Peer-reviewed Articles - Biology

106 downloads
813 views

High-depth sequencing of universal marker genes such as the 16S rRNA gene is a common strategy to profile microbial communities. Traditionally, sequence reads are clustered into operational taxonomic units (OTUs) at a defined identity threshold to avoid sequencing...

["Ecology","Genomics","Microbiology","Mycology","Data Science"]
doi:10.7717/peerj.5364
69 downloads
495 views

Background There are many problems with fitness trackers, such as device usability, which limit their large-scale application, and relevant studies are limited in terms of their sample size and evaluation methods. The purpose of the study was to evaluate the perceived...

["Pharmacology","Public Health","Human-Computer Interaction","Computational Science","Data Science"]
doi:10.7717/peerj.5350
350 downloads
358 views

Managing injury risk requires an understanding of how and when athletes sustain certain injuries. Such information guides organisations in establishing evidence-based priorities and expectations for managing injury risk. In order to minimise the impact of sports...

["Epidemiology","Health Policy","Pathology","Public Health","Data Science"]
doi:10.7717/peerj.4895
93 downloads
733 views

The increased interest in analyzing and explaining gender inequalities in tech, media, and academia highlights the need for accurate inference methods to predict a person’s gender from their name. Several such services exist that provide access to large databases...

["Data Mining and Machine Learning","Data Science","Databases","Digital Libraries"]
doi:10.7717/peerj-cs.156
105 downloads
891 views

The demand for reproducible research is on the rise in disciplines concerned with data analysis and computational methods. Therefore, we reviewed current recommendations for reproducible research and translated them into criteria for assessing the reproducibility...

["Science Policy","Computational Science","Data Science","Spatial and Geographic Information Science"]
doi:10.7717/peerj.5072
32 downloads
274 views

Historical GIS involves applying GIS to historical research. Using a unique method, I recovered historical tree survey information stored in bar chart figures of a 1956 publication. I converted PDF files to TIF files, which is a format for a GIS layer. I then employed...

["Biogeography","Bioinformatics","Data Science","Spatial and Geographic Information Science"]
doi:10.7717/peerj.5158
118 downloads
726 views

Background Obesity is a key public health problem. The advancement of gut microbiota research sheds new light on this field. This article aims to present the research trends in global intestinal microbiota studies within the domain of obesity research. Methods...

["Evidence Based Medicine","Gastroenterology and Hepatology","Global Health","Data Mining and Machine Learning","Data Science"]
doi:10.7717/peerj.5091
111 downloads
457 views

Low-cost phenotyping using proximal sensors is increasingly becoming popular in plant breeding. As these techniques generate a large amount of data, analysis pipelines that do not require expertise in computer programming can benefit a broader user base. In this...

["Agricultural Science","Bioinformatics","Data Mining and Machine Learning","Data Science"]
doi:10.7717/peerj.5031
80 downloads
367 views

We applied multi-omics approaches (transcriptomics, proteomics and metabolomics) to study the effect of iron starvation on the Gram-positive human pathogen Streptococcus pneumoniae to elucidate global changes in the bacterium in a condition similar to what can...

["Biochemistry","Microbiology","Data Science"]
doi:10.7717/peerj.4966
82 downloads
497 views

We describe the Coefficient-Flow algorithm for calculating the bounding chain of an $(n-1)$-boundary on an $n$-manifold-like simplicial complex $S$. We prove its correctness and show that it has a computational time complexity of O(|S(n−1)|) (where S(n−1) is the...

["Algorithms and Analysis of Algorithms","Data Science","Scientific Computing and Simulation"]
doi:10.7717/peerj-cs.153
1 citation
146 downloads
863 views

Malaria is a blood disease caused by the Plasmodium parasites transmitted through the bite of female Anopheles mosquito. Microscopists commonly examine thick and thin blood smears to diagnose disease and compute parasitemia. However, their accuracy depends on smear...

["Infectious Diseases","Computational Science","Data Mining and Machine Learning","Data Science"]
doi:10.7717/peerj.4568
85 downloads
723 views

Over the last decades, clinical decision support systems have been gaining importance. They help clinicians to make effective use of the overload of available information to obtain correct diagnoses and appropriate treatments. However, their power often comes at...

["Data Mining and Machine Learning","Data Science","Optimization Theory and Computation"]
doi:10.7717/peerj-cs.150
160 downloads
1,120 views

Most of Python and R scientific packages incorporate compiled scientific libraries to speed up the code and reuse legacy libraries. While several semi-automatic solutions exist to wrap these compiled libraries, the process of wrapping a large library is cumbersome...

["Data Science","Scientific Computing and Simulation","Programming Languages","Software Engineering"]
doi:10.7717/peerj-cs.149
8 citations
2,825 downloads
12,379 views

Despite growing interest in Open Access (OA) to scholarly literature, there is an unmet need for large-scale, up-to-date, and reproducible studies assessing the prevalence and characteristics of OA. We address this need using oaDOI, an open online service that...

["Legal Issues","Science Policy","Data Science"]
doi:10.7717/peerj.4375
2 citations
434 downloads
3,759 views

This article describes the motivation, design, and progress of the Journal of Open Source Software (JOSS). JOSS is a free and open-access journal that publishes articles describing research software. It has the dual goals of improving the quality of the software...

["Data Science","Digital Libraries","Scientific Computing and Simulation","Software Engineering"]
doi:10.7717/peerj-cs.147

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