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2020 – today
- 2025
[j28]Miroslav Kratochvíl, St. Elmo Wilken, Oliver Ebenhöh, Reinhard Schneider, Venkata P. Satagopam:
COBREXA 2: tidy and scalable construction of complex metabolic models. Bioinform. 41(2) (2025)- [j27]Rebecca Ting Jiin Loo
, Lukas Pavelka, Graziella Mangone, Fouad Khoury, Marie Vidailhet, Jean-Christophe Corvol, Enrico Glaab, Geeta Acharya, Gloria Aguayo, Myriam Alexandre, Muhammad Ali, Wim Ammerlann, Giuseppe Arena, Michele Bassis, Roxane Batutu, Katy Beaumont, Sibylle Béchet, Guy Berchem, Alexandre Bisdorff, Ibrahim Boussaad, David Bouvier, Lorieza Castillo, Gessica Contesotto, Nancy De Bremaeker, Brian Dewitt, Nico Diederich, Rene Dondelinger, Nancy E. Ramia, Maria Fernanda Niño Uribe, Angelo Ferrari, Ana Festas Lopes, Katrin Frauenknecht, Joëlle Fritz, Carlos Gamio, Manon Gantenbein, Piotr Gawron, Laura Georges, Soumyabrata Ghosh, Marijus Giraitis, Martine Goergen, Elisa Gómez de Lope, Jérôme Graas, Mariella Graziano, Valentin Grouès, Anne Grünewald, Gaël Hammot, Anne-Marie Hanff, Linda Hansen, Michael Heneka, Estelle Henry, Margaux Henry, Sylvia Herbrink, Sascha Herzinger, Alexander Hundt, Nadine Jacoby, Sonja Jónsdóttir, Jochen Klucken, Olga Kofanova, Rejko Krüger, Pauline Lambert, Zied Landoulsi, Roseline Lentz, Victoria Lorentz, Tainá M. Marques, Guilherme Marques, Patricia Martins Conde, Patrick May, Deborah Mcintyre, Chouaib Mediouni, Francoise Meisch, Alexia Mendibide, Myriam Menster, Maura Minelli, Michel Mittelbronn, Saïda Mtimet, Maeva Munsch, Romain Nati, Ulf Nehrbass, Sarah Nickels, Beatrice Nicolai, Jean-Paul Nicolay, Fozia Noor, Clarissa P. C. Gomes, Sinthuja Pachchek, Claire Pauly, Laure Pauly, Magali Perquin, Achilleas Pexaras, Armin Rauschenberger, Rajesh Rawal, Dheeraj Reddy Bobbili, Lucie Remark, Ilsé Richard, Olivia Roland, Kirsten Roomp, Eduardo Rosales, Stefano Sapienza, Venkata P. Satagopam, Sabine Schmitz, Reinhard Schneider, Jens Schwamborn, Raquel Severino, Amir Sharify, Ruxandra Soare, Ekaterina Soboleva, Kate Sokolowska, Maud Theresine, Hermann Thien, Elodie Thiry, Johanna Trouet, Olena Tsurkalenko, Michel Vaillant, Carlos Vega, Liliana Vilas Boas, Paul Wilmes, Evi Wollscheid-Lengeling, Gelani Zelimkhanov, Marie-Alexandrine, Isabelle Arnulf, Samir Bekadar, Eve Benchetrit, Alexis Brice, Alizé Chalançon, Benoit Colsch, Florence Cormier-Dequaire, Virginie Czernecki, Bertrand Degos, Pauline Dodet, Carole Dongmo-Kenfack, Cécile Galléa, Rahul Gaurav, Manon Gomes, David Grabli, Marie-Odile Habert, Élodie Hainque, Farid Ichou, Jonas Ihle, Laetitia Jeancolas, Christelle Laganot, Louis-Laure Mariani, Mickaël Lé, Stéphane Lehéricy, Suzanne Lesage, Smaranda Leu Semenescu, Richard Levy, Valentine Maheo, Poornima Menon, Fanny Mochel, Vincent Perlbarg, Dijana Petrovska, Fanny Pineau, Nadya Pyatigorskaya, Sophie Rivaud-Péchoux, Sara Sambin, Julie Socha, Arthur Tenenhaus, Romain Valabrègue, Caroline Weill, Lydia Yahia-Cherif:
Multi-cohort machine learning identifies predictors of cognitive impairment in Parkinson's disease. npj Digit. Medicine 8(1) (2025) - [j26]Taras Lukashiv, Igor V. Malyk, Ahmed Abdelmonem Hemedan, Venkata P. Satagopam:
