Related Experiment Video
Updated: Jul 8, 2026

In Vivo Modeling of the Morbid Human Genome using Danio rerio
Published on: August 24, 2013
TROPPO: tissue-specific reconstruction and phenotype prediction using omics data
Alexandre Oliveira1, Jorge Ferreira1, Vítor Vieira1
1Centre of Biological Engineering, University of Minho, Braga 4710-057, Portugal.
Summary:
The increasing availability of high-throughput technologies in systems biology has advanced predictive tools like genome-scale metabolic models. Despite this progress, integrating omics data to create accurate, context-specific metabolic models for different tissues or cells remains challenging. A significant issue is that many existing tools rely on proprietary software, which limits accessibility. We introduce TROPPO, an open-source Python library designed to overcome these challenges. TROPPO supports a wide range of context-specific reconstruction algorithms, provides validation methods for assessing generated models, and includes gap-filling algorithms to ensure model consistency, integrating well with other constraint-based tools.
Availability And Implementation:
TROPPO is implemented in Python and is freely available at https://github.com/BioSystemsUM/TROPPO and https://pypi.org/project/TROPPO/.
Related Concept Videos
Comparing Copy Number Variations and SNPs
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
Biostatistics: Overview
Discrete variables are...
Aggregates Classification
Petrographic classification groups aggregates based on common mineralogical characteristics. Some of the common mineral groups found in aggregates are...
Comparing the Survival Analysis of Two or More Groups
Statistical Software for Data Analysis and Clinical Trials

