Systems biology of cancer metastasis

Y Suhail, MP Cain, K Vanaja, PA Kurywchak… - Cell systems, 2019 - cell.com
Cancer metastasis is no longer viewed as a linear cascade of events but rather as a series
of concurrent, partially overlap** processes, as successfully metastasizing cells assume …

Recent advanced technologies for the characterization of xenobiotic-degrading microorganisms and microbial communities

S Mishra, Z Lin, S Pang, W Zhang, P Bhatt… - … in Bioengineering and …, 2021 - frontiersin.org
Global environmental contamination with a complex mixture of xenobiotics has become a
major environmental issue worldwide. Many xenobiotic compounds severely impact the …

[HTML][HTML] Systems biology and multi-omics integration: viewpoints from the metabolomics research community

FR Pinu, DJ Beale, AM Paten, K Kouremenos… - Metabolites, 2019 - mdpi.com
The use of multiple omics techniques (ie, genomics, transcriptomics, proteomics, and
metabolomics) is becoming increasingly popular in all facets of life science. Omics …

BioModels—15 years of sharing computational models in life science

RS Malik-Sheriff, M Glont, TVN Nguyen… - Nucleic acids …, 2020 - academic.oup.com
Computational modelling has become increasingly common in life science research. To
provide a platform to support universal sharing, easy accessibility and model reproducibility …

SBML Level 3: an extensible format for the exchange and reuse of biological models

SM Keating, D Waltemath, M König, F Zhang… - Molecular systems …, 2020 - embopress.org
Abstract Systems biology has experienced dramatic growth in the number, size, and
complexity of computational models. To reproduce simulation results and reuse models …

Advances and current challenges in calcium signaling

J Kudla, D Becker, E Grill, R Hedrich, M Hippler… - New …, 2018 - Wiley Online Library
Content Summary 414 I. Introduction 415 II. Ca2+ importer and exporter in plants 415 III. The
Ca2+ decoding toolkit in plants 415 IV. Mechanisms of Ca2+ signal decoding 417 V …

A guide to conquer the biological network era using graph theory

M Koutrouli, E Karatzas, D Paez-Espino… - … in bioengineering and …, 2020 - frontiersin.org
Networks are one of the most common ways to represent biological systems as complex sets
of binary interactions or relations between different bioentities. In this article, we discuss the …

BiGG Models: A platform for integrating, standardizing and sharing genome-scale models

ZA King, J Lu, A Dräger, P Miller… - Nucleic acids …, 2016 - academic.oup.com
Genome-scale metabolic models are mathematically-structured knowledge bases that can
be used to predict metabolic pathway usage and growth phenotypes. Furthermore, they can …

VEGF-A/VEGFR2 signaling network in endothelial cells relevant to angiogenesis

CS Abhinand, R Raju, SJ Soumya, PS Arya… - Journal of cell …, 2016 - Springer
Vascular endothelial growth factor-A (VEGF-A) is essential for endothelial cell functions
associated with angiogenesis. Signal transduction networks initiated by VEGFA/VEGFR2 …

Large-scale gene function analysis with the PANTHER classification system

H Mi, A Muruganujan, JT Casagrande, PD Thomas - Nature protocols, 2013 - nature.com
The PANTHER (protein annotation through evolutionary relationship) classification system
(http://www. pantherdb. org/) is a comprehensive system that combines gene function …