Optimal Control of Stochastic Dynamic Systems with Semi-Markov Parameters. Symmetry 17(4): 498 (2025) - [c9]Beatriz Garcia Santa Cruz, Jaleh Shoshtarian Malak, Hanna Cwiek-Kupczynska, Venkata P. Satagopam:
From Data to Value: Gaps in Federated Learning Evaluation for Clinical Deployment in Medical Imaging. BRIDGE/DeCaF@MICCAI 2025: 46-55 - [c8]Beatriz Garcia Santa Cruz, Carlos Vega, Philip Santangelo, Venkata P. Satagopam:
Beyond Engagement: A Multidimensional Framework to Evaluate the Safe Development of Agentic AI in Mental Health. Agentic AI/CREATE/Clinical MLLMs@MICCAI 2025: 74-84 - [i3]Basel Alshaikhdeeb, Ahmed Abdelmonem Hemedan, Soumyabrata Ghosh, Irina Balaur, Venkata P. Satagopam:
Generation of Synthetic Clinical Text: A Systematic Review. CoRR abs/2507.18451 (2025) - 2024
- [j25]Ilya Mazein, Adrien Rougny, Alexander Mazein, Ron Henkel, Lea Gütebier, Lea Michaelis, Marek Ostaszewski, Reinhard Schneider, Venkata P. Satagopam, Lars Juhl Jensen, Dagmar Waltemath, Judith A. H. Wodke, Irina Balaur:
Graph databases in systems biology: a systematic review. Briefings Bioinform. 25(6) (2024) - [j24]Carlos Vega, Marek Ostaszewski, Valentin Grouès, Reinhard Schneider, Venkata P. Satagopam:
BioKC: a collaborative platform for curation and annotation of molecular interactions. Database J. Biol. Databases Curation 2024 (2024) - [j23]Cyril Brzenczek, Quentin Klopfenstein, Tom Hähnel, Holger Fröhlich, Enrico Glaab, Geeta Acharya, Gloria Aguayo, Myriam Alexandre, Muhammad Ali, Wim Ammerlann, Giuseppe Arena, Michele Bassis, Roxane Batutu, Katy Beaumont, Sibylle Béchet, Guy Berchem, Alexandre Bisdorff, Ibrahim Boussaad, David Bouvier, Lorieza Castillo, Gessica Contesotto, Nancy De Bremaeker, Brian Dewitt, Nico Diederich, Rene Dondelinger, Nancy E. Ramia, Angelo Ferrari, Katrin Frauenknecht, Joëlle Fritz, Carlos Gamio, Manon Gantenbein, Piotr Gawron, Laura Georges, Soumyabrata Ghosh, Marijus Giraitis, Martine Goergen, Elisa Gómez de Lope, Jérôme Graas, Mariella Graziano, Valentin Grouès, Anne Grünewald, Gaël Hammot, Anne-Marie Hanff, Linda Hansen, Michael Heneka, Estelle Henry, Margaux Henry, Sylvia Herbrink, Sascha Herzinger, Alexander Hundt, Nadine Jacoby, Sonja Jónsdóttir, Jochen Klucken, Olga Kofanova, Rejko Krüger, Pauline Lambert, Zied Landoulsi, Roseline Lentz, Ana Festas Lopes, Victoria Lorentz, Tainá M. Marques, Guilherme Marques, Patricia Martins Conde, Patrick May, Deborah Mcintyre, Chouaib Mediouni, Francoise Meisch, Alexia Mendibide, Myriam Menster, Maura Minelli, Michel Mittelbronn, Saïda Mtimet, Maeva Munsch, Romain Nati, Ulf Nehrbass, Sarah Nickels, Beatrice Nicolai, Jean-Paul Nicolay, Maria Fernanda Niño Uribe, Fozia Noor, Clarissa P. C. Gomes, Sinthuja Pachchek, Claire Pauly, Laure Pauly, Lukas Pavelka, Magali Perquin, Achilleas Pexaras, Armin Rauschenberger, Rajesh Rawal, Dheeraj Reddy Bobbili, Lucie Remark, Ilsé Richard, Olivia Roland, Kirsten Roomp, Eduardo Rosales, Stefano Sapienza, Venkata P. Satagopam, Sabine Schmitz, Reinhard Schneider, Jens Schwamborn, Raquel Severino, Amir Sharify, Ruxandra Soare, Ekaterina Soboleva, Kate Sokolowska, Maud Theresine, Hermann Thien, Elodie Thiry, Rebecca Ting Jiin Loo, Johanna Trouet, Olena Tsurkalenko, Michel Vaillant, Carlos Vega, Liliana Vilas Boas, Paul Wilmes, Evi Wollscheid-Lengeling, Gelani Zelimkhanov:
