Systems Biology at University of Michigan

astrix

Using gene expression data to identify regulatory interactions between transcription factors and target genes.

bme499

BME499 course materials

CARAMeL

Condition-specific Antibiotic Regimen Assessment using Mechanistic Learning

dfa

Fitting time-course metabolomics onto genome-scale metabolic models for inferring metabolic activity.

egem

epigenome scale metabolic modeling for cancer metabolism

emt-cobra

Modeling the metabolic changes during the epithelial-to-mesenchymal transition.

INDIGOpy

Implementation of INDIGO (INferring Drug Interactions using chemoGenomics and Orthology) as a Python package.

MAGENTA

Metabolism And GENomics-based Tailoring of Antibiotic regimens: predicts the impact of pathogen environment on antibiotic potency based on chemogenomic data.

metabolicmodeling

Constraint-based metabolic modeling software from the Chandrasekaran Lab

MetOncoFit

Common biochemical and topological attributes of metabolic genes recurrently dysregulated in tumors.

sriram-lab/egem

epigenome scale metabolic modeling for cancer metabolism

sriram-lab/emt-cobra

Modeling the metabolic changes during the epithelial-to-mesenchymal transition.

sriram-lab/metabolicmodeling

Constraint-based metabolic modeling software from the Chandrasekaran Lab

sriram-lab/bme499

BME499 course materials

sriram-lab/CARAMeL

Condition-specific Antibiotic Regimen Assessment using Mechanistic Learning

sriram-lab/dfa

Fitting time-course metabolomics onto genome-scale metabolic models for inferring metabolic activity.

sriram-lab/INDIGOpy

Implementation of INDIGO (INferring Drug Interactions using chemoGenomics and Orthology) as a Python package.

sriram-lab/MAGENTA

Metabolism And GENomics-based Tailoring of Antibiotic regimens: predicts the impact of pathogen environment on antibiotic potency based on chemogenomic data.

sriram-lab/MetOncoFit

Common biochemical and topological attributes of metabolic genes recurrently dysregulated in tumors.

sriram-lab/astrix

Using gene expression data to identify regulatory interactions between transcription factors and target genes.

sriram-lab/gemini

Integrating the transcriptional regulatory network with genome-scale metabolic models.

sriram-lab/github-tutorials

Another version control resource and tutorial repo

sriram-lab/met-ptm-drug-cancer

Machine learning to learn metabolite-histone-drug interactions in cancer.

sriram-lab/metoncofit-website

A dashboard for the MetOncoFit tumor models.

sriram-lab/single-cell-neutrophil-flux-analysis

Analysis of neutrophil metabolic activity during metastasis using single-cell RNASeq and COnstraint-Based Reconstruction and Analysis.

sriram-lab/docker-tutorials

Another tutorial and resource for using docker to launch web applications

sriram-lab/M2D2

sriram-lab/quiescence-depth-modulation

Leveraging Metabolic Modeling and Machine Learning to Uncover Modulators of Quiescence Depth

sriram-lab/SCOOTI

sriram-lab/TACTIC