Network-Oriented Repurposing of Drugs Python Package
Network Regression Embeddings reveal cell-type Transcription Factor coordination for target gene (TG) regulation
A Nextflow pipeline demonstrating how to train graph neural networks for gene regulatory network reconstruction using DREAM5 data.
Links to interesting courses, tutorials, papers, software etc. related to single-cell omics data analysis
Latex scripts to compile my PhD thesis
Prokaryote Gene Regulatory Network (ProGRN) Inference Pipeline
Gold standard gene regulatory network data from the DREAM5 challenge.
A Lightning-fast algorithm for Gene Regulatory Network inference from gene expression data
Python implementation of the PCA-CMI algorithm proposed by Zhang et al. and comparison of the results with the IC algorithm to predict gene regulatory network skeleton and edge orientations.
TENET refined
GRADIS_eX project extended GRADIS (a supervised learning of Gene Regulatory Network inference) by incorporating transcription factor binding motifs on promoter regions on the DNA.
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