Computational Systems Biology Lab

An Introduction to Computational Systems Biology

The textbook is now available! “An Introduction to Computational Systems Biology: Systems-Level Modelling of Cellular Networks” (by CRC Press)
CASTLE: Computational Analysis of SynThetic LEthals

Access the CASTLE database at: https://ramanlab.github.io/CASTLE/
NetGenes: Interactions Networks to Gene Essentiality

Gene essentiality predictions for 2700+ organisms based on their interactomes!
MinReact: a systematic approach for identifying minimal metabolic networks

Our latest method for identifying minimal networks, published in Bioinformatics
Investigating metabolic interactions in a microbial co-culture through integrated modelling and experiments

A unique blend of theory and experiments to understand metabolic interactions in a co-culture.
Deciphering the metabolic capabilities of Bifidobacteria using genome-scale metabolic models

A multi-pronged modelling approach to systematically characterise bifidobacteria based on their various phenotypic and metabolic features under different nutritional environments
NPTEL MOOC on Computational Systems Biology
Understanding the evolution of functional redundancy in metabolic networks

How do reactions compensate for one another in metabolic networks?

Genomic, functional, and metabolic enhancements in multidrug-resistant Enterobacter bugandensis facilitating its persistence and succession in the International Space Station

Background: The International Space Station (ISS) stands as a testament to human achievement...

09th Feb

Novel spore-forming species exhibiting intrinsic resistance to third- and fourth-generation cephalosporins and description of Tigheibacillus jepli gen. nov., sp. nov.

A comprehensive microbial surveillance was conducted at NASA’s Mars 2020 spacecraft assembly...

30th Jan

Phylogenomics, phenotypic, and functional traits of five novel (Earth-derived) bacterial species isolated from the International Space Station and their prevalence in metagenomes

With the advent of long-term human habitation in space and on the...

04th Oct

Genome-scale metabolic model led engineering of Nothapodytes nimmoniana plant cells for high camptothecin production

Camptothecin (CPT) is a vital monoterpene indole alkaloid used in anti-cancer therapeutics....

04th Jul

BugSigDB captures patterns of differential abundance across a broad range of host-associated microbial signatures

The literature of human and other host-associated microbiome studies is expanding rapidly,...

21st Jun

Metagenome-based metabolic modelling predicts unique microbial interactions in deep-sea hydrothermal plume microbiomes

Deep-sea hydrothermal vents are abundant on the ocean floor and play important...

12th Apr

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