Publications

Pessia, A., Tang, J. (2019). Numerical evaluation of the transition probability of the simple birth-and-death process. arXiv. 1909.10765.

Preprint Project URL

Gaiser, R. A., Pessia, A., Ateeb, Z., Davanian, H., Fernández Moro, C., Alkharaan, H., Healy, K., Ghazi, S., Arnelo, U., Valente, R., Velagapudi, V., Sällberg Chen, M., Del Chiaro, M. (2019). Integrated targeted metabolomic and lipidomic analysis: A novel approach to classifying early cystic precursors to invasive pancreatic cancer. Sci Rep, 9(1): 10208. doi: 10.1038/s41598-019-46634-6.

Zagidullin, B., Aldahdooh, J., Zheng, S., Wang, W., Wang, Y., Saad, J., Malyutina, A., Tanoli, Z., Pessia, A., Tang, J. (2019). DrugComb - an integrative cancer drug combination data portal. Nucl Acids Res, 47(W1): W43-W51. doi: 10.1093/nar/gkz337.

Malyutina, A., Majumder, M. M., Wang, W., Pessia, A., Heckman, C. A., Tang, J. (2019). Drug combination sensitivity scoring facilitates the discovery of synergistic and efficacious drug combinations in cancer. PLoS Comp Biol, 15(5): e1006752. doi: 10.1371/journal.pcbi.1006752.

Nandania, J., Peddinti, G., Pessia, A., Kokkonen, M., Velagapudi, V. (2018). Validation and automation of a high-throughput multitargeted method for semiquantification of endogenous metabolites from different biological matrices using tandem mass spectrometry. Metabolites, 8(3): 44. doi: 10.3390/metabo8030044.

Wang, W., Malyutina, A., Pessia, A., Heckman, C., Tang, J. (2018). Improving the consistency of functional genomics screens using molecular features - a multi-omics, pan-cancer study. bioRxiv. doi: 10.1101/322883.

Preprint DOI URL

Jokinen, R., Rinnankoski-Tuikka, R., Kaye, S., Saarinen, L., Heinonen, S., Myöhänen, M., Rappou, E., Jukarainen, S., Rissanen, A., Pessia, A., Velagapudi, V., Virtanen, K. A., Pirinen, E., Pietiläinen, K. H. (2018). Adipose tissue mitochondrial capacity associates with long-term weight loss success. Int J Obes, 42: 817-825. doi: 10.1038/ijo.2017.299.

Méric, G., McNally, A., Pessia, A., Mourkas, E., Pascoe, B., Mageiros, L., Vehkala, M., Corander, J., Sheppard, S. K. (2018). Convergent amino acid signatures in polyphyletic Campylobacter jejuni sub-populations suggest human niche tropism. Genome Biol Evol, 10(3): 763–774. doi: 10.1093/gbe/evy026.

Pessia, A., Corander, J. (2018). Kpax3: Bayesian bi-clustering of large sequence datasets. Bioinformatics, 34(12): 2132–2133. doi: 10.1093/bioinformatics/bty056.

PDF Code Project DOI URL

Pessia, A. (2017). Bayesian cluster analysis with applications to pathogen population genomics. Doctoral dissertation.

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Khan, N. A., Nikkanen, J., Yatsuga, S., Jackson, C., Wang, L., Pradhan, S., Kivelä, R., Pessia, A., Velagapudi, V., Suomalainen, A. (2017). mTORC1 regulates mitochondrial integrated stress response and mitochondrial myopathy progression. Cell Metab, 26(2): 419-428. doi: 10.1016/j.cmet.2017.07.007.

Scott, T. A., Quintaneiro, L. M., Norvaisas, P., Lui, P. P., Wilson, M. P., Leung, K.-Y., Herrera-Dominguez, L., Sudiwala, S., Pessia, A., Clayton, P. T., Bryson, K., Velagapudi, V., Mills, P. B., Typas, A., Greene, N. D. E., Cabreiro, F. (2017). Host-microbe co-metabolism dictates cancer drug efficacy in C. elegans. Cell, 169(3): 442-456. doi: 10.1016/j.cell.2017.03.040.

Schatton, D., Pla-Martin, D., Marx, M.-C., Hansen, H., Mourier, A., Nemazanyy, I., Pessia, A., Zentis, P., Corona, T., Kondylis, V., Barth, E., Schauss, A. C., Velagapudi, V., Rugarli, E. I. (2017). CLUH regulates mitochondrial metabolism by controlling translation and decay of target mRNAs. J Cell Biol, 216(3): 675-693. doi: 10.1083/jcb.201607019.

Kolho, K.-L., Pessia, A., Jaakkola, T., de Vos, W. M., Velagapudi, V. (2017). Faecal and serum metabolomics in paediatric inflammatory bowel disease. J Crohns Colitis, 11(3): 321-334. doi: 10.1093/ecco-jcc/jjw158.

Pessia, A., Grad, Y., Cobey, S., Puranen, J. S., Corander, J. (2015). K-Pax2: Bayesian identification of cluster-defining amino acid positions in large sequence datasets. Microb Genom, 1(1). doi: 10.1099/mgen.0.000025.

PDF Code Project DOI URL

Chewapreecha, C., Harris, S. R., Croucher, N. J., Turner, C., Marttinen, P., Cheng, L., Pessia, A., Aanensen, D. M., Mather, A. E., Page, A. J., Salter, S. J., Harris, D., Nosten, F., Goldblatt, D., Corander, J., Parkhill, J., Turner, P., Bentley, S. D. (2014). Dense genomic sampling identifies highways of pneumococcal recombination. Nat Genet, 46(3): 305-309. doi: 10.1038/ng.2895.