| A chromosome conformation capture ordered sequence of the barley genome M Mascher, H Gundlach, A Himmelbach, S Beier, SO Twardziok, T Wicker, ... Nature 544 (7651), 427-433, 2017 | 1338 | 2017 |
| CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers R Ounit, S Wanamaker, TJ Close, S Lonardi BMC genomics 16, 1-13, 2015 | 628 | 2015 |
| Comprehensive benchmarking and ensemble approaches for metagenomic classifiers ABR McIntyre, R Ounit, E Afshinnekoo, RJ Prill, E Hénaff, N Alexander, ... Genome biology 18, 1-19, 2017 | 303 | 2017 |
| The genome of cowpea (Vigna unguiculata [L.] Walp.) S Lonardi, M Muñoz‐Amatriaín, Q Liang, S Shu, SI Wanamaker, S Lo, ... The Plant Journal 98 (5), 767-782, 2019 | 280 | 2019 |
| A global metagenomic map of urban microbiomes and antimicrobial resistance D Danko, D Bezdan, EE Afshin, S Ahsanuddin, C Bhattacharya, DJ Butler, ... Cell 184 (13), 3376-3393. e17, 2021 | 203 | 2021 |
| Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. S Beier, A Himmelbach, C Colmsee, XQ Zhang, RA Barrero, Q Zhang, L Li, ... Scientific Data 4 (1), 1-24, 2017 | 151 | 2017 |
| Higher classification sensitivity of short metagenomic reads with CLARK-S R Ounit, S Lonardi Bioinformatics 32 (24), 3823-3825, 2016 | 127 | 2016 |
| Sequencing of 15 622 gene‐bearing BAC s clarifies the gene‐dense regions of the barley genome M Muñoz‐Amatriaín, S Lonardi, MC Luo, K Madishetty, JT Svensson, ... The Plant Journal 84 (1), 216-227, 2015 | 44 | 2015 |
| rasbhari: Optimizing Spaced Seeds for Database Searching, Read Mapping and Alignment-Free Sequence Comparison L Hahn, CA Leimeister, R Ounit, S Lonardi, B Morgenstern PLoS Comput Biol 12 (10), e1005107, 2016 | 39 | 2016 |
| Metagenomic characterization of ambulances across the USA NB O’Hara, HJ Reed, E Afshinnekoo, D Harvin, N Caplan, G Rosen, ... Microbiome 5, 1-20, 2017 | 37 | 2017 |
| Global genetic cartography of urban metagenomes and anti-microbial resistance D Danko, D Bezdan, E Afshinnekoo, S Ahsanuddin, C Bhattacharya, ... BioRxiv, 724526, 2020 | 33 | 2020 |
| BRAT-nova: Fast and accurate mapping of bisulfite-treated reads EY Harris, R Ounit, S Lonardi Bioinformatics, btw226, 2016 | 25 | 2016 |
| Higher classification accuracy of short metagenomic reads by discriminative spaced k-mers R Ounit, S Lonardi International Workshop on Algorithms in Bioinformatics, 286-295, 2015 | 14 | 2015 |
| Systems and methods for ultra-fast identification and abundance estimates of microorganisms using a kmer-depth based approach and privacy-preserving protocols NB O'hara, R Ounit US Patent App. 16/345,367, 2019 | 11 | 2019 |
| Characterization of spacesuit associated microbial communities and their implications for NASA missions D Danko, GB Malli Mohan, MA Sierra, M Rucker, NK Singh, AB Regberg, ... Frontiers in Microbiology 12, 608478, 2021 | 7 | 2021 |
| Assembly of eleven pseudomolecules representing the cowpea genome sequence S Lonardi, T Zhu, M Muñoz-Amatriaín, Q Liang, S Wanamaker, R Ounit, ... Plant and Animal Genome 25, P0688, 2017 | 7 | 2017 |
| Ozone treatment for elimination of bacteria and SARS-CoV-2 for medical environments C Westover, S Rahmatulloev, D Danko, E Afshinnekoo, NB O’Hara, ... BioRxiv, 420737, 2018 | 4 | 2018 |
| Ozone Disinfection for Elimination of Bacteria and Degradation of SARS-CoV2 RNA for Medical Environments C Westover, S Rahmatulloev, D Danko, EE Afshin, NB O’Hara, R Ounit, ... Genes 14 (1), 85, 2022 | 3 | 2022 |
| Genome Resources for Cowpea (Vigna unguiculata [L.] Walp) M Muñoz-Amatriain, S Lonardi, Q Liang, S Shu, S Wanamaker, S Lo, ... Plant and Animal Genome XXVII Conference (January 12-16, 2019), 2019 | 3 | 2019 |
| Detection of Mpox virus using microbial cell-free DNA: the potential of pathogen-agnostic sequencing for rapid identification of emerging pathogens SY Park, MS Lindner, K Brick, N Noll, R Ounit, LJ Noa, R Sabzwari, ... The Journal of Infectious Diseases 229 (Supplement_2), S144-S155, 2024 | 1 | 2024 |
Stefano LonardiProfessor of Computer Science, University of California, RiversideVerified email at cs.ucr.edu
