| Estimating gene gain and loss rates in the presence of error in genome assembly and annotation using CAFE 3 MV Han, GWC Thomas, J Lugo-Martinez, MW Hahn Molecular biology and evolution 30 (8), 1987-1997, 2013 | 731 | 2013 |
| Conservation cores: reducing the energy of mature computations G Venkatesh, J Sampson, N Goulding, S Garcia, V Bryksin, ... ACM Sigplan Notices 45 (3), 205-218, 2010 | 685 | 2010 |
| Inferring the molecular and phenotypic impact of amino acid variants with MutPred2 V Pejaver, J Urresti, J Lugo-Martinez, KA Pagel, GN Lin, HJ Nam, M Mort, ... Nature communications 11 (1), 5918, 2020 | 578 | 2020 |
| Extensive error in the number of genes inferred from draft genome assemblies JF Denton, J Lugo-Martinez, AE Tucker, DR Schrider, WC Warren, ... PLoS computational biology 10 (12), e1003998, 2014 | 298 | 2014 |
| Ultra high-dimensional nonlinear feature selection for big biological data M Yamada, J Tang, J Lugo-Martinez, E Hodzic, R Shrestha, A Saha, ... IEEE Transactions on Knowledge and Data Engineering 30 (7), 1352-1365, 2018 | 85 | 2018 |
| Dynamic interaction network inference from longitudinal microbiome data J Lugo-Martinez, D Ruiz-Perez, G Narasimhan, Z Bar-Joseph Microbiome 7, 1-14, 2019 | 81 | 2019 |
| Dynamic bayesian networks for integrating multi-omics time series microbiome data D Ruiz-Perez, J Lugo-Martinez, N Bourguignon, K Mathee, B Lerner, ... Msystems 6 (2), 10.1128/msystems. 01105-20, 2021 | 34 | 2021 |
| The loss and gain of functional amino acid residues is a common mechanism causing human inherited disease J Lugo-Martinez, V Pejaver, KA Pagel, S Jain, M Mort, DN Cooper, ... PLoS computational biology 12 (8), e1005091, 2016 | 25 | 2016 |
| Generalized graphlet kernels for probabilistic inference in sparse graphs J Lugo-Martinez, P Radivojac Network Science 2 (2), 254-276, 2014 | 19 | 2014 |
| Classification in biological networks with hypergraphlet kernels J Lugo-Martinez, D Zeiberg, T Gaudelet, N Malod-Dognin, N Przulj, ... Bioinformatics 37 (7), 1000-1007, 2021 | 14 | 2021 |
| Classification in biological networks with hypergraphlet kernels J Lugo-Martinez, P Radivojac arXiv preprint arXiv:1703.04823, 2017 | 13 | 2017 |
| MutPred2: inferring the molecular and phenotypic impact of amino acid variants. bioRxiv 134981 V Pejaver, J Urresti, J Lugo-Martinez, KA Pagel, GN Lin, HJ Nam, M Mort, ... URL: https://www. biorxiv. org/content/early/2017/05/09/134981, 2017 | 13 | 2017 |
| Integrating longitudinal clinical and microbiome data to predict growth faltering in preterm infants J Lugo-Martinez, S Xu, J Levesque, D Gallagher, LA Parker, J Neu, ... Journal of Biomedical Informatics 128, 104031, 2022 | 7 | 2022 |
| Optimal transport for mapping senescent cells in spatial transcriptomics ND Nguyen, L Rosas, T Khaliullin, P Jiang, E Hasanaj, JA Ovando, ... bioRxiv, 2023.08. 16.553591, 2023 | 3 | 2023 |
| Combined topological data analysis and geometric deep learning reveal niches by the quantification of protein binding pockets P Jiang, J Lugo-Martinez bioRxiv, 2023.08. 25.554762, 2023 | 2 | 2023 |
| Reconstructing SARS-CoV-2 response signaling and regulatory networks J Ding, J Lugo-Martinez, Y Yuan, DN Kotton, Z Bar-Joseph BioRxiv, 2020.06. 01.127589, 2020 | 2 | 2020 |
| Reconstructed signaling and regulatory networks identify potential drugs for SARS-CoV-2 infection J Ding, J Lugo-Martinez, Y Yuan, J Huang, AJ Hume, EL Suder, ... bioRxiv, 2021 | 1 | 2021 |
| Integration of heterogeneous experimental data improves global map of human protein complexes J Lugo-Martinez, J Dengjel, Z Bar-Joseph, RF Murphy Proceedings of the 10th ACM International Conference on Bioinformatics …, 2019 | 1 | 2019 |
| Hypergraphlets Give Insight into Multi-Scale Organisation of Molecular Networks T Gaudelet, NM Dognin, J Lugo-Martinez, P Radivojac, N Pzrulj BOOK OF ABSTRACTS, 41, 2017 | 1 | 2017 |
| Recovering single-cell expression profiles from spatial transcriptomics with scResolve H Chen, YJ Lee, JA Ovando-Ricardez, L Rosas, M Rojas, AL Mora, ... Cell Reports Methods, 2024 | | 2024 |
Predrag RadivojacProfessor of Computer Science, Northeastern UniversityVerified email at northeastern.edu
