Skyline: an open source document editor for creating and analyzing targeted proteomics experiments von MacLean, Brendan, Tomazela, Daniela M., Shulman, Nicholas, Chambers, Matthew, Finney, Gregory L., Frewen, Barbara, Kern, Randall, Tabb, David L., Liebler, Daniel C., MacCoss, Michael J.

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The Evolutionary Imprint of Domestication on Genome Variation and Function of the Filamentous Fungus Aspergillus oryzae von Gibbons, John G., Salichos, Leonidas, Slot, Jason C., Rinker, David C., McGary, Kriston L., King, Jonas G., Klich, Maren A., Tabb, David L., McDonald, W. Hayes, Rokas, Antonis

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MetaNovo: An open-source pipeline for probabilistic peptide discovery in complex metaproteomic datasets von Potgieter, Matthys G, Nel, Andrew J M, Fortuin, Suereta, Garnett, Shaun, Wendoh, Jerome M, Tabb, David L, Mulder, Nicola J, Blackburn, Jonathan M

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Employing ProteoWizard to Convert Raw Mass Spectrometry Data von Holman, Jerry D., Tabb, David L., Mallick, Parag

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Recognizing millions of consistently unidentified spectra across hundreds of shotgun proteomics datasets von Griss, Johannes, Perez-Riverol, Yasset, Lewis, Steve, Tabb, David L, Dianes, José A, del-Toro, Noemi, Rurik, Marc, Walzer, Mathias, Kohlbacher, Oliver, Hermjakob, Henning, Wang, Rui, Vizcaíno, Juan Antonio

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MyriMatch:  Highly Accurate Tandem Mass Spectral Peptide Identification by Multivariate Hypergeometric Analysis von Tabb, David L, Fernando, Christopher G, Chambers, Matthew C

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A Face in the Crowd: Recognizing Peptides Through Database Search von Eng, Jimmy K., Searle, Brian C., Clauser, Karl R., Tabb, David L.

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Proteomic Parsimony through Bipartite Graph Analysis Improves Accuracy and Transparency von Zhang, Bing, Chambers, Matthew C, Tabb, David L

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Proteomics Standards Initiative: Fifteen Years of Progress and Future Work von Deutsch, Eric W, Orchard, Sandra, Binz, Pierre-Alain, Bittremieux, Wout, Eisenacher, Martin, Hermjakob, Henning, Kawano, Shin, Lam, Henry, Mayer, Gerhard, Menschaert, Gerben, Perez-Riverol, Yasset, Salek, Reza M, Tabb, David L, Tenzer, Stefan, Vizcaíno, Juan Antonio, Walzer, Mathias, Jones, Andrew R

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SWATH-MS based proteomic profiling of pancreatic ductal adenocarcinoma tumours reveals the interplay between the extracellular matrix and related intracellular pathways von Nweke, Ekene Emmanuel, Naicker, Previn, Aron, Shaun, Stoychev, Stoyan, Devar, John, Tabb, David L, Omoshoro-Jones, Jones, Smith, Martin, Candy, Geoffrey

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Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work von Deutsch, Eric W., Vizcaíno, Juan Antonio, Jones, Andrew R., Binz, Pierre-Alain, Lam, Henry, Klein, Joshua, Bittremieux, Wout, Perez-Riverol, Yasset, Tabb, David L., Walzer, Mathias, Ricard-Blum, Sylvie, Hermjakob, Henning, Neumann, Steffen, Mak, Tytus D., Kawano, Shin, Mendoza, Luis, Van Den Bossche, Tim, Gabriels, Ralf, Bandeira, Nuno, Carver, Jeremy, Pullman, Benjamin, Sun, Zhi, Hoffmann, Nils, Shofstahl, Jim, Zhu, Yunping, Licata, Luana, Quaglia, Federica, Tosatto, Silvio C. E., Orchard, Sandra E.

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Comparative Proteomics Analysis between Maize and Sorghum Uncovers Important Proteins and Metabolic Pathways Mediating Drought Tolerance von Ali, Ali Elnaeim Elbasheir, Husselmann, Lizex Hollenbach, Tabb, David L, Ludidi, Ndiko

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Protein Identification Using Customized Protein Sequence Databases Derived from RNA-Seq Data von Wang, Xiaojing, Slebos, Robbert J. C, Wang, Dong, Halvey, Patrick J, Tabb, David L, Liebler, Daniel C, Zhang, Bing

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enterocyte microvillus is a vesicle-generating organelle von McConnell, Russell E, Higginbotham, James N, Shifrin, David A. Jr, Tabb, David L, Coffey, Robert J, Tyska, Matthew J

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DTASelect and Contrast:  Tools for Assembling and Comparing Protein Identifications from Shotgun Proteomics von Tabb, David L, McDonald, W. Hayes, Yates, John R

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The Human Proteome Organization–Proteomics Standards Initiative Quality Control Working Group: Making Quality Control More Accessible for Biological Mass Spectrometry von Bittremieux, Wout, Walzer, Mathias, Tenzer, Stefan, Zhu, Weimin, Salek, Reza M, Eisenacher, Martin, Tabb, David L

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Proteomic Analysis of Chinese Hamster Ovary Cells von Baycin-Hizal, Deniz, Tabb, David L, Chaerkady, Raghothama, Chen, Lily, Lewis, Nathan E, Nagarajan, Harish, Sarkaria, Vishaldeep, Kumar, Amit, Wolozny, Daniel, Colao, Joe, Jacobson, Elena, Tian, Yuan, O’Meally, Robert N, Krag, Sharon S, Cole, Robert N, Palsson, Bernhard O, Zhang, Hui, Betenbaugh, Michael

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Greazy: Open-Source Software for Automated Phospholipid Tandem Mass Spectrometry Identification von Kochen, Michael A, Chambers, Matthew C, Holman, Jay D, Nesvizhskii, Alexey I, Weintraub, Susan T, Belisle, John T, Islam, M. Nurul, Griss, Johannes, Tabb, David L

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Advanced Proteogenomic Analysis Reveals Multiple Peptide Mutations and Complex Immunoglobulin Peptides in Colon Cancer von Woo, Sunghee, Cha, Seong Won, Bonissone, Stefano, Na, Seungjin, Tabb, David L, Pevzner, Pavel A, Bafna, Vineet

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The SEQUEST Family Tree von Tabb, David L.

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