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Galgo: A bi-objective evolutionary meta-heuristic identifies robust transcriptomic classifiers associated with patient outcome across multiple cancer types
(Oxford University Press, 2020-10)
Motivation: Statistical and machine-learning analyses of tumor transcriptomic profiles offer a powerful resource to gain deeper understanding of tumor subtypes and disease prognosis. Currently, prognostic gene-expression ...
Nezara viridula (Hemiptera: Pentatomidae) transcriptomic analysis and neuropeptidomics
(Nature Publishing Group, 2018-12)
Stinkbugs (Hemiptera: Pentatomidae) are of major economic importance as pest of crops. Among the species composing the stinkbug complex, Nezara viridula is one of the most abundant in Brazil, Argentina and the Southern ...
Large-Scale Multiplexing Permits Full-Length Transcriptome Annotation of 32 Bovine Tissues From a Single Nanopore Flow Cell
(Frontiers Media, 2021-05)
A comprehensive annotation of transcript isoforms in domesticated species is lacking. Especially considering that transcriptome complexity and splicing patterns are not wellconserved between species, this presents a ...
Genetic potential of the biocontrol agent pseudomonas brassicacearum (Formerly P. trivialis) 3Re2-7 unraveled by genome sequencing and mining, comparative genomics and transcriptomics
(MDPI AG, 2019-08-09)
The genus Pseudomonas comprises many known plant-associated microbes with plant growth promotion and disease suppression properties. Genome-based studies allow the prediction of the underlying mechanisms using genome mining ...
Separating homeologs by phasing in the tetraploid wheat transcriptome
(BioMed Central, 2013-06)
Background: The high level of identity among duplicated homoeologous genomes in tetraploid pasta wheat presents substantial challenges for de novo transcriptome assembly. To solve this problem, we develop a specialized ...
Adaptations in energy metabolism and gene family expansions revealed by comparative transcriptomics of three Chagas disease triatomine vectors
(BioMed Central, 2018-04)
Background: Chagas disease is a parasitic infection caused by Trypanosoma cruzi. It is an important public health problem affecting around seven to eight million people in the Americas. A large number of hematophagous ...
The nitrone spin trap 5,5-dimethyl-1-pyrroline N-oxide dampens lipopolysaccharide-induced transcriptomic changes in macrophages
(Birkhauser Verlag Ag, 2018-06)
Objective: M1-like inflammatory phenotype of macrophages plays a critical role in tissue damage in chronic inflammatory diseases. Previously, we found that the nitrone spin trap 5,5-dimethyl-1-pyrroline N-oxide (DMPO) ...
Comparative functional genomics of salt stress in related model and cultivated plants identifies and overcomes limitations to translational genomics
(Public Library of Science, 2011-02-14)
One of the objectives of plant translational genomics is to use knowledge and genes discovered in model species to improve crops. However, the value of translational genomics to plant breeding, especially for complex traits ...
Transcriptome sequencing of a toxic dinoflagellate, Karenia mikimotoi subjected to stress from solar ultraviolet radiation
(Elsevier Science, 2019-09)
Solar ultraviolet radiation (UVR) is a stress factor in aquatic environments and may act directly or indirectly on orgnisms in the upper layers of the water column. However, UVR effects are usually species-specific and ...
Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
(Royal Society of New Zealand, 2017-07)
Discriminant molecular markers are required for research on population genetics, as well as evolutionary studies involving identification of hybrids and parental species, or detection of the genome regions under selection. ...