January 2019

Table of Contents - PeerJ (Biology Articles)

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Descriptive anatomy of the largest known specimen of Protoichthyosaurus prostaxalis

Three-dimensional skull of BMT 1955.G35.1, Protoichthyosaurus prostaxalis.

January 8, 2019

Descriptive anatomy of the largest known specimen of Protoichthyosaurus prostaxalis

Representing one of the first times that medical imaging and three-dimensional reconstruction methods have been applied to a large skull of a marine reptile, researchers describe the partial skeleton of a large ichthyosaur from the Lower Jurassic of Warwickshire, England. The unusual three-dimensional preservation of the specimen permitted computed tomography (CT) scanning of individual braincase elements as well as the entire reassembled skull.

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January 31, 2019
Identification, expression, and phylogenetic analyses of terpenoid biosynthesis-related genes in secondary xylem of loblolly pine (Pinus taeda L.) based on transcriptome analyses
1 citation
326 downloads
986 views
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bioinformatics
molecular-biology
plant-science
https://doi.org/10.7717/peerj.6124 PubMed 30723613
January 31, 2019
Transcriptome-wide characterization and functional analysis of MATE transporters in response to aluminum toxicity in Medicago sativa L.
2 citations
362 downloads
1,184 views
, , , , , ,
bioinformatics
evolutionary-studies
plant-science
https://doi.org/10.7717/peerj.6302 PubMed 30723620
January 30, 2019
Kelpie: generating full-length ‘amplicons’ from whole-metagenome datasets
2 citations
375 downloads
1,488 views
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bioinformatics
ecology
genomics
microbiology
https://doi.org/10.7717/peerj.6174 PubMed 30723610
January 28, 2019
Genome-wide identification of long non-coding RNAs in tomato plants irradiated by neutrons followed by infection with Tomato yellow leaf curl virus
344 downloads
1,047 views
, , , , , ,
agricultural-science
bioinformatics
genomics
plant-science
https://doi.org/10.7717/peerj.6286 PubMed 30713817
January 28, 2019
Gastric Helicobacter pylori infection perturbs human oral microbiota
298 downloads
1,359 views
, , , , , ,
biodiversity
bioinformatics
microbiology
https://doi.org/10.7717/peerj.6336 PubMed 30713820
January 25, 2019
Prognostic values of GMPS, PR, CD40, and p21 in ovarian cancer
221 downloads
911 views
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bioinformatics
cell-biology
oncology
https://doi.org/10.7717/peerj.6301 PubMed 30701134
January 25, 2019
Increased tooth brushing frequency is associated with reduced gingival pocket bacterial diversity in patients with intracranial aneurysms
1 citation
197 downloads
1,194 views
, , , , ,
bioinformatics
microbiology
dentistry
https://doi.org/10.7717/peerj.6316 PubMed 30701137
January 24, 2019
Accessible molecular phylogenomics at no cost: obtaining 14 new mitogenomes for the ant subfamily Pseudomyrmecinae from public data
2 citations
305 downloads
1,143 views
,
biodiversity
bioinformatics
entomology
evolutionary-studies
genomics
https://doi.org/10.7717/peerj.6271 PubMed 30697483
January 24, 2019
Prioritizing bona fide bacterial small RNAs with machine learning classifiers
286 downloads
1,064 views
,
bioinformatics
microbiology
data-mining-and-machine-learning
https://doi.org/10.7717/peerj.6304 PubMed 30697489
January 24, 2019
Transcriptome profiling reveals the role of ZBTB38 knock-down in human neuroblastoma
358 downloads
978 views
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bioinformatics
cell-biology
genomics
nephrology
oncology
https://doi.org/10.7717/peerj.6352 PubMed 30697495
January 24, 2019
Genome-wide characterization and expression analyses of the MYB superfamily genes during developmental stages in Chinese jujube
1 citation
486 downloads
1,309 views
, , , , ,
bioinformatics
genomics
molecular-biology
plant-science
https://doi.org/10.7717/peerj.6353 PubMed 30697496
January 23, 2019
GenoDup Pipeline: a tool to detect genome duplication using the dS-based method
2 citations
252 downloads
1,112 views
bioinformatics
evolutionary-studies
genomics
https://doi.org/10.7717/peerj.6303 PubMed 30697488
January 22, 2019
Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection
