Cross-species RNA-seq for deciphering host–microbe interactions

AJ Westermann, J Vogel - Nature Reviews Genetics, 2021 - nature.com
The human body is constantly exposed to microorganisms, which entails manifold
interactions between human cells and diverse commensal or pathogenic bacteria. The …

Proteomics and integrative omic approaches for understanding host–pathogen interactions and infectious diseases

PM Jean Beltran, JD Federspiel, X Sheng… - Molecular systems …, 2017 - embopress.org
Organisms are constantly exposed to microbial pathogens in their environments. When a
pathogen meets its host, a series of intricate intracellular interactions shape the outcome of …

Phenotypic Heterogeneity in Pathogens

J Sherry, EH Rego - Annual Review of Genetics, 2024 - annualreviews.org
Pathogen diversity within an infected organism has traditionally been explored through the
lens of genetic heterogeneity. Hallmark studies have characterized how genetic diversity …

Mass-Spectrometric Evaluation of the African Swine Fever Virus-Induced Host Shutoff Using Dynamic Stable Isotope Labeling with Amino Acids in Cell Culture (SILAC …

E Wöhnke, BG Klupp, S Blome, TC Mettenleiter… - Viruses, 2023 - mdpi.com
African swine fever is a viral disease of swine caused by the African swine fever virus
(ASFV). Currently, ASFV is spreading over the Eurasian continent and threatening global pig …

[HTML][HTML] Functional divergence of chloroplast Cpn60α subunits during Arabidopsis embryo development

X Ke, W Zou, Y Ren, Z Wang, J Li, X Wu, J Zhao - PLoS genetics, 2017 - journals.plos.org
Chaperonins are a class of molecular chaperones that assist in the folding and assembly of
a wide range of substrates. In plants, chloroplast chaperonins are composed of two different …

NGOME-Lite: Proteome-wide prediction of spontaneous protein deamidation highlights differences between taxa

JR Lorenzo, CO Leonetti, LG Alonso, IE Sánchez - Methods, 2022 - Elsevier
Asparagines in proteins deamidate spontaneously, which changes the chemical structure of
a protein and often affects its function. Current prediction algorithms for asparagine …

Time dependent asymptotic analysis of the gene regulatory network of the AcrAB-TolC efflux pump system in gram-negative bacteria

GH Youlden, V Ricci, X Wang-Kan, LJV Piddock… - Journal of Mathematical …, 2021 - Springer
Efflux pumps are a mechanism of intrinsic and evolved resistance in bacteria. If an efflux
pump can expel an antibiotic so that its concentration within the cell is below a killing …

Perturbative-Iterative Computation of Inertial Manifolds of Systems of Delay-Differential Equations with Small Delays

MR Roussel - Algorithms, 2020 - mdpi.com
Delay-differential equations belong to the class of infinite-dimensional dynamical systems.
However, it is often observed that the solutions are rapidly attracted to smooth manifolds …

A delayed mass-action model for the transcriptional control of Hmp, an NO detoxifying enzyme, by the iron-sulfur protein FNR

MR Roussel - Delays and Interconnections: Methodology, Algorithms …, 2019 - Springer
In Escherichia coli, an enzyme called Hmp is a key contributor to the detoxification of nitric
oxide (NO). In the absence of NO, the transcription of the hmp gene is repressed by an iron …

Enhancing preprocessing and clustering of single-cell RNA sequencing data

Z Wang - 2021 - search.proquest.com
Single-cell RNA sequencing (scRNA-seq) is the leading technique for characterizing cellular
heterogeneity in biological samples. Various scRNA-seq protocols have been developed …