(DRExM³L) Drug REpurposing using eXplainable Machine Learning and Mechanistic Models of signal transduction
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Updated
Apr 5, 2024 - Python
(DRExM³L) Drug REpurposing using eXplainable Machine Learning and Mechanistic Models of signal transduction
Expression, biological and clinical relevance of the collagen pathway genes in prostate carcinoma
An integrative dynamic model of brain energy metabolism (Coultier et al 2009)
Computational modeling of gephyrin-dependent inhibitory transsynaptic signaling (Lupascu et al 2020)
Code repository for the publication. Contains MATLAB codes and sequence data used for evolutionary analysis.
The functional analysis of genes provides relevant information to understand cellular function. Further, the mapping of genetic interactions sheds light on how genes act in the emergence of cellular complexity. Here, we present the most extensive genetic interaction and morphological profiling screen in a metazoan cell to date. We profiled 680 0…
Pathway Enrichment-Guided Activity Study of Alternative Splicing (PEGASAS)
Finding paths of interest in networks
Model of a BDNF feedback loop (Zhang et al 2016)
Rescue of plasticity by a computationally predicted protocol (Liu et al. 2013)
PHOsphoproteomic dissecTiOn using Networks
Converting KGML encoded KEGG pathways to the SIF file format
Ligand-Receptor Interaction map based on scRNA-seq and pathway enrichment
Modeling signaling networks in cancer
Converting SBGN encoded pathways to the SIF file format
A kinetic model of dopamine- and calcium-dependent striatal synaptic plasticity (Nakano et al. 2010)
Computations required for https://doi.org/10.1103/PhysRevE.97.020402 and additional work
Code for analysis of single cell signaling network kinetics from flow cytometry (CyTOF) datasets
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