Technology Features

Transomics2cytoscape: an automated software for interpretable 2.5-dimensional visualization of trans-omic networks

• Kozo Nishida
• Junichi Maruyama
• Katsuyuki Yugi

An architecture for collaboration in systems biology at the age of the Metaverse

• Eliott Jacopin
• Yuki Sakamoto
• Koichi Takahashi

Asking the right questions for mutagenicity prediction from BioMedical text

• Sathwik Acharya
• Nicolas K. Shinada
• Sucheendra K. Palaniappan

MethylSPWNet and MethylCapsNet: Biologically Motivated Organization of DNAm Neural Networks, Inspired by Capsule Networks

• Joshua J. Levy
• Youdinghuan Chen
• Brock C. Christensen

iOmicsPASS: network-based integration of multiomics data for predictive subnetwork discovery

• Hiromi W. L. Koh
• Damian Fermin
• Hyungwon Choi

Differential metabolic activity and discovery of therapeutic targets using summarized metabolic pathway models

• Cankut Çubuk
• Marta R. Hidalgo
• Joaquín Dopazo

ComPath: an ecosystem for exploring, analyzing, and curating mappings across pathway databases

• Daniel Domingo-Fernández
• Charles Tapley Hoyt
• Martin Hofmann-Apitius

Context-dependent prediction of protein complexes by SiComPre

• Simone Rizzetto
• Petros Moyseos
• Attila Csikász-Nagy

Large-scale computational drug repositioning to find treatments for rare diseases

• Rajiv Gandhi Govindaraj
• Misagh Naderi
• Michal Brylinski

PECAplus: statistical analysis of time-dependent regulatory changes in dynamic single-omics and dual-omics experiments

• Guoshou Teo
• Yun Bin Zhang
• Hyungwon Choi

SalmoNet, an integrated network of ten Salmonella enterica strains reveals common and distinct pathways to host adaptation

• Aline Métris
• Padhmanand Sudhakar
• Tamas Korcsmáros

MUFINS: multi-formalism interaction network simulator

• Huihai Wu
• Axel von Kamp
• Andrzej M Kierzek

A method to identify and analyze biological programs through automated reasoning

• Boyan Yordanov
• Sara-Jane Dunn
• Stephen Emmott