Peer-reviewed Articles - Biology

13 downloads
79 views

Introduction Different types of headaches and TMJ click influence the masseter muscle activity. The aim of this study was to assess the trend of energy level of the electromyography (EMG) activity of the masseter muscle during open-close clench cycles in migraine...

["Bioengineering","Computational Biology","Evidence Based Medicine","Radiology and Medical Imaging","Translational Medicine"]
doi:10.7717/peerj.3556
48 downloads
567 views

Newly emerging influenza viruses continue to threaten public health. A rapid determination of the host range of newly discovered influenza viruses would assist in early assessment of their risk. Here, we attempted to predict the host of influenza viruses using...

["Bioinformatics","Computational Biology","Virology"]
doi:10.7717/peerj.3579
49 downloads
236 views

The skyline plot is a graphical representation of historical effective population sizes as a function of time. Past population sizes for these plots are estimated from genetic data, without a priori assumptions on the mathematical function defining the shape of...

["Computational Biology","Evolutionary Studies","Genetics","Statistics"]
doi:10.7717/peerj.3530
28 downloads
212 views

Gastric cancer (GC) is a complex disease with heterogeneous genetic mechanisms. Genomic mutational profiling of gastric cancer not only expands our knowledge about cancer progression at a fundamental genetic level, but also could provide guidance on new treatment...

["Computational Biology","Genomics","Oncology"]
doi:10.7717/peerj.3585
93 downloads
643 views

There are many steps in analyzing transcriptome data, from the acquisition of raw data to the selection of a subset of representative genes that explain a scientific hypothesis. The data produced can be represented as networks of interactions among genes and these...

["Bioinformatics","Computational Biology"]
doi:10.7717/peerj.3509
49 downloads
276 views

Artifacts removal and rhythms extraction from electroencephalography (EEG) signals are important for portable and wearable EEG recording devices. Incorporating a novel grouping rule, we proposed an adaptive singular spectrum analysis (SSA) method for artifacts...

["Bioengineering","Computational Biology","Neuroscience"]
doi:10.7717/peerj.3474
61 downloads
359 views

Colorectal cancer (CRC) is the third commonest malignant tumor. Previous studies have revealed that the composition change of the human gut microbiome, measured by community diversity, is associated with the progression of CRC. However, a further question, whether...

["Computational Biology","Ecology","Microbiology","Computational Science"]
doi:10.7717/peerj.3383
45 downloads
297 views

Understanding how proteins mutate is critical to solving a host of biological problems. Mutations occur when an amino acid is substituted for another in a protein sequence. The set of likelihoods for amino acid substitutions is stored in a matrix and input to alignment...

["Bioinformatics","Computational Biology","Human-Computer Interaction"]
doi:10.7717/peerj.3492
91 downloads
512 views

Bioinformatics is currently faced with very large-scale data sets that lead to computational jobs, especially sequence similarity searches, that can take absurdly long times to run. For example, the National Center for Biotechnology Information (NCBI) Basic Local...

["Agricultural Science","Bioinformatics","Computational Biology","Plant Science"]
doi:10.7717/peerj.3486
66 downloads
455 views

Mitogen-activated protein kinases (MAPKs) are an important family of genes which play roles in vital plant processes, and they also help in coping against various kinds of environmental stresses including abiotic as well as biotic factors. The advancement of genomics...

["Bioinformatics","Computational Biology","Evolutionary Studies","Genomics","Plant Science"]
doi:10.7717/peerj.3255
78 downloads
363 views

Site-specific evolutionary rates can be estimated from codon sequences or from amino-acid sequences. For codon sequences, the most popular methods use some variation of the dN∕dS ratio. For amino-acid sequences, one widely-used method is called Rate4Site, and it...

["Bioinformatics","Computational Biology","Evolutionary Studies","Statistics"]
doi:10.7717/peerj.3391
71 downloads
264 views

Because transcription is the first step in the regulation of gene expression, understanding how transcription factors bind to their DNA binding motifs has become absolutely necessary. It has been shown that the promoters of genes with similar expression profiles...

["Bioinformatics","Computational Biology","Developmental Biology","Genomics"]
doi:10.7717/peerj.3389
171 downloads
817 views

Background Fast, accurate and high-throughput identification of bacterial isolates is in great demand. The present work was conducted to investigate the possibility of identifying isolates from unassembled next-generation sequencing reads using custom-made guide...

["Bioinformatics","Computational Biology","Microbiology"]
doi:10.7717/peerj.3353
87 downloads
396 views

The dynamics and conformational landscape of proteins in organic solvents are events of potential interest in nonaqueous process catalysis. Conformational changes, folding transitions, and stability often correspond to structural rearrangements that alter contacts...

["Bioinformatics","Computational Biology"]
doi:10.7717/peerj.3341
73 downloads
221 views

Coptis chinensis Franch., the Chinese goldthread (‘Weilian’ in Chinese), one of the most important medicinal plants from the family Ranunculaceae, and its rhizome has been widely used in Traditional Chinese Medicine for centuries. Here, we analyzed the chemical...

["Biochemistry","Bioinformatics","Computational Biology","Plant Science"]
doi:10.7717/peerj.3303

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