Gustavo Stolovitzky

38 papers A 1B 2Misc 1Journal 27Unranked 6

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	A decentralized future for the open-science databases. CoRR Gaurav Sharma, Viorel Munteanu, Nika Mansouri-Ghiasi, Jineta Banerjee, Susheel Varma, Luca Foschini, Kyle Ellrott, Onur Mutlu, Dumitru Ciorba, Roel A. Ophoff, Viorel Bostan, Christopher E. Mason, Jason H. Moore, Despoina Sousoni, Arunkumar Krishnan, Mihai Dimian, Gustavo Stolovitzky, Fabio G. Liberante, Taras K. Oleksyk, Serghei Mangul
2025	J	`jnl`	Benchmarking and Evaluation of AI Models in Biology: Outcomes and Recommendations from the CZI Virtual Cells Workshop. CoRR Elizabeth Fahsbender, Alma Andersson, Jeremy Ash, Polina Binder, Daniel Burkhardt, Benjamin Chang, Georg K. Gerber, Anthony Gitter, Patrick Godau, Ankit Gupta, Genevieve Haliburton, Siyu He, Trey Ideker, Ivana Jelic, Aly Khan, Yang-Joon Kim, Aditi Krishnapriyan, Jon M. Laurent, Tianyu Liu, Emma Lundberg, Shalin B. Mehta, Rob Moccia, Angela Oliveira Pisco, Katherine S. Pollard, Suresh Ramani, Julio Saez-Rodriguez, Yasin Senbabaoglu, Elana Simon, Srinivasan Sivanandan, Gustavo Stolovitzky, Marc Valer, Bo Wang, Xikun Zhang, James Zou, Katrina Kalantar
2025	J	`jnl`	The life cycle of challenges and benchmarks. J. Data-centric Mach. Learn. Res. Gustavo Stolovitzky, Julio Saez-Rodriguez, Julie Bletz, Jake Albrecht, Gaia Andreoletti, James C. Costello, Paul C. Boutros
2024	J	`jnl`	AI Competitions and Benchmarks, Practical issues: Proposals, grant money, sponsors, prizes, dissemination, publicity. CoRR Magali Richard, Yuna Blum, Justin Guinney, Gustavo Stolovitzky, Adrien Pavão
2023	J	`jnl`	AI Competitions and Benchmarks: The life cycle of challenges and benchmarks. CoRR Gustavo Stolovitzky, Julio Saez-Rodriguez, Julie Bletz, Jacob Albrecht, Gaia Andreoletti, James C. Costello, Paul C. Boutros
2022	—	`ed.`	NeurIPS 2022 Competition Track, November 28 - December 9, 2022, Online NeurIPS (Competition and Demos) Marco Ciccone, Gustavo Stolovitzky, Jacob Albrecht
2021	—	`conf`	NeurIPS 2022 Competition Track Revised Selected Papers. NeurIPS (Competition and Demos) Marco Ciccone, Gustavo Stolovitzky, Jacob Albrecht
2020	—	`conf`	NeTFactor, a framework for identifying transcriptional regulators of gene expression-based biomarkers. BCB Mehmet Eren Ahsen, Yoojin Chun, Alexander Grishin, Galina Grishina, Gustavo Stolovitzky, Gaurav Pandey, Supinda Bunyavanich
2018	Misc	`conf`	Characterization of drug-induced splicing complexity in prostate cancer cell line using long read technology. PSB Xintong Chen, Sander M. Houten, Kimaada Allette, Robert P. Sebra, Gustavo Stolovitzky, Bojan Losic
2018	—	`conf`	Predictive Linguistic Markers of Suicidality in Poets. ICSC Carla Agurto, Pat Pataranutaporn, Elif K. Eyigöz, Gustavo Stolovitzky, Guillermo A. Cecchi
2018	J	`jnl`	Unsupervised Evaluation and Weighted Aggregation of Ranked Predictions. CoRR Mehmet Eren Ahsen, Robert M. Vogel, Gustavo Stolovitzky
