| Challenges in benchmarking metagenomic profilers Z Sun, S Huang, M Zhang, Q Zhu, N Haiminen, AP Carrieri, ... Nature methods 18 (6), 618-626, 2021 | 106 | 2021 |
| Human skin, oral, and gut microbiomes predict chronological age S Huang, N Haiminen, AP Carrieri, R Hu, L Jiang, L Parida, B Russell, ... Msystems 5 (1), 10.1128/msystems. 00630-19, 2020 | 106 | 2020 |
| Explainable AI reveals changes in skin microbiome composition linked to phenotypic differences AP Carrieri, N Haiminen, S Maudsley-Barton, LJ Gardiner, B Murphy, ... Scientific reports 11 (1), 4565, 2021 | 86 | 2021 |
| Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity JP Shaffer, LF Nothias, LR Thompson, JG Sanders, RA Salido, ... Nature Microbiology 7 (12), 2128-2150, 2022 | 81 | 2022 |
| SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment C Marotz, P Belda-Ferre, F Ali, P Das, S Huang, K Cantrell, L Jiang, ... Microbiome 9 (1), 132, 2021 | 47 | 2021 |
| EMPress enables tree-guided, interactive, and exploratory analyses of multi-omic data sets K Cantrell, MW Fedarko, G Rahman, D McDonald, Y Yang, T Zaw, ... MSystems 6 (2), 10.1128/msystems. 01216-20, 2021 | 37 | 2021 |
| Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes G Armstrong, K Cantrell, S Huang, D McDonald, N Haiminen, AP Carrieri, ... Genome research 31 (11), 2131-2137, 2021 | 24 | 2021 |
| Using human in vitro transcriptome analysis to build trustworthy machine learning models for prediction of animal drug toxicity LJ Gardiner, AP Carrieri, J Wilshaw, S Checkley, EO Pyzer-Knapp, ... Scientific reports 10 (1), 9522, 2020 | 22 | 2020 |
| Streaming histogram sketching for rapid microbiome analytics WPM Rowe, AP Carrieri, C Alcon-Giner, S Caim, A Shaw, K Sim, JS Kroll, ... Microbiome 7, 1-13, 2019 | 22 | 2019 |
| Fixed-parameter algorithms for scaffold filling L Bulteau, AP Carrieri, R Dondi Theoretical Computer Science 568, 72-83, 2015 | 22 | 2015 |
| Combining explainable machine learning, demographic and multi-omic data to inform precision medicine strategies for inflammatory bowel disease LJ Gardiner, AP Carrieri, K Bingham, G Macluskie, D Bunton, M McNeil, ... PLoS One 17 (2), e0263248, 2022 | 19 | 2022 |
| Interpreting machine learning models to investigate circadian regulation and facilitate exploration of clock function LJ Gardiner, R Rusholme-Pilcher, J Colmer, H Rees, JM Crescente, ... Proceedings of the National Academy of Sciences 118 (32), e2103070118, 2021 | 15 | 2021 |
| Accelerating molecular discovery through data and physical sciences: Applications to peptide-membrane interactions F Cipcigan, AP Carrieri, EO Pyzer-Knapp, R Krishna, YW Hsiao, M Winn, ... The Journal of Chemical Physics 148 (24), 2018 | 14 | 2018 |
| Explaining evolution via constrained persistent perfect phylogeny P Bonizzoni, AP Carrieri, G Della Vedova, G Trucco BMC genomics 15, 1-10, 2014 | 14 | 2014 |
| A colored graph approach to perfect phylogeny with persistent characters P Bonizzoni, AP Carrieri, G Della Vedova, R Rizzi, G Trucco Theoretical Computer Science 658, 60-73, 2017 | 13 | 2017 |
| Microbial context predicts SARS-CoV-2 prevalence in patients and the hospital built environment C Marotz, P Belda-Ferre, F Ali, P Das, S Huang, K Cantrell, L Jiang, ... medRxiv, 2020 | 12 | 2020 |
| A fast machine learning workflow for rapid phenotype prediction from whole shotgun metagenomes AP Carrieri, WPM Rowe, M Winn, EO Pyzer-Knapp Proceedings of the AAAI Conference on Artificial Intelligence 33 (01), 9434-9439, 2019 | 12 | 2019 |
| Utilizing stability criteria in choosing feature selection methods yields reproducible results in microbiome data L Jiang, N Haiminen, AP Carrieri, S Huang, Y Vázquez-Baeza, L Parida, ... Biometrics 78 (3), 1155-1167, 2022 | 11 | 2022 |
| Topological signatures for population admixture L Parida, F Utro, D Yorukoglu, AP Carrieri, D Kuhn, S Basu Research in Computational Molecular Biology: 19th Annual International …, 2015 | 11 | 2015 |
| When and how the perfect phylogeny model explains evolution P Bonizzoni, AP Carrieri, GD Vedova, R Dondi, TM Przytycka Discrete and Topological Models in Molecular Biology, 67-83, 2014 | 11 | 2014 |
Laxmi ParidaIBM ResearchVerified email at us.ibm.com
