Publications
2024
Scholarly publications
Serrano, L. R., Peters-Clarke, T. M., Arrey, T. N., Damoc, E., Robinson, M. L., Lancaster, N. M., Shishkova, E., Moss, C., Pashkova, A., Sinitcyn, P., Brademan, D. R., Quarmby, S. T., Peterson, A. C., Zeller, M., Hermanson, D., Stewart, H., Hock, C., Makarov, A., Zabrouskov, V., & Coon, J. J. (2024). The One Hour Human Proteome. Molecular & Cellular Proteomics. https://doi.org/10.1016/j.mcpro.2024.100760
Lancaster, N. M., Sinitcyn, P., Forny, P., Peters-Clarke, T. M., Fecher, C., Smith, A. J., Shishkova, E., Arrey, T. N., Pashkova, A., Robinson, M. L., Arp, N., Fan, J., Hansen, J., Galmozzi, A., Serrano, L. R., Rojas, J., Gasch, A. P., Westphall, M. S., Stewart, H., ... Coon, J. J. (2024). Fast and deep phosphoproteome analysis with the Orbitrap Astral mass spectrometer. Nature Communications. https://doi.org/10.1038/s41467-024-51274-0
2023
Scholarly publications
Aldonza, M. B. D., Cha, J., Yong, I., Ku, J., Sinitcyn, P., Lee, D., Cho, R.-E., Reyes, R. D. D., Kim, D., Kim, S., Kang, M., Ku, Y., Park, G., Sung, H.-J., Ryu, H. S., Cho, S., Kim, T. M., Kim, P., Cho, J.-Y., & Kim, Y. (2023). Multi-targeted therapy resistance via drug-induced secretome fucosylation. eLife. https://doi.org/10.7554/eLife.75191
Schessner, J. P., Albrecht, V., Davies, A. K., Sinitcyn, P., & Borner, G. H. H. (2023). Deep and fast label-free Dynamic Organellar Mapping. Nature Communications. https://doi.org/10.1038/s41467-023-41000-7
Sinitcyn, P., Richards, A. L., Weatheritt, R. J., Brademan, D. R., Marx, H., Shishkova, E., Meyer, J. G., Hebert, A. S., Westphall, M. S., Blencowe, B., Cox, J., & Coon, J. (2023). Global detection of human variants and isoforms by deep proteome sequencing. Nature Biotechnology. https://doi.org/10.1038/s41587-023-01714-x
2022
Scholarly publications
Snapkov, I., Chernigovskaya, M., Sinitcyn, P., Quý, K. L., Nyman, T. A., & Greiff, V. (2022). Progress and challenges in mass spectrometry-based analysis of antibody repertoires. Trends in Biotechnology. https://doi.org/10.1016/j.tibtech.2021.08.006
Sinitcyn, P., Gerwien, M., & Cox, J. (2022, May). MaxQuant Module for the Identification of Genomic Variants Propagated into Peptides. https://doi.org/10.1007/978-1-0716-2124-0_23
2021
Scholarly publications
Sinitcyn, P., Hamzeiy, H., Soto, F. S., Itzhak, D., McCarthy, F., Wichmann, C., Steger, M., Ohmayer, U., Distler, U., Kaspar-Schoenefeld, S., Prianichnikov, N., Yılmaz, Ş., Rudolph, J. D., Tenzer, S., Perez-Riverol, Y., Nagaraj, N., Humphrey, S. J., & Cox, J. (2021). MaxDIA enables library-based and library-free data-independent acquisition proteomics. Nature Biotechnology. https://doi.org/10.1038/s41587-021-00968-7
2019
Scholarly publications
Makeeva, D. S., Lando, A. S., Anisimova, A., Egorov, A. A., Logacheva, M. D., Penin, A. A., Andreev, D. E., Sinitcyn, P. G., Terenin, I. M., Shatsky, I. N., Kulakovskiy, I. V., & Dmitriev, S. (2019). Translatome and transcriptome analysis of TMA20 (MCT-1) and TMA64 (eIF2D) knockout yeast strains. Data in Brief. https://doi.org/10.1016/j.dib.2019.103701
Akulich, K. A., Sinitcyn, P. G., Makeeva, D. S., Andreev, D. E., Terenin, I., Anisimova, A. S., Shatsky, I. N., & Dmitriev, S. (2019). A novel uORF-based regulatory mechanism controls translation of the human MDM2 and eIF2D mRNAs during stress. Biochimie. https://doi.org/10.1016/j.biochi.2018.11.005
2018
Scholarly publications
Shurtleff, M. J., Itzhak, D. N., Hussmann, J. A., Oakdale, N. T. S., Costa, E. A., Jonikas, M., Weibezahn, J., Popova, K. D., Jan, C. H., Sinitcyn, P., Vembar, S. S., Hernandez, H., Cox, J., Burlingame, A. L., Brodsky, J. L., Frost, A., Borner, G. HH., & Weissman, J. S. (2018). The ER membrane protein complex interacts cotranslationally to enable biogenesis of multipass membrane proteins. eLife. https://doi.org/10.7554/eLife.37018
Sinitcyn, P., Rudolph, J. D., & Cox, J. (2018). Computational Methods for Understanding Mass Spectrometry–Based Shotgun Proteomics Data. Annual Review of Biomedical Data Science. https://doi.org/10.1146/annurev-biodatasci-080917-013516
2016
Scholarly publications
Bassani-Sternberg, M., Bräunlein, E., Klar, R., Engleitner, T., Sinitcyn, P., Audehm, S., Straub, M., Weber, J., Slotta-Huspenina, J., Specht, K., ME, M., & AM, K. (2016). Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry. Nature Communications. https://doi.org/10.1038/ncomms13404
Tyanova, S., Temu, T., Sinitcyn, P., Carlson, A., Hein, M. Y., Geiger, T., Mann, M., & Cox, J. (2016). The Perseus computational platform for comprehensive analysis of (prote)omics data. Nature Methods. https://doi.org/10.1038/nmeth.3901
Grassl, N., Kulak, N. A., Pichler, G., Geyer, P. E., Jung, J., Schubert, S., Sinitcyn, P., Cox, J., & Mann, M. (2016). Ultra-deep and quantitative saliva proteome reveals dynamics of the oral microbiome. Genome Medicine. https://doi.org/10.1186/s13073-016-0293-0
2015
Scholarly publications
Tyanova, S., Temu, T., Carlson, A., Sinitcyn, P., Mann, M., & Cox, J. (2015). Visualization of LC‐MS/MS proteomics data in MaxQuant. Proteomics. https://doi.org/10.1002/pmic.201400449