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Number of items: 18.

Cheng, Lu, Ramchandran, Siddharth, Vatanen, Tommi, Lietzén, Niina, Lahesmaa, Riitta, Vehtari, Aki and Lähdesmäki, Harri 2019. An additive Gaussian process regression model for interpretable non-parametric analysis of longitudinal data. Nature Communications 10 (1) , 1798. 10.1038/s41467-019-09785-8
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Lietzén, Niina, Cheng, Lu, Moulder, Robert, Siljander, Heli, Laajala, Essi, Härkönen, Taina, Peet, Aleksandr, Vehtari, Aki, Tillmann, Vallo, Knip, Mikael, Lähdesmäki, Harri and Lahesmaa, Riitta 2018. Characterization and non-parametric modeling of the developing serum proteome during infancy and early childhood. Scientific Reports 8 (1) , 5883. 10.1038/s41598-018-24019-5
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Sieberts, Solveig K., Zhu, Fan, García-García, Javier, Stahl, Eli, Pratap, Abhishek, Pandey, Gaurav, Pappas, Dimitrios, Aguilar, Daniel, Anton, Bernat, Bonet, Jaume, Eksi, Ridvan, Fornés, Oriol, Guney, Emre, Li, Hongdong, Marín, Manuel Alejandro, Panwar, Bharat, Planas-Iglesias, Joan, Poglayen, Daniel, Cui, Jing, Falcao, Andre O., Suver, Christine, Hoff, Bruce, Balagurusamy, Venkat S. K., Dillenberger, Donna, Neto, Elias Chaibub, Norman, Thea, Aittokallio, Tero, Ammad-ud-din, Muhammad, Azencott, Chloe-Agathe, Bellón, Víctor, Boeva, Valentina, Bunte, Kerstin, Chheda, Himanshu, Cheng, Lu, Corander, Jukka, Dumontier, Michel, Goldenberg, Anna, Gopalacharyulu, Peddinti, Hajiloo, Mohsen, Hidru, Daniel, Jaiswal, Alok, Kaski, Samuel, Khalfaoui, Beyrem, Khan, Suleiman Ali, Kramer, Eric R., Marttinen, Pekka, Mezlini, Aziz M., Molparia, Bhuvan, Pirinen, Matti, Saarela, Janna, Samwald, Matthias, Stoven, Véronique, Tang, Hao, Tang, Jing, Torkamani, Ali, Vert, Jean-Phillipe, Wang, Bo, Wang, Tao, Wennerberg, Krister, Wineinger, Nathan E., Xiao, Guanghua, Xie, Yang, Yeung, Rae, Zhan, Xiaowei, Zhao, Cheng, Greenberg, Jeff, Kremer, Joel, Michaud, Kaleb, Barton, Anne, Coenen, Marieke, Mariette, Xavier, Miceli, Corinne, Shadick, Nancy, Weinblatt, Michael, de Vries, Niek, Tak, Paul P., Gerlag, Danielle, Huizinga, Tom W. J., Kurreeman, Fina, Allaart, Cornelia F., Louis Bridges, S., Criswell, Lindsey, Moreland, Larry, Klareskog, Lars, Saevarsdottir, Saedis, Padyukov, Leonid, Gregersen, Peter K., Friend, Stephen, Plenge, Robert, Stolovitzky, Gustavo, Oliva, Baldo, Guan, Yuanfang and Mangravite, Lara M. 2016. Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis. Nature Communications 7 (1) , -. 10.1038/ncomms12460
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Reuter, Sandra, Thomson, Nicholas R., de Been, Mark, Hall, Miquette, Harris, Simon, McNally, Alan, Cheng, Lu and Corander, Jukka 2015. Directional gene flow and ecological separation in Yersinia enterocolitica. Microbial Genomics 1 (3) , -. 10.1099/mgen.0.000030

Tasoulis, Sotiris, Cheng, Lu, Valimaki, Niko, Croucher, Nicholas J., Harris, Simon R., Hanage, William P., Roos, Teemu and Corander, Jukka 2015. Random projection based clustering for population genomics. Presented at: 2014 IEEE International Conference on Big Data (Big Data), Washington, USA, 27-30 Oct. 2014. IEEE International Conference on Big Data (Big Data). IEEE, pp. 675-682. 10.1109/BigData.2014.7004291

Chatterjee, S., Koslicki, D., Dong, S., Innocenti, N., Cheng, L., Lan, Y., Vehkapera, M., Skoglund, M., Rasmussen, L. K., Aurell, E. and Corander, J. 2014. SEK: sparsity exploiting k-mer-based estimation of bacterial community composition. Bioinformatics 30 (17) , 2423–2431. 10.1093/bioinformatics/btu320

