Alexander Mazein

According to our database, Alexander Mazein authored at least 17 papers between 2016 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance.

Alexander Mazein, Marcio Luis Acencio, Irina Balaur, Adrien Rougny, Danielle Welter, Anna Niarakis, Diana Ramirez Ardila, Ugur Dogrusoz, Piotr Gawron, Venkata P. Satagopam, Wei Gu, Andreas Kremer, Reinhard Schneider, Marek Ostaszewski

Frontiers Bioinform., May, 2023

StonPy: a tool to parse and query collections of SBGN maps in a graph database.

Adrien Rougny, Irina Balaur, Augustin Luna, Alexander Mazein

Bioinform., March, 2023

2022

GraphML-SBGN bidirectional converter for metabolic networks.

Irina Balaur, Ludovic Roy, Vasundra Touré, Alexander Mazein, Charles Auffray

J. Integr. Bioinform., 2022

2021

Newt: a comprehensive web-based tool for viewing, constructing and analyzing biological maps.

Hasan Balci, Metin Can Siper, Nasim Saleh, Ilkin Safarli, Ludovic Roy, Merve Kilicarslan, Rumeysa Ozaydin, Alexander Mazein, Charles Auffray, Özgün Babur, Emek Demir, Ugur Dogrusoz

Bioinform., 2021

SBGN Bricks Ontology as a tool to describe recurring concepts in molecular networks.

Adrien Rougny, Vasundra Touré, John Albanese, Dagmar Waltemath, Denis Shirshov, Anatoly A. Sorokin, Gary D. Bader, Michael L. Blinov, Alexander Mazein

Briefings Bioinform., 2021

Reusability and composability in process description maps: RAS-RAF-MEK-ERK signalling.

Alexander Mazein, Adrien Rougny, Jonathan R. Karr, Julio Saez-Rodriguez, Marek Ostaszewski, Reinhard Schneider

Briefings Bioinform., 2021

2020

Systems biology graphical notation markup language (SBGNML) version 0.3.

Frank T. Bergmann, Tobias Czauderna, Ugur Dogrusoz, Adrien Rougny, Andreas Dräger, Vasundra Touré, Alexander Mazein, Michael L. Blinov, Augustin Luna

J. Integr. Bioinform., 2020

cd2sbgnml: bidirectional conversion between CellDesigner and SBGN formats.

Irina Balaur, Ludovic Roy, Alexander Mazein, S. Gökberk Karaca, Ugur Dogrusoz, Emmanuel Barillot, Andrei Yu. Zinovyev

Bioinform., 2020

RA-map: building a state-of-the-art interactive knowledge base for rheumatoid arthritis.

Vidisha Singh, George D. Kalliolias, Marek Ostaszewski, Maëva Veyssiere, Eleftherios Pilalis, Piotr Gawron, Alexander Mazein, Eric Bonnet, Elisabeth Petit-Teixeira, Anna Niarakis

Database J. Biol. Databases Curation, 2020

Human-like layout algorithms for signalling hypergraphs: outlining requirements.

Martin Siebenhaller, Sune S. Nielsen, Fintan McGee, Irina Balaur, Charles Auffray, Alexander Mazein

Briefings Bioinform., 2020

2019

Systems Biology Graphical Notation: Process Description language Level 1 Version 2.0.

Adrien Rougny, Vasundra Touré, Stuart L. Moodie, Irina Balaur, Tobias Czauderna, Hanna Borlinghaus, Ugur Dogrusoz, Alexander Mazein, Andreas Dräger, Michael L. Blinov, Alice Villéger, Robin Haw, Emek Demir, Huaiyu Mi, Anatoly A. Sorokin, Falk Schreiber, Augustin Luna

J. Integr. Bioinform., 2019

Community-driven roadmap for integrated disease maps.

Marek Ostaszewski, Stephan Gebel, Inna Kuperstein, Alexander Mazein, Andrei Yu. Zinovyev, Ugur Dogrusoz, Jan Hasenauer, Ronan M. T. Fleming, Nicolas Le Novère, Piotr Gawron, Thomas S. Ligon, Anna Niarakis, David P. Nickerson, Daniel Weindl, Rudi Balling, Emmanuel Barillot, Charles Auffray, Reinhard Schneider

Briefings Bioinform., 2019

2018

A computational framework for complex disease stratification from multiple large-scale datasets.

Bertrand De Meulder, Diane Lefaudeux, Aruna T. Bansal, Alexander Mazein, Amphun Chaiboonchoe, Hassan Ahmed, Irina Balaur, Mansoor A. S. Saqi, Johann Pellet, Stéphane Ballereau, Nathanaël Lemonnier, Kai Sun, Ioannis Pandis, Xian Yang, Manohara Batuwitage, Kosmas Kretsos, Jonathan van Eyll, Alun Bedding, Timothy Davison, Paul Dodson, Christopher Larminie, Anthony D. Postle, Julie Corfield, Ratko Djukanovic, Kian Fan Chung, Ian M. Adcock, Yike Guo, Peter J. Sterk, Alexander Manta, Anthony Rowe, Frédéric Baribaud, Charles Auffray

BMC Syst. Biol., 2018

2017

EpiGeNet: A Graph Database of Interdependencies Between Genetic and Epigenetic Events in Colorectal Cancer.

Irina Balaur, Mansoor A. S. Saqi, Ana Barat, Artem Lysenko, Alexander Mazein, Christopher J. Rawlings, Heather J. Ruskin, Charles Auffray

J. Comput. Biol., 2017

Recon2Neo4j: applying graph database technologies for managing comprehensive genome-scale networks.

Irina Balaur, Alexander Mazein, Mansoor A. S. Saqi, Artem Lysenko, Christopher J. Rawlings

Bioinform., 2017

2016

STON: exploring biological pathways using the SBGN standard and graph databases.

Vasundra Touré, Alexander Mazein, Dagmar Waltemath, Irina Balaur, Mansoor A. S. Saqi, Ron Henkel, Johann Pellet, Charles Auffray

BMC Bioinform., 2016

Representing and querying disease networks using graph databases.

Artem Lysenko, Irina A. Roznovat, Mansoor A. S. Saqi, Alexander Mazein, Christopher J. Rawlings, Charles Auffray

BioData Min., 2016