Discovery–Versus Hypothesis–Driven Detection of Protein–Protein Interactions and Complexes

por Bludau, Isabell
Publicado 2021

AlphaPeptStats: an open-source Python package for automated and scalable statistical analysis of mass spectrometry-based proteomics

por Krismer, Elena, Bludau, Isabell, Strauss, Maximilian T, Mann, Matthias
Publicado 2023

Phosphoproteome profiling uncovers a key role for CDKs in TNF signaling

por Tanzer, Maria C., Bludau, Isabell, Stafford, Che A., Hornung, Veit, Mann, Matthias
Publicado 2021

Mitochondrial phosphoproteomes are functionally specialized across tissues

por Hansen, Fynn M, Kremer, Laura S, Karayel, Ozge, Bludau, Isabell, Larsson, Nils-Göran, Kühl, Inge, Mann, Matthias
Publicado 2023

AlphaMap: an open-source Python package for the visual annotation of proteomics data with sequence-specific knowledge

por Voytik, Eugenia, Bludau, Isabell, Willems, Sander, Hansen, Fynn M, Brunner, Andreas-David, Strauss, Maximilian T, Mann, Matthias
Publicado 2021

AlphaPeptDeep: a modular deep learning framework to predict peptide properties for proteomics

por Zeng, Wen-Feng, Zhou, Xie-Xuan, Willems, Sander, Ammar, Constantin, Wahle, Maria, Bludau, Isabell, Voytik, Eugenia, Strauss, Maximillian T., Mann, Matthias
Publicado 2022

Rapid Profiling of Protein Complex Reorganization in Perturbed Systems

por Bludau, Isabell, Nicod, Charlotte, Martelli, Claudia, Xue, Peng, Heusel, Moritz, Fossati, Andrea, Uliana, Federico, Frommelt, Fabian, Aebersold, Ruedi, Collins, Ben C.
Publicado 2023

Data-independent acquisition method for ubiquitinome analysis reveals regulation of circadian biology

por Hansen, Fynn M., Tanzer, Maria C., Brüning, Franziska, Bludau, Isabell, Stafford, Che, Schulman, Brenda A., Robles, Maria S., Karayel, Ozge, Mann, Matthias
Publicado 2021

Systematic detection of functional proteoform groups from bottom-up proteomic datasets

por Bludau, Isabell, Frank, Max, Dörig, Christian, Cai, Yujia, Heusel, Moritz, Rosenberger, George, Picotti, Paola, Collins, Ben C., Röst, Hannes, Aebersold, Ruedi
Publicado 2021

The structural context of posttranslational modifications at a proteome-wide scale

por Bludau, Isabell, Willems, Sander, Zeng, Wen-Feng, Strauss, Maximilian T., Hansen, Fynn M., Tanzer, Maria C., Karayel, Ozge, Schulman, Brenda A., Mann, Matthias
Publicado 2022

Complex‐centric proteome profiling by SEC‐SWATH‐MS

por Heusel, Moritz, Bludau, Isabell, Rosenberger, George, Hafen, Robin, Frank, Max, Banaei‐Esfahani, Amir, van Drogen, Audrey, Collins, Ben C, Gstaiger, Matthias, Aebersold, Ruedi
Publicado 2019

Integrative proteomics reveals principles of dynamic phosphosignaling networks in human erythropoiesis

por Karayel, Özge, Xu, Peng, Bludau, Isabell, Velan Bhoopalan, Senthil, Yao, Yu, Ana Rita, Freitas Colaco, Santos, Alberto, Schulman, Brenda A, Alpi, Arno F, Weiss, Mitchell J, Mann, Matthias
Publicado 2020

A Global Screen for Assembly State Changes of the Mitotic Proteome by SEC-SWATH-MS

por Heusel, Moritz, Frank, Max, Köhler, Mario, Amon, Sabine, Frommelt, Fabian, Rosenberger, George, Bludau, Isabell, Aulakh, Simran, Linder, Monika I., Liu, Yansheng, Collins, Ben C., Gstaiger, Matthias, Kutay, Ulrike, Aebersold, Ruedi
Publicado 2020

The impact of genomic variation on protein phosphorylation states and regulatory networks

por Grossbach, Jan, Gillet, Ludovic, Clément‐Ziza, Mathieu, Schmalohr, Corinna L, Schubert, Olga T, Schütter, Maximilian, Mawer, Julia S P, Barnes, Christopher A, Bludau, Isabell, Weith, Matthias, Tessarz, Peter, Graef, Martin, Aebersold, Ruedi, Beyer, Andreas
Publicado 2022

Native Size-Exclusion Chromatography–Based Mass Spectrometry Reveals New Components of the Early Heat Shock Protein 90 Inhibition Response Among Limited Global Changes

por Samant, Rahul S., Batista, Silvia, Larance, Mark, Ozer, Bugra, Milton, Christopher I., Bludau, Isabell, Wu, Estelle, Biggins, Laura, Andrews, Simon, Hervieu, Alexia, Johnston, Harvey E., Al-Lazikhani, Bissan, Lamond, Angus I., Clarke, Paul A., Workman, Paul
Publicado 2022

Statistical control of peptide and protein error rates in large-scale targeted DIA analyses

por Rosenberger, George, Bludau, Isabell, Schmitt, Uwe, Heusel, Moritz, Hunter, Christie, Liu, Yansheng, MacCoss, Michael J., MacLean, Brendan X., Nesvizhskii, Alexey I., Pedrioli, Patrick G. A., Reiter, Lukas, Röst, Hannes L., Tate, Stephen, Ting, Ying S., Collins, Ben C., Aebersold, Ruedi
Publicado 2017

Toward an Integrated Machine Learning Model of a Proteomics Experiment

por Neely, Benjamin A., Dorfer, Viktoria, Martens, Lennart, Bludau, Isabell, Bouwmeester, Robbin, Degroeve, Sven, Deutsch, Eric W., Gessulat, Siegfried, Käll, Lukas, Palczynski, Pawel, Payne, Samuel H., Rehfeldt, Tobias Greisager, Schmidt, Tobias, Schwämmle, Veit, Uszkoreit, Julian, Vizcaíno, Juan Antonio, Wilhelm, Mathias, Palmblad, Magnus
Publicado 2023

Robust dimethyl‐based multiplex‐DIA doubles single‐cell proteome depth via a reference channel

por Thielert, Marvin, Itang, Ericka CM, Ammar, Constantin, Rosenberger, Florian A, Bludau, Isabell, Schweizer, Lisa, Nordmann, Thierry M, Skowronek, Patricia, Wahle, Maria, Zeng, Wen‐Feng, Zhou, Xie‐Xuan, Brunner, Andreas‐David, Richter, Sabrina, Levesque, Mitchell P, Theis, Fabian J, Steger, Martin, Mann, Matthias
Publicado 2023