Sheppard, Samuel K., Cheng, Lu, Méric, Guillaume, de Haan, Caroline P. A., Llarena, Ann-Katrin, Marttinen, Pekka, Vidal, Ana, Ridley, Anne, Clifton-Hadley, Felicity, Connor, Thomas Richard, Strachan, Norval J. C., Forbes, Ken, Colles, Frances M., Jolley, Keith A., Bentley, Stephen D., Maiden, Martin C. J., Hänninen, Marja-Liisa, Parkhill, Julian, Hanage, William P. and Corander, Jukka 2014. Cryptic ecology among host generalist Campylobacter jejuniin domestic animals. Molecular Ecology 23 (10) , pp. 2442-2451. 10.1111/mec.12742
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Chewapreecha, Claire, Harris, Simon R, Croucher, Nicholas J, Turner, Claudia, Marttinen, Pekka, Cheng, Lu, Pessia, Alberto, Aanensen, David M, Mather, Alison E, Page, Andrew J, Salter, Susannah J, Harris, David, Nosten, Francois, Goldblatt, David, Corander, Jukka, Parkhill, Julian, Turner, Paul and Bentley, Stephen D 2014. Dense genomic sampling identifies highways of pneumococcal recombination. Nature Genetics 46 (3) , pp. 305-311. 10.1038/ng.2895

Jääskinen, Väinö, Parkkinen, Ville, Cheng, Lu and Corander, Jukka 2014. Bayesian clustering of DNA sequences using Markov chains and a stochastic partition model. Statistical Applications in Genetics and Molecular Biology 13 (1) , -. 10.1515/sagmb-2013-0031

Numminen, Elina, Cheng, Lu, Gyllenberg, Mats and Corander, Jukka 2013. Estimating the transmission dynamics of streptococcus pneumoniaefrom strain prevalence data. Biometrics 69 (3) , pp. 748-757. 10.1111/biom.12040

Lebreton, François, van Schaik, Willem, Manson McGuire, Abigail Manson McGuire, Godfrey, Paul, Griggs, Allison, Mazumdar, Varun, Corander, Jukka, Cheng, Lu, Saif, Sakina, Young, Sarah, Zeng, Qiandong, Wortman, Jennifer, Birren, Bruce, Willems, Rob J. L., Earl, Ashlee M. and Gilmore, Michael S. 2013. Emergence of epidemic multidrug-resistant enterococcus faecium from animal and commensal strains. mBio 4 (4) , e00534-13. 10.1128/mBio.00534-13
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de Been, Mark, van Schaik, Willem, Cheng, Lu, Corander, Jukka and Willems, Rob J. 2013. Recent recombination events in the core genome are associated with adaptive evolution in enterococcus faecium. Genome Biology and Evolution 5 (8) , pp. 1524-1535. 10.1093/gbe/evt111

Corander, Jukka, Majander, Kerttu K., Cheng, Lu and Merilä, Juha 2013. High degree of cryptic population differentiation in the Baltic Sea herringClupea harengus. Molecular Ecology 22 (11) , pp. 2931-2940. 10.1111/mec.12174

Cheng, Lu, Connor, Thomas Richard, Siren, J., Aanensen, D. M. and Corander, J. 2013. Hierarchical and spatially explicit clustering of DNA sequences with BAPS software. Molecular Biology and Evolution 30 (5) , pp. 1224-1228. 10.1093/molbev/mst028

McNally, Alan, Cheng, Lu, Harris, Simon R. and Corander, Jukka 2013. The evolutionary path to extraintestinal pathogenic, drug-resistant escherichia coli is marked by drastic reduction in detectable recombination within the core genome. Genome Biology and Evolution 5 (4) , 699–710. 10.1093/gbe/evt038

Cheng, Lu, Walker, Alan W. and Corander, Jukka 2012. Bayesian estimation of bacterial community composition from 454 sequencing data. Nucleic Acids Research 40 (12) , pp. 5240-5249. 10.1093/nar/gks227

Cheng, Lu, Connor, Thomas Richard, Aanensen, David M., Spratt, Brian G. and Corander, Jukka 2011. Bayesian semi-supervised classification of bacterial samples using MLST databases. BioMed Central Bioinformatics 12 (1) , 302. 10.1186/1471-2105-12-302
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Jolma, A., Kivioja, T., Toivonen, J., Cheng, Lu, Wei, G., Enge, M., Taipale, M., Vaquerizas, J. M., Yan, J., Sillanpaa, M. J., Bonke, M., Palin, K., Talukder, S., Hughes, T. R., Luscombe, N. M., Ukkonen, E. and Taipale, J. 2010. Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities. Genome Research 20 (6) , pp. 861-873. 10.1101/gr.100552.109

This list was generated on Fri Dec 13 08:44:32 2019 GMT.