4 citations
309 downloads
1,180 views
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bioinformatics
molecular-biology
virology
https://doi.org/10.7717/peerj.6267 PubMed 30697481
January 16, 2019
Screening of reference genes in real-time PCR for Radopholus similis
1 citation
332 downloads
804 views
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agricultural-science
bioinformatics
molecular-biology
https://doi.org/10.7717/peerj.6253 PubMed 30671304
January 16, 2019
The expression of chondrogenesis-related and arthritis-related genes in human ONFH cartilage with different Ficat stages
1 citation
279 downloads
887 views
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bioinformatics
orthopedics
https://doi.org/10.7717/peerj.6306 PubMed 30671313
January 15, 2019
Serverless OpenHealth at data commons scale—traversing the 20 million patient records of New York’s SPARCS dataset in real-time
1 citation
163 downloads
1,056 views
, , ,
bioinformatics
epidemiology
public-health
computational-science
data-science
https://doi.org/10.7717/peerj.6230 PubMed 30671301
January 14, 2019
Worldwide co-occurrence analysis of 17 species of the genus Brachypodium using data mining
231 downloads
883 views
, , ,
bioinformatics
ecology
computational-science
data-mining-and-machine-learning
spatial-and-geographic-information-science
https://doi.org/10.7717/peerj.6193 PubMed 30656067
January 14, 2019
Global genomic similarity and core genome sequence diversity of the Streptococcus genus as a toolkit to identify closely related bacterial species in complex environments
1 citation
356 downloads
970 views
, , ,
biodiversity
bioinformatics
genomics
microbiology
molecular-biology
https://doi.org/10.7717/peerj.6233 PubMed 30656069
January 11, 2019
A miniature inverted-repeat transposable element, AddIn-MITE, located inside a WD40 gene is conserved in Andropogoneae grasses
242 downloads
833 views
, , , , , ,
bioinformatics
genomics
plant-science
https://doi.org/10.7717/peerj.6080 PubMed 30648010
January 11, 2019
Diverse and variable virus communities in wild plant populations revealed by metagenomic tools
5 citations
345 downloads
1,482 views
, , , ,
bioinformatics
ecology
plant-science
virology
population-biology
https://doi.org/10.7717/peerj.6140 PubMed 30648011
January 11, 2019
Non-H3 CDR template selection in antibody modeling through machine learning
2 citations
458 downloads
1,356 views
, ,
bioinformatics
computational-biology
https://doi.org/10.7717/peerj.6179 PubMed 30648015
January 11, 2019
Detection and variability analyses of CRISPR-like loci in the H. pylori genome
278 downloads
752 views
, , , ,
bioinformatics
evolutionary-studies
genetics
genomics
https://doi.org/10.7717/peerj.6221 PubMed 30648020
January 11, 2019
Assigning confidence scores to homoeologs using fuzzy logic
210 downloads
933 views
, ,
bioinformatics
computational-biology
genomics
https://doi.org/10.7717/peerj.6231 PubMed 30648004
January 11, 2019
Genome-wide identification and expression analysis of the MYB transcription factor in moso bamboo (Phyllostachys edulis)
3 citations
325 downloads
995 views
, , , , , , ,
bioinformatics
genomics
molecular-biology
plant-science
https://doi.org/10.7717/peerj.6242 PubMed 30648007
January 10, 2019
cRegions—a tool for detecting conserved cis-elements in multiple sequence alignment of diverged coding sequences
1 citation
202 downloads
734 views
,
bioinformatics
evolutionary-studies
genetics
virology
data-science
https://doi.org/10.7717/peerj.6176 PubMed 30647994
Descriptive anatomy of the largest known specimen of Protoichthyosaurus prostaxalis

Three-dimensional skull of BMT 1955.G35.1, Protoichthyosaurus prostaxalis.

January 8, 2019

Descriptive anatomy of the largest known specimen of Protoichthyosaurus prostaxalis

Representing one of the first times that medical imaging and three-dimensional reconstruction methods have been applied to a large skull of a marine reptile, researchers describe the partial skeleton of a large ichthyosaur from the Lower Jurassic of Warwickshire, England. The unusual three-dimensional preservation of the specimen permitted computed tomography (CT) scanning of individual braincase elements as well as the entire reassembled skull.

- read article

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