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Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite

https://doi.org/10.1021/acs.jproteome.2c00624

Deutsch, Eric W.; Mendoza, Luis; Shteynberg, David D.; Hoopmann, Michael R.; Sun, Zhi; Eng, Jimmy K.; Moritz, Robert L. (February 2023, Journal of Proteome Research)

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Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline

https://doi.org/10.1021/acs.jproteome.2c00670

Hoopmann, Michael R.; Shteynberg, David D.; Zelter, Alex; Riffle, Michael; Lyon, Andrew S.; Agard, David A.; Luan, Qing; Nolen, Brad J.; MacCoss, Michael J.; Davis, Trisha N.; et al (February 2023, Journal of Proteome Research)

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Insights from the First Phosphopeptide Challenge of the MS Resource Pillar of the HUPO Human Proteome Project

https://doi.org/10.1021/acs.jproteome.0c00648

Hoopmann, Michael R.; Kusebauch, Ulrike; Palmblad, Magnus; Bandeira, Nuno; Shteynberg, David D.; He, Lingjie; Xia, Bin; Stoychev, Stoyan H.; Omenn, Gilbert S.; Weintraub, Susan T.; et al (December 2020, Journal of Proteome Research)

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