80 views

Biomineralization is the process by which living organisms construct hard skeletons creating complex structures that range from specialized tissues such as bone or teeth to ecosystems such as coral reefs. Biominerals are composed of both inorganic minerals and...

["Bioinformatics","Computational Biology","Evolutionary Studies","Genomics"]
doi:10.7287/peerj.preprints.1983v1
51 downloads
366 views

Background. Chromosome conformation capture, coupled with high throughput DNA sequencing in protocols like Hi-C and 3C-seq, has been proposed as viable means to generate data to resolve the genomes of microorganisms living in naturally occuring environments. Metagenomic...

["Bioinformatics","Computational Biology","Genomics","Microbiology","Computational Science"]
doi:10.7287/peerj.preprints.1974v1
32 downloads
241 views

Bone Morphogenic Protein 2 (BMP2) is a multipurpose cytokine, important in the development of bone and cartilage, and with a role in tumour initiation and progression. BMP2 signal transduction is dependent on two distinct classes of serine/threonine kinase known...

["Bioinformatics","Cell Biology","Genomics","Drugs and Devices","Orthopedics"]
doi:10.7717/peerj.1957
74 downloads
333 views

Genome sequencing plays a key role in understanding the genetic diversity of Mycobacterium tuberculosis (M.tb). The genotype-specific character of M. tb contributes to tuberculosis severity and emergence of drug resistance. Strains of M. tb complex can be classified...

["Bioinformatics","Genomics","Microbiology","Infectious Diseases"]
doi:10.7717/peerj.1905
7 downloads
86 views

Background: Ecological and evolutionary model organisms have provided extensive insight into the ecological triggers, adaptive benefits, and evolution of life-history driven developmental plasticity. Despite this, we still have a poor understanding of the underlying...

["Animal Behavior","Developmental Biology","Evolutionary Studies","Genomics"]
doi:10.7287/peerj.preprints.1941v1
231 downloads
1,174 views

Oxygen minimum zones (OMZ) are areas in the global ocean where oxygen concentrations drop to below one percent. Low oxygen concentrations allow alternative respiration with nitrate and nitrite as electron acceptor to become prevalent in these areas, making them...

["Biogeography","Bioinformatics","Genomics","Marine Biology","Microbiology"]
doi:10.7717/peerj.1924
148 downloads
856 views

In April 2015, Public Health England implemented whole genome sequencing (WGS) as a routine typing tool for public health surveillance of Salmonella, adopting a multilocus sequence typing (MLST) approach as a replacement for traditional serotyping. The WGS derived...

["Bioinformatics","Genomics","Microbiology","Public Health"]
doi:10.7717/peerj.1752
1 citation
197 downloads
1,707 views

High-throughput sequencing provides a fast and cost-effective mean to recover genomes of organisms from all domains of life. However, adequate curation of the assembly results against potential contamination of non-target organisms requires advanced bioinformatics...

["Bioinformatics","Genomics","Microbiology"]
doi:10.7717/peerj.1839
49 downloads
298 views

The advent of metagenomic methods to sequence DNA directly from an environment has revolutionized viral ecology, making it possible to “see” natural viral communities that could not be previously studied through culture. This technological leap has enabled further...

["Bioinformatics","Genomics","Molecular Biology","Virology"]
doi:10.7287/peerj.preprints.1901v1
298 downloads
1,896 views

Over the past 10 years, microbial ecologists have largely abandoned sequencing 16S rRNA genes by the Sanger sequencing method and have instead adopted highly parallelized sequencing platforms. These new platforms, such as 454 and Illumina’s MiSeq, have allowed...

["Biodiversity","Genomics","Microbiology","Molecular Biology"]
doi:10.7717/peerj.1869
127 downloads
472 views

Background. Retroviral integration into the host germline results in permanent viral colonization of vertebrate genomes. The koala retrovirus (KoRV) is currently invading the germline of the koala (Phascolarctos cinereus) and provides a unique opportunity for studying...

["Bioinformatics","Evolutionary Studies","Genomics","Virology"]
doi:10.7717/peerj.1847
96 downloads
357 views

Genomic and metagenomic analyses are increasingly becoming commonplace in several areas of biological research, but recurrent specialized analyses are frequently reported as in-house scripts rarely available after publication. We describe the enveomics collection,...

["Bioinformatics","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.1900v1

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