Integrating digital gait data with metabolomics and clinical data to predict outcomes in Parkinson's disease. npj Digit. Medicine 7(1) (2024) - 2023
- [j22]Piotr Gawron, David Hoksza, Janet Piñero, María Peña-Chilet, Marina Esteban-Medina, Jose Luis Fernandez-Rueda, Vincenza Colonna, Ewa Smula, Laurent Heirendt, François Ancien, Valentin Grouès, Venkata P. Satagopam, Reinhard Schneider, Joaquín Dopazo, Laura I. Furlong, Marek Ostaszewski:
Visualization of automatically combined disease maps and pathway diagrams for rare diseases. Frontiers Bioinform. 3 (2023) - [j21]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:
A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance. Frontiers Bioinform. 3 (2023) - [j20]Carlos Vega, Reinhard Schneider, Venkata P. Satagopam:
Analysis: Flawed Datasets of Monkeypox Skin Images. J. Medical Syst. 47(1): 37 (2023) - [c7]Wei Gu, Christophe Trefois, Pinar Alper, Danielle Welter, Yohan Jarosz, Jacek Lebioda, Linda Ebermann, Regina Becker, Venkata P. Satagopam, Reinhard Schneider, Bert Verdonck:
RDM Services at the Luxembourg National Data Service. CoRDI 2023 - [c6]Dagmar Waltemath, Esther Thea Inau, Lea Michaelis, Venkata P. Satagopam, Irina Balaur:
Experiences From FAIRifying Community Data and FAIR Infrastructure in Biomedical Research Domains. CoRDI 2023 - 2022
- [j19]Miroslav Kratochvíl, Laurent Heirendt, St. Elmo Wilken, Taneli Pusa, Sylvain Arreckx, Alberto Noronha, Marvin van Aalst, Venkata P. Satagopam, Oliver Ebenhöh, Reinhard Schneider, Christophe Trefois, Wei Gu:
COBREXA.jl: constraint-based reconstruction and exascale analysis. Bioinform. 38(4): 1171-1172 (2022) - [j18]Valentin Grouès, Carlos Vega, Venkata P. Satagopam:
A formalization of one of the main claims of "Mutations in STX1B, encoding a presynaptic protein, cause fever-associated epilepsy syndromes" by Schubert et al. 20141. Data Sci. 5(1): 71-73 (2022) - [c5]Carlos Vega, Miroslav Kratochvíl, Venkata P. Satagopam, Reinhard Schneider:
Translational Challenges of Biomedical Machine Learning Solutions in Clinical and Laboratory Settings. IWBBIO (2) 2022: 353-358 - 2021
- [j17]Michael Bernhofer, Christian Dallago, Timothy Karl, Venkata P. Satagopam, Michael Heinzinger, Maria Littmann, Tobias Olenyi, Jiajun Qiu, Konstantin Schütze, Guy Yachdav, Haim Ashkenazy, Nir Ben-Tal, Yana Bromberg, Tatyana Goldberg, László Kaján, Seán I. O'Donoghue, Chris Sander, Andrea Schafferhans, Avner Schlessinger, Gerrit Vriend, Milot Mirdita, Piotr Gawron, Wei Gu, Yohan Jarosz, Christophe Trefois, Martin Steinegger, Reinhard Schneider, Burkhard Rost:
PredictProtein - Predicting Protein Structure and Function for 29 Years. Nucleic Acids Res. 49(Webserver-Issue): 535-540 (2021)
2010 – 2019
- 2019
- [j16]Adriano Barbosa-Silva, Dorina Bratfalean, Wei Gu, Venkata P. Satagopam, Paul Houston, Lauren B. Becnel, Serge Eifes, Fabien Richard, Andreas Tielmann, Sascha Herzinger, Kavita Rege, Rudi Balling, Paul Peeters:
Presenting and sharing clinical data using the eTRIKS Standards Master Tree for tranSMART. Bioinform. 35(9): 1562-1565 (2019) - [j15]Wei Gu, Reha Yildirimman, Emmanuel Van der Stuyft, Denny Verbeeck, Sascha Herzinger, Venkata P. Satagopam, Adriano Barbosa-Silva, Reinhard Schneider, Bodo M. H. Lange, Hans Lehrach, Yike Guo, David Henderson, Anthony Rowe:
Data and knowledge management in translational research: implementation of the eTRIKS platform for the IMI OncoTrack consortium. BMC Bioinform. 20(1): 164:1-164:11 (2019) - 2018
- [j14]Anupama Jigisha, Margherita Francescatto, Farzana Rahman, Nazeefa Fatima, Dan F. DeBlasio, Avinash Kumar Shanmugam, Venkata P. Satagopam, Alberto Santos, Pandurang Kolekar, Magali Michaut, Emre Guney:
The ISCB Student Council Internship Program: Expanding computational biology capacity worldwide. PLoS Comput. Biol. 14(1) (2018) - [c4]Pinar Alper, Regina Becker, Venkata P. Satagopam, Christophe Trefois, Valentin Grouès, Jacek Lebioda, Yohan Jarosz:
Provenance-Enabled Stewardship of Human Data in the GDPR Era. IPAW 2018: 266-269 - 2017
- [j13]Juan Miguel Cejuela, Aleksandar Bojchevski, Carsten Uhlig, Rustem Bekmukhametov, Sanjeev Kumar Karn, Shpend Mahmuti, Ashish Baghudana, Ankit Dubey, Venkata P. Satagopam, Burkhard Rost:
nala: text mining natural language mutation mentions. Bioinform. 33(12): 1852-1858 (2017) - [j12]Sascha Herzinger, Wei Gu, Venkata P. Satagopam, Serge Eifes, Kavita Rege, Adriano Barbosa-Silva, Reinhard Schneider:
SmartR: an open-source platform for interactive visual analytics for translational research data. Bioinform. 33(14): 2229-2231 (2017) - [c3]Maria Biryukov, Valentin Grouès, Venkata P. Satagopam:
BioKB - Text mining and semantic technologies for the biomedical content discovery. SWAT4LS 2017 - [i2]Laurent Heirendt, Sylvain Arreckx, Christophe Trefois, Yohan Yarosz, Maharshi Vyas, Venkata P. Satagopam, Reinhard Schneider, Ines Thiele, Ronan M. T. Fleming:
ARTENOLIS: Automated Reproducibility and Testing Environment for Licensed Software. CoRR abs/1712.05236 (2017) - [i1]Merlijn N. van Rijswijk, Charlie Beirnaert, Christophe Caron, Marta Cascante, Victoria Dominguez Del Angel, Warwick B. Dunn, Timothy M. D. Ebbels, Franck Giacomoni, Alejandra N. González-Beltrán, Thomas Hankemeier, Kenneth Haug, Jose L. Izquierdo-García, Rafael C. Jiménez, Fabien Jourdan, Namrata Kale, Maria I. Klapa, Oliver Kohlbacher, Kairi Koort, Kim Kultima, Gildas Le Corguillé, Nicholas K. Moschonas, Steffen Neumann, Claire O'Donovan, Martin Reczko, Philippe Rocca-Serra, Antonio Rosato, Reza M. Salek, Susanna-Assunta Sansone, Venkata P. Satagopam, Daniel Schober, Ruth Shimmo, Rachel A. Spicer, Ola Spjuth, Etienne A. Thévenot, Mark R. Viant, Ralf J. M. Weber, Egon L. Willighagen, Gianluigi Zanetti, Christoph Steinbeck:
The future of metabolomics in ELIXIR. F1000Research 6: 1649- (2017) - 2016
- [j11]Venkata P. Satagopam, Wei Gu, Serge Eifes, Piotr Gawron, Marek Ostaszewski, Stephan Gebel, Adriano Barbosa-Silva, Rudi Balling, Reinhard Schneider:
Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases. Big Data 4(2): 97-108 (2016) - [c2]Valentin Grouès, Maria Biryukov, Christophe Trefois, Venkata P. Satagopam:
Semantic Web Technologies for a Knowledge Base of Biomedical Facts Extracted from Scientific Literature. SWAT4LS 2016 - 2015