2016	J	`jnl`	A Crowdsourcing Approach to Developing and Assessing Prediction Algorithms for AML Prognosis. PLoS Comput. Biol. David Noren, Byron Long, Raquel Norel, Kahn Rhrissorrakrai, Kenneth R. Hess, Chenyue W. Hu, Alex Bisberg, André Schultz, Erik Engquist, Li Liu, Xihui Lin, Gregory M. Chen, Honglei Xie, Geoffrey A. M. Hunter, Paul C. Boutros, Oleg A. Stepanov, DREAM 9 AML-OPC Consortium, Thea Norman, Stephen H. Friend, Gustavo Stolovitzky, Steven M. Kornblau, Amina A. Qutub
2016	J	`jnl`	A computational method for designing diverse linear epitopes including citrullinated peptides with desired binding affinities to intravenous immunoglobulin. BMC Bioinform. Rob Patro, Raquel Norel, Robert J. Prill, Julio Saez-Rodriguez, Peter Lorenz, Felix Steinbeck, Bjoern Ziems, Mitja Lustrek, Nicola Barbarini, Alessandra Tiengo, Riccardo Bellazzi, Hans-Jürgen Thiesen, Gustavo Stolovitzky, Carl Kingsford
2015	J	`jnl`	A crowd-sourcing approach for the construction of species-specific cell signaling networks. Bioinform. Erhan Bilal, Theodore Sakellaropoulos, Challenge Participants, Ioannis N. Melas, Dimitris E. Messinis, Vincenzo Belcastro, Kahn Rhrissorrakrai, Pablo Meyer, Raquel Norel, Anita Iskandar, Elise Blaese, John Jeremy Rice, Manuel C. Peitsch, Julia Hoeng, Gustavo Stolovitzky, Leonidas G. Alexopoulos, Carine Poussin
2015	J	`jnl`	DREAMTools: a Python package for scoring collaborative challenges. F1000Research Thomas Cokelaer, Mukesh Bansal, Christopher Bare, Erhan Bilal, Brian M. Bot, Elias Chaibub Neto, Federica Eduati, Mehmet Gönen, Steven M. Hill, Bruce R. Hoff, Jonathan R. Karr, Robert Küffner, Michael P. Menden, Pablo Meyer, Raquel Norel, Abhishek Pratap, Robert J. Prill, Matthew T. Weirauch, James C. Costello, Gustavo Stolovitzky, Julio Saez-Rodriguez
2015	J	`jnl`	Preface: RECOMB/ISCB Systems Biology, Regulatory Genomics, and DREAM 2014 Special Issue. J. Comput. Biol. Andrea Califano, Manolis Kellis, Gustavo Stolovitzky
2015	J	`jnl`	Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge. Bioinform. Kahn Rhrissorrakrai, Vincenzo Belcastro, Erhan Bilal, Raquel Norel, Carine Poussin, Carole Mathis, Rémi H. J. Dulize, Nikolai V. Ivanov, Leonidas G. Alexopoulos, John Jeremy Rice, Manuel C. Peitsch, Gustavo Stolovitzky, Pablo Meyer, Julia Hoeng
2014	—	`conf`	DREAM 9: An Acute Myeloid Leukemia Prediction Big Data Challenge. ICBO David Noren, Steven M. Kornblau, Chenyue W. Hu, Byron Long, Alex Bisberg, Raquel Norel, Gustavo Stolovitzky, Amina A. Qutub
2014	J	`jnl`	Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach. BMC Syst. Biol. Pablo Meyer, Thomas Cokelaer, Deepak Chandran, Kyung Hyuk Kim, Po-Ru Loh, George Tucker, Mark Lipson, Bonnie Berger, Clemens Kreutz, Andreas Raue, Bernhard Steiert, Jens Timmer, Erhan Bilal, Herbert M. Sauro, Gustavo Stolovitzky, Julio Saez-Rodriguez
2014	J	`jnl`	RECOMB/ISCB Systems Biology, Regulatory Genomics, and DREAM 2013 Special Issue. J. Comput. Biol. Andrea Califano, Manolis Kellis, Gustavo Stolovitzky
2014	J	`jnl`	Spatial localization of the first and last enzymes effectively connects active metabolic pathways in bacteria. BMC Syst. Biol. Pablo Meyer, Guillermo A. Cecchi, Gustavo Stolovitzky
2013	J	`jnl`	Preface: RECOMB Systems Biology, Regulatory Genomics, and DREAM 2012 Special Issue. J. Comput. Biol. Andrea Califano, Manolis Kellis, Gustavo Stolovitzky
