Staff information

PNNL Publications

2025

• Del Mar Rubio Wilhelmi M., N. Maneejantra, V. Balasubramanian, S.O. Purvine, S.M. Williams, S. DiFazio, and C. Stewart, et al. 2025. "SALINITY-INDUCED PHOTORESPIRATION IN Populus VASCULAR TISSUES FACILITATE NITROGEN REALLOCATION." Plant, Cell & Environment 48, no. 1:781-791. PNNL-SA-197282. doi:10.1111/pce.15180
• Vandergrift G.W., M. Velickovic, L.Z. Day, B.L. Gorman, S.M. Williams, B. Shrestha, and C.R. Anderton. 2025. "Untargeted Spatial Metabolomics and Spatial Proteomics on the Same Tissue Section." Analytical Chemistry 97, no. 1:392-400. PNNL-SA-202874. doi:10.1021/acs.analchem.4c04462
• Velickovic M., L. Kadam, J. Kim, K. Zemaitis, D. Velickovic, Y. Gao, and R. Wu, et al. 2025. "Advanced multi-modal mass spectrometry imaging reveals functional differences of placental villous compartments at microscale resolution." Nature Communications 16:Art. No. 2061. PNNL-SA-201502. doi:10.1038/s41467-025-57107-y
• Zemaitis K., J.M. Fulcher, R. Kumar, D.J. Degnan, L.A. Lewis, Y. Liao, and M. Velickovic, et al. 2025. "Spatial top-down proteomics for the functional characterization of human kidney." Clinical Proteomics 22:Art. No. 9. PNNL-SA-193767. doi:10.1186/s12014-025-09531-x

2024

• Fulcher J.M., L. Markillie, H.D. Mitchell, S.M. Williams, K.M. Engbrecht, D.J. Degnan, and L.M. Bramer, et al. 2024. "Parallel measurement of transcriptomes and proteomes from same single cells using nanodroplet splitting." Nature Communications 15, no. _:Art. No. 10614. PNNL-SA-205430. doi:10.1038/s41467-024-54099-z
• Harrison A.L., J.G. Eder, P.M. Lalli, N. Munoz Munoz, Y. Gao, C.S. Clendinen, and D.J. Orton, et al. 2024. "PeakQC: A Software Tool for Omics-Agnostic Automated Quality Control of Mass Spectrometry Data." Journal of the American Society for Mass Spectrometry 35, no. 11:2680-2689. PNNL-SA-197329. doi:10.1021/jasms.4c00146
• Kwon Y., J. Woo, F. Yu, S.M. Williams, L. Markillie, R.J. Moore, and E.S. Nakayasu, et al. 2024. "Proteome-Scale Tissue Mapping Using Mass Spectrometry Based on Label-Free and Multiplexed Workflows." Molecular and Cellular Proteomics 23, no. 11:Art No. 100841. PNNL-SA-193788. doi:10.1016/j.mcpro.2024.100841
• Velickovic M., T.L. Fillmore, I.K. Attah, J.C. Posso Escobar, J.C. Pino, R. Zhao, and S.M. Williams, et al. 2024. "Coupling microdroplet-based sample preparation, multiplexed isobaric labeling, and nanoflow peptide fractionation for deep proteome profiling of tissue microenvironment." Analytical Chemistry 96, no. 32:12973 - 12982. PNNL-SA-194410. doi:10.1021/acs.analchem.4c00523

2023

• Fulcher J.M., L. Markillie, H.D. Mitchell, S.M. Williams, K.M. Engbrecht, R.J. Moore, and W.B. Chrisler, et al. 2023. Parallel measurement of transcriptomes and proteomes from same single cells using nanodroplet splitting. PNNL-34730. Richland, WA: Pacific Northwest National Laboratory. Parallel measurement of transcriptomes and proteomes from same single cells using nanodroplet splitting
• Liao Y., J.M. Fulcher, D.J. Degnan, S.M. Williams, L.M. Bramer, D. Velickovic, and K. Zemaitis, et al. 2023. "Spatially resolved top-down proteomics of tissue sections based on a microfluidic nanodroplet sample preparation platform." Molecular & Cellular Proteomics 22, no. 2:Art. No. 100491. PNNL-SA-174522. doi:10.1016/j.mcpro.2022.100491
• Park J., F. Yu, J.M. Fulcher, S.M. Williams, K.M. Engbrecht, R.J. Moore, and G. Clair, et al. 2023. "Evaluating linear ion trap for MS3-based multiplexed single-cell proteomics." Analytical Chemistry 95, no. 3:1888-1898. PNNL-SA-176981. doi:10.1021/acs.analchem.2c03739
• Tsai C., Y. Wang, C. Hsu, R. Kitata, R.K. Chu, M. Velickovic, and R. Zhao, et al. 2023. "A streamlined tandem tip-based workflow for sensitive nanoscale phosphoproteomics." Communications Biology 6, no. 1:Art. No. 70. PNNL-SA-171979. doi:10.1101/2022.04.12.488038
• Xiang P., A.V. Liyu, Y. Kwon, D. Hu, S.M. Williams, D. Velickovic, and L. Markillie, et al. 2023. "Spatial Proteomics toward Subcellular Resolution by Coupling Deep Ultraviolet Laser Ablation with Nanodroplet Sample Preparation." ACS Measurement Science Au 3, no. 6:459-468. PNNL-SA-191203. doi:10.1021/acsmeasuresciau.3c00033
• Xiang P., A.V. Liyu, Y. Kwon, D. Hu, S.M. Williams, D. Velickovic, and L. Markillie, et al. 2023. "Spatial Proteomics towards Subcellular Resolution by Coupling Deep Ultraviolet Laser Ablation with Nanodroplet Sample Preparation." ACS Measurement Science Au 3, no. 6:459-468. PNNL-SA-188097. doi:10.1021/acsmeasuresciau.3c00033