- [j10]Nikolas Papanikolaou, Georgios A. Pavlopoulos, Evangelos Pafilis, Theodosios Theodosiou, Reinhard Schneider, Venkata P. Satagopam, Christos A. Ouzounis, Aristides G. Eliopoulos, Vasilis J. Promponas, Ioannis Iliopoulos:
BioTextQuest+: a knowledge integration platform for literature mining and concept discovery. Bioinform. 31(6): 979 (2015) - 2014
- [j9]Nikolas Papanikolaou, Georgios A. Pavlopoulos, Evangelos Pafilis, Theodosios Theodosiou, Reinhard Schneider, Venkata P. Satagopam, Christos A. Ouzounis, Aristides G. Eliopoulos, Vasilis J. Promponas, Ioannis Iliopoulos:
BioTextQuest+: a knowledge integration platform for literature mining and concept discovery. Bioinform. 30(22): 3249-3256 (2014) - [j8]Norman E. Davey, Venkata P. Satagopam, Salvador Santiago-Mozos, Carlos Villacorta-Martin, Tanmay A. M. Bharat, Reinhard Schneider, John A. G. Briggs:
The HIV Mutation Browser: A Resource for Human Immunodeficiency Virus Mutagenesis and Polymorphism Data. PLoS Comput. Biol. 10(12) (2014) - 2013
- [j7]Jeroen de Ridder, Thomas Abeel, Magali Michaut, Venkata P. Satagopam, Nils Gehlenborg:
Don't Wear Your New Shoes (Yet): Taking the Right Steps to Become a Successful Principal Investigator. PLoS Comput. Biol. 9(1) (2013) - [j6]Jeroen de Ridder, Yana Bromberg, Magali Michaut, Venkata P. Satagopam, Manuel Corpas, Geoff MacIntyre, Theodore Alexandrov:
The Young PI Buzz: Learning from the Organizers of the Junior Principal Investigator Meeting at ISMB-ECCB 2013. PLoS Comput. Biol. 9(11) (2013) - [c1]Evangelos Pafilis, Georgios A. Pavlopoulos, Venkata P. Satagopam, Nikolas Papanikolaou, Heiko Horn, Christos Arvanitidis, Lars Juhl Jensen, Reinhard Schneider, Ioannis Iliopoulos:
OnTheFly 2.0: A tool for automatic annotation of files and biological information extraction. BIBE 2013: 1-4 - 2012
- [j5]Theodoros G. Soldatos, Seán I. O'Donoghue, Venkata P. Satagopam, Adriano Barbosa-Silva, Georgios A. Pavlopoulos, Ana Carolina Wanderley-Nogueira, Nina da Mota Soares-Cavalcanti, Reinhard Schneider:
Caipirini: using gene sets to rank literature. BioData Min. 5: 1 (2012) - 2010
- [j4]Venkata P. Satagopam, Margarita C. Theodoropoulou, Christos K. Stampolakis, Georgios A. Pavlopoulos, Nikolaos Papandreou, Pantelis G. Bagos, Reinhard Schneider, Stavros J. Hamodrakas:
GPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques. Database J. Biol. Databases Curation 2010 (2010) - [j3]Seán I. O'Donoghue, Heiko Horn, Evangelos Pafilis, Sven Haag, Michael Kuhn, Venkata P. Satagopam, Reinhard Schneider, Lars Juhl Jensen:
Reflect: A practical approach to web semantics. J. Web Semant. 8(2-3): 182-189 (2010)
2000 – 2009
- 2008
- [j2]Adriano Barbosa-Silva, Venkata P. Satagopam, Reinhard Schneider, José Miguel Ortega:
Clustering of cognate proteins among distinct proteomes derived from multiple links to a single seed sequence. BMC Bioinform. 9 (2008) - [j1]Georgios A. Pavlopoulos, Seán I. O'Donoghue, Venkata P. Satagopam, Theodoros G. Soldatos, Evangelos Pafilis, Reinhard Schneider:
Arena3D: visualization of biological networks in 3D. BMC Syst. Biol. 2: 104 (2008)
Coauthor Index
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