Bioinformatics Research Center

Works Published in 2015

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Displaying all 5 works

Sorted by most recent date added to the index first, which may not be the same as publication date order.

2015 journal article

Impact of Low-Dose Oral Exposure to Bisphenol A (BPA) on Juvenile and Adult Rat Exploratory and Anxiety Behavior: A CLARITY-BPA Consortium Study

TOXICOLOGICAL SCIENCES, 148(2), 341–354.

By: M. Rebuli n, L. Camacho*, M. Adonay n, D. Reif n, D. Aylor n & H. Patisaul n

author keywords: bisphenol A; CLARITY; behavior; anxiety; exploratory activity; endocrine disruption; EDC; sexually dimorphic; brain; BPA; plastic
MeSH headings : Age Factors; Animals; Anxiety / chemically induced; Anxiety / psychology; Behavior, Animal / drug effects; Benzhydryl Compounds / toxicity; Dose-Response Relationship, Drug; Endocrine Disruptors / toxicity; Exploratory Behavior / drug effects; Female; Gestational Age; Lactation; Male; Maternal Exposure / adverse effects; Motor Activity / drug effects; Neurotoxicity Syndromes / etiology; Neurotoxicity Syndromes / psychology; Phenols / toxicity; Pregnancy; Prenatal Exposure Delayed Effects; Rats, Sprague-Dawley; Risk Assessment; Sex Factors
TL;DR: No consistent effects of BPA were observed for any endpoint, in either sex, at either age compared to vehicle controls; however, significant differences between BPA-exposed and ethinyl estradiol-exp exposed groups were identified for some endpoints. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2015 journal article

Mitochondrial genome sequences reveal evolutionary relationships of the Phytophthora 1c clade species

CURRENT GENETICS, 61(4), 567–577.

By: E. Lassiter n, C. Russ*, C. Nusbaum*, Q. Zeng*, A. Saville n, R. Olarte n, I. Carbone n, C. Hu n ...

author keywords: Phytophthora 1 c clade; Mitochondria; Late blight; Phylogenetics
MeSH headings : Biological Evolution; Chimera / microbiology; Colombia; DNA, Mitochondrial / genetics; Ecuador; Genome, Mitochondrial; Solanum lycopersicum / microbiology; Mitochondria / genetics; Peru; Phylogeny; Phylogeography; Phytophthora / classification; Phytophthora / genetics; Phytophthora infestans / classification; Phytophthora infestans / genetics; Plant Diseases / microbiology; Sequence Analysis, DNA; Solanum tuberosum / microbiology
TL;DR: The ancestral state of the P. andina Ic lineage in the tree and its occurrence only in the Andean regions of Ecuador, Colombia and Peru suggests that the origin of this species hybrid in nature may occur there. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2015 journal article

Relaxing the Molecular Clock to Different Degrees for Different Substitution Types

MOLECULAR BIOLOGY AND EVOLUTION, 32(8), 1948–1961.

By: H. Lee n, N. Rodrigue* & J. Thorne n

author keywords: CpG transition rate; context-dependent substitution; relaxed molecular clock; divergence time estimation
MeSH headings : Animals; Biological Clocks / physiology; CpG Islands / physiology; DNA, Intergenic / genetics; Evolution, Molecular; Humans; Models, Biological
TL;DR: Through stochastic mapping of sequence histories from context-independent substitution models, this approach allows for context-dependent nucleotide substitutions to change their relative rates over time, and finds comparatively little rate variation over time for CpG to TpG substitutions. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2015 journal article

Roles of Solvent Accessibility and Gene Expression in Modeling Protein Sequence Evolution

EVOLUTIONARY BIOINFORMATICS, 11.

author keywords: protein evolution; protein structure; gene expression; codon usage; scaled selection coefficient; solvent accessibility
TL;DR: It is come to the biologically plausible conclusion that both RSA and gene expression are related to amino acid frequencies, but, among synonymous codons, the relative probability of a particular codon is more closely related to gene expression than RSA. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2015 journal article

Complete Effect-Profile Assessment in Association Studies With Multiple Genetic and Multiple Environmental Factors

GENETIC EPIDEMIOLOGY, 39(2), 122–133.

author keywords: factor-set association analysis; kernel machine regression; genetic-environmental interactions; joint and conditional tests
MeSH headings : Computer Simulation; Environment; Gene-Environment Interaction; Genetic Predisposition to Disease; Genome-Wide Association Study / methods; Humans; Models, Genetic; Software
TL;DR: The issues encountered in constructing kernels for investigating interactions between two factor‐sets are illustrated, and a simple yet intuitive solution to construct the G×E kernel that retains the ease‐of‐interpretation of classic regression is proposed. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

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