2020

Helene Kretzmer, Anat Biran, Noelia Purroy, Camilla K. Lemvigh, Kendell Clement, Michaela Gruber, Hongcang Gu, Laura Rassenti, Arman W. Mohammad, Connie Lesnick, Susan L. Slager, Esteban Braggio, Tait D. Shanafelt, Neil E. Kay, Stacey M. Fernandes, Jennifer R. Brown, Lili Wang, Shuqiang Li, Kenneth J. Livak, Donna S. Neuberg, Sven Klages, Bernd Timmermann, Thomas J. Kipps, Elias Campo, Andreas Gnirke, Catherine J. Wu, and Alexander Meissner (2020) Preneoplastic Alterations Define CLL DNA Methylome and Persist through Disease Progression and Therapy. Blood Cancer Discovery doi:10.1158/2643-3230.BCD-19-0058

Pedersen, C. B., & Olsen, L. R. (2020). Algorithmic Clustering Of Single‐Cell Cytometry Data—How Unsupervised Are These Analyses Really?. Cytometry Part A. doi:10.1002/cyto.a.23917

Derin B Keskin, Annabelle J Anandappa, Jing Sun, Itay Tirosh, Nathan Mathewson, Shuqiang Li, Giacomo Oliveira, Anita Giobbie-Hurder, Kristen Felt, Evisa Gjini, Sachet A Shukla, Zhuting Hu, Letitia Li, Phuong M Le, Rosa L Allesøe, Alyssa R Richman, Monika S Kowalczyk, Sara Abdelrahman, Jack E Geduldig, Sarah Charbonneau, Kristine Pelton, Julian Iorgulescu, Liudmila Elagina, Wandi Zhang, Oriol Olive, Christine McCluskey, Lars R Olsen, Jonathan Stevens, William Lane, Andres M Salazar, Heather Daley, Patrick Y Wen, E Antonio Chiocca, Maegan Harden, Niall J Lennon, Stacey Gabriel, Gad Getz, Eric S Lander, Aviv Regev, Jerome Ritz, Donna Neuberg, Scott J Rodig, Keith L Ligon, Mario L Suvà, Kai Wucherpfennig, Nir Hacohen, Edward F Fritsch, Kenneth J Livak, Patrick A Ott, Catherine Wu, David A Reardon, Derin Keskin, Mario Sulva (2020). Intratumoral T cell response detected after personal neoantigen vaccine in a phase Ib glioblastoma trial. Nature. doi:10.1038/s41586-018-0792-9



2019

Pedersen, C. B., & Olsen, L. R. (2019). Analysis of Mass Cytometry Data. In Mass Cytometry (pp. 267-279). Humana, New York, NY. doi:10.1007/978-1-4939-9454-0_17

Simon, C., Davidsen, K., Hansen, C., Seymour, E., Barnkob, M. B., & Olsen, L. R. (2019). BioReader: a text mining tool for performing classification of biomedical literature. BMC bioinformatics, 19(13), 57. doi:10.1186/s12859-019-2607-x

Jurtz, V. I., & Olsen, L. R. (2019). Computational methods for identification of T cell neoepitopes in tumors. In Cancer Bioinformatics (pp. 157-172). Humana Press, New York, NY. doi:10.1007/978-1-4939-8868-6_9

Olsen, L. R., Pedersen, C. B., Leipold, M. D., & Maecker, H. T. (2019). Getting the Most from Your High-Dimensional Cytometry Data. Immunity, 50(3), 535-536. doi:10.1016/j.immuni.2019.02.015

Li, S., Sun, J., Allesøe, R., Datta, K., Bao, Y., Oliveira, G., Forman, J., Jin, R., Olsen, L. R., Keskin, D. B., Shukla, S. A., Wu, C. J. & Livak, K. J. (2019). RNase H–dependent PCR-enabled T-cell receptor sequencing for highly specific and efficient targeted sequencing of T-cell receptor mRNA for single-cell and repertoire analysis. Nature protocols, 14(8), 2571-2594. doi:10.1038/s41596-019-0195-x

Olsen, L. R., Leipold, M. D., Pedersen, C. B., & Maecker, H. T. (2019). The anatomy of single cell mass cytometry data. Cytometry Part A, 95(2), 156-172. doi:10.1002/cyto.a.23621



2018

Napolitani, G., Kurupati, P., Teng, K. W. W., Gibani, M. M., Rei, M., Aulicino, A., Preciado-Llanes, L., Wong, M. T.; Becht, E., Howson, L., de Haas, P., Salio, M., Blohmke, C. J., Olsen, L. R., Pinto, D. M. S., Scifo, L., Jones, C., Dobinson, H. Campbell, D., Juel, H. B., Thomaides-Brears, H., Pickard, D., Bumann, D., Baker, S., Dougan, G., Simmons, A., Gordon, M. A., Newell, E. W., Pollard, A. J. & Cerundolo, Vincenzo (2018). Clonal analysis of Salmonella-specific effector T cells reveals serovar-specific and cross-reactive T cell responses. Nature immunology, 19(7), 742-754. doi:10.1038/s41590-018-0133-z

Leipold, M. D., Obermoser, G., Fenwick, C., Kleinstuber, K., Rashidi, N., McNevin, J. P., Nau, A. N., Wagar, L. E., Rozot, V., Davis, M. M., DeRosa, S., Pantaleo, G., Scriba, T. J., Walker, B. D., Olsen, L. R. & Maecker, H. T. (2018). Comparison of CyTOF assays across sites: Results of a six-center pilot study. Journal of immunological methods, 453, 37-43. doi:10.1016/j.jim.2017.11.008

Pedersen, C. B., Nielsen, F. C., Rossing, M., & Olsen, L. R. (2018). Using microarray‐based subtyping methods for breast cancer in the era of high‐throughput RNA sequencing. Molecular oncology, 12(12), 2136-2146. doi:10.1002/1878-0261.12389

 

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