2022

• Lukowski J.K., H.M. Olson, M. Velickovic, J. Wang, J.E. Kyle, Y. Kim, and S.M. Williams, et al. 2022. "An optimized approach and inflation media for obtaining complimentary mass spectrometry-based omics data from human lung tissue." Frontiers in Molecular Biosciences 9. PNNL-SA-170826. doi:10.3389/fmolb.2022.1022775
• Swensen A.C., D. Velickovic, S.M. Williams, R.J. Moore, L.Z. Day, S. Niessen, and S. Hennessy, et al. 2022. "Proteomic profiling of intra-islet features reveals substructure-specific protein signatures." Molecular & Cellular Proteomics 21, no. 12:Art. No. 100426. PNNL-ACT-SA-10618. doi:10.1016/j.mcpro.2022.100426
• Woo J., G. Clair, S.M. Williams, S. Feng, C. Tsai, R.J. Moore, and W.B. Chrisler, et al. 2022. "Three-dimensional feature matching improves coverage for single-cell proteomics based on ion mobility filtering." Cell Systems 13, no. 5:426-434.e4. PNNL-SA-156470. doi:10.1016/j.cels.2022.02.003

2021

• Weke K., A. Singh, N.O. Uwugiaren, J. Alfaro, T. Wang, T. Hupp, and R. Oneill, et al. 2021. "MicroPOTS Analysis of Barrett’s Esophageal Cell Line Models Identifies Proteomic Changes after Physiologic and Radiation Stress." Journal of Proteome Research 20, no. 5:2195-2205. PNNL-SA-155546. doi:10.1021/acs.jproteome.0c00629
• Woo J., S.M. Williams, L. Markillie, S. Feng, C. Tsai, V. Aguilera-Vazquez, and R.L. Sontag, et al. 2021. "High-throughput and high-efficiency sample preparation for single-cell proteomics using a nested nanowell chip." Nature Communications 12, no. 1:Art. No. 6246. PNNL-SA-159977. doi:10.1038/s41467-021-26514-2

2020

• Tsai C., R. Zhao, S.M. Williams, R.J. Moore, K.D. Schultz, W.B. Chrisler, and L. Pasa Tolic, et al. 2020. "An Improved Boosting to Amplify Signal with Isobaric Labeling (iBASIL) Strategy for Precise Quantitative Single-cell Proteomics." Molecular & Cellular Proteomics 19, no. 5:828-838. PNNL-SA-149183. doi:10.1074/mcp.RA119.001857
• Williams S.M., A.V. Liyu, C. Tsai, R.J. Moore, D.J. Orton, W.B. Chrisler, and M.J. Gaffrey, et al. 2020. "Automated coupling of nanodroplet sample preparation with liquid chromatography-mass spectrometry for high-throughput single-cell proteomics." Analytical Chemistry 92, no. 15:10588-10596. PNNL-SA-152553. doi:10.1021/acs.analchem.0c01551
• Xiang P., Y. Zhu, Y. Yang, Z. Zhao, S.M. Williams, R.J. Moore, and R.T. Kelly, et al. 2020. "Picoflow Liquid Chromatography-Mass Spectrometry for Ultrasensitive Bottom-up Proteomics using 2-µm i.d. Open Tubular Columns." Analytical Chemistry 92, no. 7:4711-4715. PNNL-SA-150120. doi:10.1021/acs.analchem.9b05639
• Zhou M., N.O. Uwugiaren, S.M. Williams, R.J. Moore, R. Zhao, D. Goodlett, and I. Dapic, et al. 2020. "Sensitive Top-Down Proteomics Analysis of Low Number of Mammalian Cells Using a Nanodroplet Sample Processing Platform." Analytical Chemistry 92, no. 10:7087-7095. PNNL-SA-149823. doi:10.1021/acs.analchem.0c00467