2013	J	`jnl`	Strengths and limitations of microarray-based phenotype prediction: lessons learned from the IMPROVER Diagnostic Signature Challenge. Bioinform. Adi L. Tarca, Mario Lauria, Michael Unger, Erhan Bilal, Stéphanie Boué, Kushal Kumar Dey, Julia Hoeng, Heinz Koeppl, Florian Martin, Pablo Meyer, Preetam Nandy, Raquel Norel, Manuel C. Peitsch, John Jeremy Rice, Roberto Romero, Gustavo Stolovitzky, Marja Talikka, Yang Xiang, Christoph Zechner, Improver Dsc Collaborators
2012	J	`jnl`	Industrial methodology for process verification in research (IMPROVER): toward systems biology verification. Bioinform. Pablo Meyer, Julia Hoeng, John Jeremy Rice, Raquel Norel, Jörg Sprengel, Katrin Stolle, Thomas Bonk, Stephanie Corthesy, Ajay K. Royyuru, Manuel C. Peitsch, Gustavo Stolovitzky
2012	J	`jnl`	Preface: RECOMB Systems Biology, Regulatory Genomics, and DREAM 2011 Special Issue. J. Comput. Biol. Andrea Califano, Manolis Kellis, Gustavo Stolovitzky
2008	J	`jnl`	A noise model for mass spectrometry based proteomics. Bioinform. Peicheng Du, Gustavo Stolovitzky, Peter Horvatovich, Rainer Bischoff, Jihyeon Lim, Frank Suits
2008	J	`jnl`	Stability and Time-Delay Modeling of Negative Feedback Loops. Proc. IEEE John Wagner, Gustavo Stolovitzky
2007	J	`jnl`	ChIP-on-chip significance analysis reveals ubiquitous transcription factor binding. BMC Bioinform. Adam A. Margolin, Teresa Palomero, Adolfo A. Ferrando, Andrea Califano, Gustavo Stolovitzky
2007	J	`jnl`	Total ancestry measure: quantifying the similarity in tree-like classification, with genomic applications. Bioinform. Haiyuan Yu, Ronald Jansen, Gustavo Stolovitzky, Mark Gerstein
2006	J	`jnl`	ARACNE: An Algorithm for the Reconstruction of Gene Regulatory Networks in a Mammalian Cellular Context. BMC Bioinform. Adam A. Margolin, Ilya Nemenman, Katia Basso, Chris Wiggins, Gustavo Stolovitzky, Riccardo Dalla Favera, Andrea Califano
2005	—	`conf`	A Robust Meta-classification Strategy for Cancer Diagnosis from Gene Expression Data. CSB Gabriela Alexe, Gyan Bhanot, Babu Venkataraghavan, Ramakrishna Ramaswamy, Jorge Lepre, Arnold J. Levine, Gustavo Stolovitzky
2005	J	`jnl`	Reconstructing biological networks using conditional correlation analysis. Bioinform. John Jeremy Rice, Yuhai Tu, Gustavo Stolovitzky
2004	J	`jnl`	Genes@Work: an efficient algorithm for pattern discovery and multivariate feature selection in gene expression data. Bioinform. Jorge Lepre, John Jeremy Rice, Yuhai Tu, Gustavo Stolovitzky
2003	—	`conf`	Can We Identify Cellular Pathways Implicated in Cancer Using Gene Expression Data? CSB Nigam Shah, Jorge Lepre, Yuhai Tu, Gustavo Stolovitzky
2000	A	`conf`	Analysis of Gene Expression Microarrays for Phenotype Classification. ISMB Andrea Califano, Gustavo Stolovitzky, Yuhai Tu
2000	J	`jnl`	Systematic and Fully Automated Identification of Protein Sequence Patterns. J. Comput. Biol. Reece Hart, Ajay K. Royyuru, Gustavo Stolovitzky, Andrea Califano
2000	B	`conf`	Systematic and automated discovery of patterns in PROSITE families. RECOMB Reece Hart, Ajay K. Royyuru, Gustavo Stolovitzky, Andrea Califano
1999	B	`conf`	Sequence homology detection through large scale pattern discovery. RECOMB Aris Floratos, Isidore Rigoutsos, Laxmi Parida, Gustavo Stolovitzky, Yuan Gao