| Hierarchical and spatially explicit clustering of DNA sequences with BAPS software L Cheng, TR Connor, J Sirén, DM Aanensen, J Corander Molecular biology and evolution 30 (5), 1224-1228, 2013 | 628 | 2013 |
| Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities A Jolma, T Kivioja, J Toivonen, L Cheng, G Wei, M Enge, M Taipale, ... Genome research 20 (6), 861-873, 2010 | 539 | 2010 |
| Emergence of epidemic multidrug-resistant Enterococcus faecium from animal and commensal strains F Lebreton, W van Schaik, A Manson McGuire, P Godfrey, A Griggs, ... MBio 4 (4), e00534-13, 2013 | 449 | 2013 |
| Dense genomic sampling identifies highways of pneumococcal recombination C Chewapreecha, SR Harris, NJ Croucher, C Turner, P Marttinen, ... Nature genetics 46 (3), 305-309, 2014 | 413 | 2014 |
| Cryptic ecology among host generalist Campylobacter jejuni in domestic animals SK Sheppard, L Cheng, G Méric, CPA De Haan, AK Llarena, P Marttinen, ... Molecular ecology 23 (10), 2442-2451, 2014 | 156 | 2014 |
| High degree of cryptic population differentiation in the Baltic Sea herring Clupea harengus J Corander, KK Majander, L Cheng, J Merilä Molecular ecology 22 (11), 2931–2940, 2013 | 129 | 2013 |
| Genomic monitoring of SARS-CoV-2 uncovers an Nsp1 deletion variant that modulates type I interferon response J Lin, C Tang, H Wei, B Du, C Chen, M Wang, Y Zhou, M Yu, L Cheng, ... Cell host & microbe 29 (3), 489-502. e8, 2021 | 114 | 2021 |
| An additive Gaussian process regression model for interpretable non-parametric analysis of longitudinal data L Cheng, S Ramchandran, T Vatanen, N Lietzén, R Lahesmaa, A Vehtari, ... Nature communications 10 (1), 1-11, 2019 | 109 | 2019 |
| Recent recombination events in the core genome are associated with adaptive evolution in Enterococcus faecium M de Been, W van Schaik, L Cheng, J Corander, RJ Willems Genome biology and evolution 5 (8), 1524-1535, 2013 | 100 | 2013 |
| Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis SK Sieberts, F Zhu, J García-García, E Stahl, A Pratap, G Pandey, ... Nature communications 7, 2016 | 95 | 2016 |
| The Evolutionary Path to Extraintestinal Pathogenic, Drug-Resistant Escherichia coli Is Marked by Drastic Reduction in Detectable Recombination within the Core Genome A McNally, L Cheng, SR Harris, J Corander Genome biology and evolution 5 (4), 699-710, 2013 | 68 | 2013 |
| Estimating the transmission dynamics of Streptococcus pneumoniae from strain prevalence data E Numminen, L Cheng, M Gyllenberg, J Corander Biometrics 69 (3), 748-757, 2013 | 59 | 2013 |
| Bayesian estimation of bacterial community composition from 454 sequencing data L Cheng, AW Walker, J Corander Nucleic acids research 40 (12), 5240-5249, 2012 | 39 | 2012 |
| Random projection based clustering for population genomics S Tasoulis, L Cheng, N Välimäki, NJ Croucher, SR Harris, WP Hanage, ... 2014 IEEE International Conference on Big Data (Big Data), 675-682, 2014 | 31 | 2014 |
| Bayesian clustering of DNA sequences using Markov chains and a stochastic partition model V Jääskinen, V Parkkinen, L Cheng, J Corander Statistical applications in genetics and molecular biology 13 (1), 105-121, 2014 | 26 | 2014 |
| Directional gene flow and ecological separation in Yersinia enterocolitica S Reuter, J Corander, M de Been, S Harris, L Cheng, M Hall, ... Microbial Genomics 1 (3), 2015 | 25 | 2015 |
| Bayesian semi-supervised classification of bacterial samples using MLST databases L Cheng, TR Connor, DM Aanensen, BG Spratt, J Corander BMC bioinformatics 12 (1), 1-10, 2011 | 25 | 2011 |
| SEK: Sparsity exploiting k-mer-based estimation of bacterial community composition S Chatterjee, D Koslicki, S Dong, N Innocenti, L Cheng, Y Lan, ... Bioinformatics 30 (17), 2423-2431, 2014 | 20 | 2014 |
| SCAPE: a mixture model revealing single-cell polyadenylation diversity and cellular dynamics during cell differentiation and reprogramming R Zhou, X Xiao, P He, Y Zhao, M Xu, X Zheng, R Yang, S Chen, L Zhou, ... Nucleic Acids Research 50 (11), e66-e66, 2022 | 18 | 2022 |
| Characterization and non-parametric modeling of the developing serum proteome during infancy and early childhood N Lietzén, L Cheng, R Moulder, H Siljander, E Laajala, T Härkönen, ... Scientific reports 8 (1), 1-13, 2018 | 16 | 2018 |