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Gene Regulatory Network (GRN) Inference & Validation Training | Bulk, Single-Cell & Time-Series

NTHRYS >> Services >> Academic Services >> Training Programs >> Bioinformatics Training >> Systems Biology, Network Modeling & Pathway Simulation >> Gene Regulatory Network (GRN) Inference & Validation Training | Bulk, Single-Cell & Time-Series

Gene Regulatory Network Inference & Validation — Hands-on

Build a rigorous, reproducible GRN workflow from data sourcing and preprocessing through multi-method inference, consensus building, biological validation, and clear reporting. Work with bulk RNA-seq, time-series, and single-cell data to reconstruct transcriptional programs and evaluate them using motifs, perturbation evidence, and gold-standard references.

Gene Regulatory Network Inference & Validation (GRN)
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Session 1
Fee: Rs 8800
Data, Preprocessing & Problem Framing
  • Data modalities & design
  • bulk RNA-seq / time-series single-cell RNA-seq ATAC/ChIP evidence
  • Preprocessing & QC
  • normalization & batch correction TF list curation (JASPAR/TFClass) feature filtering & variance
  • Toolchain
  • R: minet, GENIE3, glmnet Python: sklearn, pandas ARACNe-AP
Session 2
Fee: Rs 11800
GRN Inference Methods (Bulk/Time-Series)
  • Association & information-theoretic
  • correlation / partial correlation MI, CLR, ARACNe PIDC
  • Supervised & regression-based
  • Lasso/Elastic Net Random Forest / GENIE3 XGBoost ranking
  • Dynamic & probabilistic models
  • time-lagged inference Bayesian networks ODE-based inference (Inferelator)
Session 3
Fee: Rs 14800
Single-Cell GRNs, Consensus & Validation
  • Single-cell pipelines
  • SCENIC/pySCENIC GRNBoost2 pseudotime & trajectory
  • Consensus networks & stability
  • rank aggregation stability selection thresholding strategies
  • Validation & interpretation
  • motif enrichment (JASPAR/TRANSFAC) perturb-seq/CRISPR evidence benchmarking (DREAM)
Session 4
Fee: Rs 18800
Mini Capstone: End-to-End GRN Project
  • From expression matrix to validated GRN
  • Theory + Practical
  • Packaging & reporting
  • ranked edge list + confidence Cytoscape session & styles notebook + results archive
  • Deliverables
  • PDF/HTML report edge list (.csv/.tsv) .cys / .graphml + env files


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