Phenotypic models of T cell activation

M Lever, PK Maini, PA Van Der Merwe… - Nature Reviews …, 2014 - nature.com
T cell activation is a crucial checkpoint in adaptive immunity, and this activation depends on
the binding parameters that govern the interactions between T cell receptors (TCRs) and …

Scientific and regulatory evaluation of mechanistic in silico drug and disease models in drug development: Building model credibility

FT Musuamba, I Skottheim Rusten… - CPT …, 2021 - Wiley Online Library
The value of in silico methods in drug development and evaluation has been demonstrated
repeatedly and convincingly. While their benefits are now unanimously recognized …

Signaling hypergraphs

A Ritz, AN Tegge, H Kim, CL Poirel, TM Murali - Trends in biotechnology, 2014 - cell.com
Signaling pathways function as the information-passing mechanisms of cells. A number of
databases with extensive manual curation represent the current knowledge base for …

Computational modeling and reverse engineering to reveal dominant regulatory interactions controlling osteochondral differentiation: potential for regenerative …

R Lesage, J Kerkhofs, L Geris - Frontiers in bioengineering and …, 2018 - frontiersin.org
The specialization of cartilage cells, or chondrogenic differentiation, is an intricate and
meticulously regulated process that plays a vital role in both bone formation and cartilage …

Proteomic screening and lasso regression reveal differential signaling in insulin and insulin-like growth factor I (IGF1) pathways

C Erdem, AM Nagle, AJ Casa, BC Litzenburger… - Molecular & Cellular …, 2016 - ASBMB
Insulin and insulin-like growth factor I (IGF1) influence cancer risk and progression through
poorly understood mechanisms. To better understand the roles of insulin and IGF1 signaling …

Orthoscape: a cytoscape application for grouping and visualization KEGG based gene networks by taxonomy and homology principles

ZS Mustafin, SA Lashin, YG Matushkin, KV Gunbin… - BMC …, 2017 - Springer
Background There are many available software tools for visualization and analysis of
biological networks. Among them, Cytoscape (http://cytoscape. org/) is one of the most …

GraphSpace: stimulating interdisciplinary collaborations in network biology

A Bharadwaj, DP Singh, A Ritz, AN Tegge… - …, 2017 - academic.oup.com
Networks have become ubiquitous in systems biology. Visualization is a crucial component
in their analysis. However, collaborations within research teams in network biology are …

CNS genomic profiling in the mouse chronic social stress model implicates a novel category of candidate genes integrating affective pathogenesis

KA Demin, DA Smagin, IL Kovalenko… - Progress in Neuro …, 2021 - Elsevier
Despite high prevalence, medical impact and societal burden, anxiety, depression and other
affective disorders remain poorly understood and treated. Clinical complexity and polygenic …

Network integration of genetically regulated gene expression to study complex diseases

Z Tu, B Zhang, J Zhu - Integrating Omics Data, 2015 - books.google.com
Understanding the molecular mechanisms underlying the connections between genotype
and phenotype in human is one of the most important biological questions. By integrating …

An Encounter of Korean Medicine with Systems Biology: Meanings and Prospects

CE Kim, CY Lee - Journal of Physiology & Pathology in Korean …, 2016 - koreascience.kr
Recent advances in systems biology are shedding a new light on the traditional medicine
research. The systems biology highlights the way each component interacts with each other …