The microenvironment of the pathogenesis of cardiac hypertrophy

F Bazgir, J Nau, S Nakhaei-Rad, E Amin, MJ Wolf… - Cells, 2023 - mdpi.com
Pathological cardiac hypertrophy is a key risk factor for the development of heart failure and
predisposes individuals to cardiac arrhythmia and sudden death. While physiological …

Systems biology approaches for advancing the discovery of effective drug combinations

KA Ryall, AC Tan - Journal of cheminformatics, 2015 - Springer
Complex diseases like cancer are regulated by large, interconnected networks with many
pathways affecting cell proliferation, invasion, and drug resistance. However, current cancer …

Predicting perturbation patterns from the topology of biological networks

M Santolini, AL Barabási - Proceedings of the National …, 2018 - National Acad Sciences
High-throughput technologies, offering an unprecedented wealth of quantitative data
underlying the makeup of living systems, are changing biology. Notably, the systematic …

Brahma safeguards canalization of cardiac mesoderm differentiation

SK Hota, KS Rao, AP Blair, A Khalilimeybodi, KM Hu… - Nature, 2022 - nature.com
Differentiation proceeds along a continuum of increasingly fate-restricted intermediates,
referred to as canalization,. Canalization is essential for stabilizing cell fate, but the …

The ocean sampling day consortium

A Kopf, M Bicak, R Kottmann, J Schnetzer, I Kostadinov… - Gigascience, 2015 - Springer
Abstract Ocean Sampling Day was initiated by the EU-funded Micro B3 (Marine Microbial
Biodiversity, Bioinformatics, Biotechnology) project to obtain a snapshot of the marine …

Cell signaling model for arterial mechanobiology

L Irons, JD Humphrey - PLoS computational biology, 2020 - journals.plos.org
Arterial growth and remodeling at the tissue level is driven by mechanobiological processes
at cellular and sub-cellular levels. Although it is widely accepted that cells seek to promote …

Differential co-expression-based detection of conditional relationships in transcriptional data: comparative analysis and application to breast cancer

DD Bhuva, J Cursons, GK Smyth, MJ Davis - Genome biology, 2019 - Springer
Background Elucidation of regulatory networks, including identification of regulatory
mechanisms specific to a given biological context, is a key aim in systems biology. This has …

From transcript to tissue: multiscale modeling from cell signaling to matrix remodeling

L Irons, M Latorre, JD Humphrey - Annals of biomedical engineering, 2021 - Springer
Tissue-level biomechanical properties and function derive from underlying cell signaling,
which regulates mass deposition, organization, and removal. Here, we couple two existing …

Roles of mTOR in thoracic aortopathy understood by complex intracellular signaling interactions

AC Estrada, L Irons, BV Rego, G Li… - PLOS Computational …, 2021 - journals.plos.org
Thoracic aortopathy–aneurysm, dissection, and rupture–is increasingly responsible for
significant morbidity and mortality. Advances in medical genetics and imaging have …

Boolean network modeling in systems pharmacology

P Bloomingdale, VA Nguyen, J Niu… - … of pharmacokinetics and …, 2018 - Springer
Quantitative systems pharmacology (QSP) is an emerging discipline that aims to discover
how drugs modulate the dynamics of biological components in molecular and cellular …