Towards Universal Cell Embeddings: Integrating Single-cell RNA-seq Datasets across Species with SATURN
Yanay Rosen*, Maria Brbic*, Yusuf Roohani*, Kyle Swanson, Ziang, Li, Jure Leskovec
bioRxiv 2023
Aging Fly Cell Atlas Identifies Exhaustive Aging Features at Cellular Resolution
Tzu-Chiao Lu*, Maria Brbic*, Ye-Jin Park, Tyler Jackson, Jiaye Chen, Sai Saroja Kolluru, Yanyan Qi, Nadja Sandra Katheder, Xiaoyu Tracy Cai, Seungjae Lee, YenChung Chen, Niccole Auld, Doug Welsch, Samuel D’Souza , Angela Oliveira Pisco , Robert C. Jones , Jure Leskovec, Eric C. Lai, Hugo J. Bellen, Liqun Luo, Heinrich Jasper, Stephen R. Quake, Hongjie Li
bioRxiv 2022
High Resolution Single Cell Maps Reveals Distinct Cell Organization and Function Across Different Regions of the Human Intestine
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bioRxiv 2022
Annotation of Spatially Resolved Single-cell Data with STELLAR
Maria Brbic*, Kaidi Cao*, John W. Hickey*, Yuqi Tan, Michael Snyder, Garry P. Nolan, Jure Leskovec
Nature Methods 2022
Open-World Semi-Supervised Learning
Kaidi Cao*, Maria Brbic*, Jure Leskovec
International Conference on Learning Representations (ICLR) 2022
Fly Cell Atlas: A Single-Cell Transcriptomic Atlas of the Adult Fruit Fly
Hongjie Li, Jasper Janssens, Maxime De Waegeneer, Sai Saroja Kolluru, Kristofer Davie, Vincent Gardeux, Wouter Saelens, Fabrice David, Maria Brbic, Katina Spanier, Jure Leskovec, Colleen N. McLaughlin, Qijing Xie, Robert C. Jones et al.
Science 2022
Chemoreceptor Co-Expression in Drosophila Olfactory Neurons
Darya Task, Chun-Chieh Lin, Alina Vulpe, Ali Afify, Sydney Ballou, Maria Brbic, Philipp Schlegel, Gregory S. X. E. Jefferis, Hongjie Li, Karen Menuz, Christopher J. Potter
eLife 2022
Concept Learners for Few-Shot Learning
K. Cao*, M. Brbic*, J. Leskovec
International Conference on Learning Representations (ICLR) 2021
Leveraging the Cell Ontology to Classify Unseen Cell Types
S. Wang, A. O. Pisco, A. McGeever, M. Brbic, M. Zitnik, S. Darmanis, J. Leskovec, J. Karkanias, R. B. Altman
Nature Communications 2021
Single-Cell Transcriptomes of Developing and Adult Olfactory Receptor Neurons in Drosophila
C. N. McLaughlin*, M. Brbic*, Q. Xie, T. Li, F. Horns, S. S. Kolluru, J. M. Kebschull, D. Vacek, A. Xie, J. Li, R. Jones, J. Leskovec, S. R. Quake, L. Luo, H. Li
eLife 2021
Temporal evolution of Single-Cell Transcriptomes of Drosophila Olfactory Projection Neurons
Q. Xie, M. Brbic, F. Horns, S. S. Kolluru, B. Jones, J. Li, R. Reddy, A. Xie, S. Kohani, Z. Li, C. N. McLaughlin, T. Li, C. Xu, D. Vacek, D. J. Luginbuhl, J. Leskovec, S. R. Quake, L. Luo, H. Li
eLife 2021
MARS: Discovering Novel Cell Types across Heterogeneous Single-Cell Experiments
M. Brbic, M. Zitnik, S. Wang, A. O. Pisco, R. B. Altman, S. Darmanis, J. Leskovec
Nature Methods 2020
Selective Sampling-Based Scalable Sparse Subspace Clustering
S. Matsushima, M. Brbic
Advances in Neural Information Processing Systems (NeurIPS) 2019
A Synthesis of Bacterial and Archaeal Phenotypic Trait Data
J. S. Madin, D. A. Nielsen, M. Brbic, R. Corkrey et al.
Scientific Data 2020
Model-Agnostic Graph Regularization for Few-Shot Learning
E. Z. Shen, M. Brbic, N. Monath, J. Zhai, M. Zaheer, J. Leskovec
NeurIPS Workshop on Meta-Learning 2020
ℓ₀-Motivated Low-Rank Sparse Subspace Clustering
M. Brbic, I. Kopriva
IEEE Transactions on Cybernetics 2018
Multi-View Low-Rank Sparse Subspace Clustering
M. Brbic, I. Kopriva
Pattern Recognition 2018
Phenotype Inference from Text and Genomic Data
M. Brbic, M. Piskorec, V. Vidulin, A. Kriško, T. Šmuc, F. Supek
Joint European Conference on Machine Learning and Knowledge Discovery in Databases (ECML-PKDD) 2017
The Landscape of Microbial Phenotypic Traits and Associated Genes
M. Brbic, M. Piskorec, V. Vidulin, A. Krisko, T. Smuc, F. Supek
Nucleic Acids Research 2016
Global Shifts in Genome and Proteome Composition Are Very Tightly Coupled
M. Brbic, T. Warnecke, A. Krisko, F. Supek
Genome Biology and Evolution 2015