Felipe Llinares-López
Felipe Llinares-López
Co-founder and Principal Research Scientist at Bioptimus
Verified email at
Cited by
Cited by
Wasserstein weisfeiler-lehman graph kernels
M Togninalli, E Ghisu, F Llinares-López, B Rieck, K Borgwardt
Advances in neural information processing systems 32, 2019
Efficient and modular implicit differentiation
M Blondel, Q Berthet, M Cuturi, R Frostig, S Hoyer, F Llinares-López, ...
Advances in neural information processing systems 35, 5230-5242, 2022
Prediction of human population responses to toxic compounds by a collaborative competition
F Eduati, LM Mangravite, T Wang, H Tang, JC Bare, R Huang, T Norman, ...
Nature biotechnology 33 (9), 933-940, 2015
Graph kernels: State-of-the-art and future challenges
K Borgwardt, E Ghisu, F Llinares-López, L O’Bray, B Rieck
Foundations and Trends® in Machine Learning 13 (5-6), 531-712, 2020
Fast and memory-efficient significant pattern mining via permutation testing
F Llinares-López, M Sugiyama, L Papaxanthos, K Borgwardt
Proceedings of the 21th ACM SIGKDD international conference on knowledge …, 2015
DeepConsensus improves the accuracy of sequences with a gap-aware sequence transformer
G Baid, DE Cook, K Shafin, T Yun, F Llinares-López, Q Berthet, ...
Nature Biotechnology 41 (2), 232-238, 2023
graphkernels: R and Python packages for graph comparison
M Sugiyama, ME Ghisu, F Llinares-López, K Borgwardt
Bioinformatics 34 (3), 530-532, 2018
Significant subgraph mining with multiple testing correction
M Sugiyama, FL López, N Kasenburg, KM Borgwardt
Proceedings of the 2015 SIAM international conference on data mining, 37-45, 2015
Genome-wide detection of intervals of genetic heterogeneity associated with complex traits
F Llinares-López, DG Grimm, DA Bodenham, U Gieraths, M Sugiyama, ...
Bioinformatics 31 (12), i240-i249, 2015
Finding significant combinations of features in the presence of categorical covariates
L Papaxanthos, F Llinares-López, D Bodenham, K Borgwardt
Advances in neural information processing systems 29, 2016
Deep embedding and alignment of protein sequences
F Llinares-López, Q Berthet, M Blondel, O Teboul, JP Vert
Nature Methods 20 (1), 104-111, 2023
Direct language model alignment from online ai feedback
S Guo, B Zhang, T Liu, T Liu, M Khalman, F Llinares, A Rame, T Mesnard, ...
arXiv preprint arXiv:2402.04792, 2024
Genome-wide genetic heterogeneity discovery with categorical covariates
F Llinares-López, L Papaxanthos, D Bodenham, D Roqueiro, ...
Bioinformatics 33 (12), 1820-1828, 2017
Network-assisted analysis of GWAS data identifies a functionally-relevant gene module for childhood-onset asthma
Y Liu, M Brossard, C Sarnowski, A Vaysse, M Moffatt, ...
Scientific reports 7 (1), 938, 2017
Deepconsensus: Gap-aware sequence transformers for sequence correction
G Baid, DE Cook, K Shafin, T Yun, F Llinares-Lopez, Q Berthet, ...
BioRxiv, 2021.08. 31.458403, 2021
CASMAP: detection of statistically significant combinations of SNPs in association mapping
F Llinares-López, L Papaxanthos, D Roqueiro, D Bodenham, K Borgwardt
Bioinformatics 35 (15), 2680-2682, 2019
Differentiable clustering with perturbed spanning forests
L Stewart, F Bach, F Llinares-López, Q Berthet
Advances in Neural Information Processing Systems 36, 2024
Learning energy networks with generalized fenchel-young losses
M Blondel, F Llinares-López, R Dadashi, L Hussenot, M Geist
Advances in Neural Information Processing Systems 35, 12516-12528, 2022
Machine learning for biomarker discovery: significant pattern mining
F Llinares-Lopez, K Borgwardt
Analyzing Network Data in Biology and Medicine: An Interdisciplinary …, 2019
Efficient and modular implicit differentiation,(2021)
M Blondel, Q Berthet, M Cuturi, R Frostig, S Hoyer, F Llinares-Lopez, ...
arXiv preprint arXiv:2105.15183, 0
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