An Algorithm to Improve the Speed of Semi and Non-Specific Enzyme Searches in Proteomics

door Rolfs, Zach, Millikin, Robert J., Smith, Lloyd M.
Gepubliceerd in Curr Bioinform (2020)

A Bayesian Null Interval Hypothesis Test Controls False-Discovery Rates and Improves Sensitivity in Label-Free Quantitative Proteomics

door Millikin, Robert J., Shortreed, Michael R., Scalf, Mark, Smith, Lloyd M.
Gepubliceerd in J Proteome Res (2020)

Ultrafast Peptide Label-Free Quantification with FlashLFQ

door Millikin, Robert J., Solntsev, Stefan K., Shortreed, Michael R., Smith, Lloyd M.
Gepubliceerd in J Proteome Res (2017)

Improving Proteoform Identifications in Complex Systems Through Integration of Bottom-Up and Top-Down Data

door Schaffer, Leah V., Millikin, Robert J., Shortreed, Michael R., Scalf, Mark, Smith, Lloyd M.
Gepubliceerd in J Proteome Res (2020)

Identification of MS-Cleavable and Noncleavable Chemically Cross-Linked Peptides with MetaMorpheus

door Lu, Lei, Millikin, Robert J., Solntsev, Stefan K., Rolfs, Zach, Scalf, Mark, Shortreed, Michael R., Smith, Lloyd M.
Gepubliceerd in J Proteome Res (2018)

Improved Protein Inference from Multiple Protease Bottom-Up Mass Spectrometry Data

door Miller, Rachel M., Millikin, Robert J., Hoffmann, Connor V., Solntsev, Stefan K., Sheynkman, Gloria M., Shortreed, Michael R., Smith, Lloyd M.
Gepubliceerd in J Proteome Res (2019)

Spritz: A Proteogenomic Database Engine

door Cesnik, Anthony J., Miller, Rachel M., Ibrahim, Khairina, Lu, Lei, Millikin, Robert J., Shortreed, Michael R., Frey, Brian L., Smith, Lloyd M.
Gepubliceerd in J Proteome Res (2020)

Constructing Human Proteoform Families Using Intact-Mass and Top-Down Proteomics with a Multi-Protease Global Post-Translational Modification Discovery Database

door Dai, Yunxiang, Buxton, Katherine E., Schaffer, Leah V., Miller, Rachel M., Millikin, Robert J., Scalf, Mark, Frey, Brian L., Shortreed, Michael R., Smith, Lloyd M.
Gepubliceerd in J Proteome Res (2019)

Precursor Intensity-Based Label-Free Quantification Software Tools for Proteomic and Multi-Omic Analysis within the Galaxy Platform

door Mehta, Subina, Easterly, Caleb W., Sajulga, Ray, Millikin, Robert J., Argentini, Andrea, Eguinoa, Ignacio, Martens, Lennart, Shortreed, Michael R., Smith, Lloyd M., McGowan, Thomas, Kumar, Praveen, Johnson, James E., Griffin, Timothy J., Jagtap, Pratik D.
Gepubliceerd in Proteomes (2020)

Identification and Quantification of Proteoforms by Mass Spectrometry

door Schaffer, Leah V., Millikin, Robert J., Miller, Rachel M., Anderson, Lissa C., Fellers, Ryan T., Ge, Ying, Kelleher, Neil L., LeDuc, Richard D., Liu, Xiaowen, Payne, Samuel H., Sun, Liangliang, Thomas, Paul M., Tucholski, Trisha, Wang, Zhe, Wu, Si, Wu, Zhijie, Yu, Dahang, Shortreed, Michael R., Smith, Lloyd M.
Gepubliceerd in Proteomics (2019)

Interlaboratory Study for Characterizing Monoclonal Antibodies by Top-Down and Middle-Down Mass Spectrometry

door Srzentić, Kristina, Fornelli, Luca, Tsybin, Yury O., Loo, Joseph A., Seckler, Henrique, Agar, Jeffrey N., Anderson, Lissa C., Bai, Dina L., Beck, Alain, Brodbelt, Jennifer S., van der Burgt, Yuri E. M., Chamot-Rooke, Julia, Chatterjee, Sneha, Chen, Yunqiu, Clarke, David J., Danis, Paul O., Diedrich, Jolene K., D’Ippolito, Robert A., Dupré, Mathieu, Gasilova, Natalia, Ge, Ying, Goo, Young Ah, Goodlett, David R., Greer, Sylvester, Haselmann, Kim F., He, Lidong, Hendrickson, Christopher L., Hinkle, Joshua D., Holt, Matthew V., Hughes, Sam, Hunt, Donald F., Kelleher, Neil L., Kozhinov, Anton N., Lin, Ziqing, Malosse, Christian, Marshall, Alan G., Menin, Laure, Millikin, Robert J., Nagornov, Konstantin O., Nicolardi, Simone, Paša-Tolić, Ljiljana, Pengelley, Stuart, Quebbemann, Neil R., Resemann, Anja, Sandoval, Wendy, Sarin, Richa, Schmitt, Nicholas D., Shabanowitz, Jeffrey, Shaw, Jared B., Shortreed, Michael R., Smith, Lloyd M., Sobott, Frank, Suckau, Detlev, Toby, Timothy, Weisbrod, Chad R., Wildburger, Norelle C., Yates, John R., Yoon, Sung Hwan, Young, Nicolas L., Zhou, Mowei
Gepubliceerd in J Am Soc Mass Spectrom (2020)