Preprints (not yet peer-reviewed)

199 downloads
375 views

Gene expression is the fundamental level at which the result of various genetic and regulatory programs are observable. The measurement of transcriptome-wide gene expression has convincingly switched from microarrays to sequencing in a matter of years. RNA sequencing...

["Bioinformatics","Computational Biology","Genomics","Data Science"]
doi:10.7287/peerj.preprints.27283v1
35 downloads
69 views

Describing cell morphology is a tricky task, prone to misinterpretation due to subjective nature of the human observer and his vocabulary limitations. Consequently, these limitations actuate prevalence of non-formalized, statistically unverifiable language use....

["Bioinformatics","Cell Biology","Computational Biology","Marine Biology","Mathematical Biology"]
doi:10.7287/peerj.preprints.27271v2
54 downloads
45 views

Hundo is a software package that performs quality control and annotation of ribosomal RNA and internal transcribed spacer sequence reads. It provides a comprehensive suite of tools and options that aim to reduce the effort of performing robust sequence annotation...

["Bioinformatics"]
doi:10.7287/peerj.preprints.27272v1
21 downloads
78 views

The fractal formalism in combination with linear image analysis enables statistically significant description and classification of “irregular” (in terms of Euclidean geometry) shapes, such as, outlines of in vitro flattened cells. We developed an optimal model...

["Bioinformatics","Cell Biology","Computational Biology","Marine Biology"]
doi:10.7287/peerj.preprints.27258v1
335 downloads
792 views

Pathway and cell-type signatures are patterns present in transcriptome data that are associated with biological processes or phenotypic consequences. These signatures result from specific cell-type and pathway expression, but can require large transcriptomic compendia...

["Bioinformatics","Computational Biology","Genomics","Data Mining and Machine Learning"]
doi:10.7287/peerj.preprints.27229v1
175 downloads
406 views

One overarching principle of eukaroytic development is the generative spatial emergence and self-organization of cell populations. As cells divide and differentiate, they and their descendants form a spatiotemporally explicit and increasingly compartmentalized...

["Bioinformatics","Computational Biology","Developmental Biology"]
doi:10.7287/peerj.preprints.26587v2
91 downloads
185 views

The number of bioinformatics resources, such as tools/scripts and databases are growing exponentially. This poses a great challenge for users to access, manage, and integrate the corresponding bioinformatics resources. To facilitate the request, we proposed a comprehensive...

["Bioinformatics","Statistics"]
doi:10.7287/peerj.preprints.27221v1
41 downloads
123 views

In a previous report, we explored the serverless OpenHealth approach to the Web as a Global Compute space. That approach relies on the modern browser full stack, and, in particular, its configuration for application assembly by code injection. The opportunity,...

["Bioinformatics","Epidemiology","Public Health","Computational Science","Data Science"]
doi:10.7287/peerj.preprints.27209v1
55 downloads
92 views

The public participation in scientific projects (citizen science) is significantly increasing specially with technology developments in recent years. Volunteers play an essential role in citizen science projects, therefore understanding their motivations, and understanding...

["Bioinformatics","Social Computing","Spatial and Geographic Information Systems"]
doi:10.7287/peerj.preprints.27198v1
53 downloads
126 views

Motivation: The identification of functional sequence variations in regulatory DNA regions is one of the major challenges of modern genetics. Here, we report results of a combined multifactor analysis of properties characterizing functional sequence variants located...

["Bioinformatics","Genomics","Data Mining and Machine Learning"]
doi:10.7287/peerj.preprints.27199v1
63 downloads
230 views

Helicobacter pylori is a human pathogenic bacterium with a high genomic plasticity. Although the functional CRISPR-Cas system has not been found in its genome, CRISPR like loci have been recently identified. In this work, 53 genomes from different geographical...

["Bioinformatics","Evolutionary Studies","Genetics","Genomics"]
doi:10.7287/peerj.preprints.27196v1
37 downloads
109 views

MADS-box genes encode transcription factors that participate in various plant growth and development processes, particularly floral organogenesis. To date, MADS-box genes have been reported in many species, the completion of the sequence of the willow genome provides...

["Bioinformatics","Genomics"]
doi:10.7287/peerj.preprints.27195v1
31 downloads
115 views

Background. The gut microbiota plays an important role in host immunity and metabolichomeostasis. Although analyses of gut microbiotas have been used to assess host health,as well as for disease prevention and treatment, no comparative study of gut microbiotasamong...

["Bioinformatics","Microbiology","Veterinary Medicine","Zoology"]
doi:10.7287/peerj.preprints.27193v1
45 downloads
140 views

The pig is a well studied model animal of biomedical and agricultural importance. Genes of this species, Sus scrofa, are known from experiments and predictions, and collected at the NCBI Reference Sequence database section. Gene reconstruction from transcribed...

["Agricultural Science","Bioinformatics","Genomics","Data Science"]
doi:10.7287/peerj.preprints.27191v1
46 downloads
142 views

Next Generation Sequencing (NGS) technologies provide unique possibilities for the comprehensive assessment of the environmental diversity of bacteriophages. Several Bacillus bacteriophages have been isolated, but very few Bacillus megaterium bacteriophages have...

["Agricultural Science","Bioinformatics","Genomics","Microbiology","Virology"]
doi:10.7287/peerj.preprints.27171v1
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