CausalPath

causal interactions from molecular profiles

CausalPath works on a set of molecular profiles and predicts the causal mechanisms that acts on the data. It integrates prior knowledge from biological pathway databases, and uses them to explain new observations. While the main focus is phosphoproteomics, CausalPath can also work on global proteomic, transcriptomic, acetylomic and methylomic profiles, and combinations of them.

Causalpath mechanism

> Load input files for analysis

Please prepare your input files following this guide               , and bundle them in a zip file without a folder structure. A sample input is available here.

> View results from a previous analysis

Select the root folder of your analysis results to upload.

CausalPath is described in detail in the following publications.

Babur, Ö., et al. (2021). Causal interactions from proteomic profiles: Molecular data meet pathway knowledge. Patterns, 2(6), 100257.

Luna, A., et al. (2021). Analyzing causal relationships in proteomic profiles using CausalPath. STAR protocols, 2(4), 100955.

Source code is also available!

This is a collaborative project with contributions from the below institutions.

Please reach out to causalpath@cs.umb.edu for questions and comments.

General

Process Description

Validation Results