8 Result(s)

Article

Protein function prediction through multi-view multi-label latent tensor reconstruction

In last two decades, the use of high-throughput sequencing technologies has accelerated the pace of discovery of proteins. However, due to the time and resource limitations of rigorous experimental functional ...

Robert Ebo Armah-Sekum, Sandor Szedmak, Juho Rousu in BMC Bioinformatics (2024)

Article

Learning symmetry-aware atom map** in chemical reactions through deep graph matching

Accurate atom map**, which establishes correspondences between atoms in reactants and products, is a crucial step in analyzing chemical reactions. In this paper, we present a novel end-to-end approach that f...

Maryam Astero, Juho Rousu in Journal of Cheminformatics (2024)

Article

Critical Assessment of Small Molecule Identification 2016: automated methods

The fourth round of the Critical Assessment of Small Molecule Identification (CASMI) Contest (www.casmi-contest.org) was held in 2016, with two new cat...

Emma L. Schymanski, Christoph Ruttkies, Martin Krauss… in Journal of Cheminformatics (2017)

Article

Selected proceedings of Machine Learning in Systems Biology: MLSB 2016

Aalt D. J. van Dijk, Harri Lähdesmäki, Dick de Ridder, Juho Rousu in BMC Bioinformatics (2016)

Article

Inferring branching pathways in genome-scale metabolic networks

A central problem in computational metabolic modelling is how to find biochemically plausible pathways between metabolites in a metabolic network. Two general, complementary frameworks have been utilized to fi...

Esa Pitkänen, Paula Jouhten, Juho Rousu in BMC Systems Biology (2009)

Article

An analytic and systematic framework for estimating metabolic flux ratios from ¹³C tracer experiments

Metabolic fluxes provide invaluable insight on the integrated response of a cell to environmental stimuli or genetic modifications. Current computational methods for estimating the metabolic fluxes from ¹³C isoto...

Ari Rantanen, Juho Rousu, Paula Jouhten, Nicola Zamboni… in BMC Bioinformatics (2008)

Article

Information Theoretic Methods for Bioinformatics

Jorma Rissanen, Peter Grünwald… in EURASIP Journal on Bioinformatics and Syst… (2008)

Article

Probabilistic modeling and machine learning in structural and systems biology

This supplement contains extended versions of a selected subset of papers presented at the workshop PMSB 2007, Probabilistic Modeling and Machine Learning in Structural and Systems Biology, Tuusula, Finland, f...

Samuel Kaski, Juho Rousu, Esko Ukkonen in BMC Bioinformatics (2007)