Picciani, Mario;Gabriel, Wassim;Giurcoiu, Victor‐George;Shouman, Omar;Hamood, Firas;Lautenbacher, Ludwig;Jensen, Cecilia Bang;Müller, Julian;Kalhor, Mostafa;Soleymaniniya, Armin;Kuster, Bernhard;The, Matthew;Wilhelm, Mathias
Oktoberfest: Open‐source spectral library generation and rescoring pipeline based on Prosit
PROTEOMICS
2023
24
8

Piller, Andrea;Brajkovic, Sarah;Abbas, Qussai;Andrade‐Galan, Paula;Aydin, Ezgi;Corongiu, Gianluca;Giordano, Guido;Haljiti, Genc;Hein, Sophia;Pan, Jiuyue;Picciani, Mario;Ramirez, Veronica;Röhrl, Patrick;Saylan, Cemil Can;Soleymaniniya, Armin;Urzinger, Sebastian;Würstl, Lukas;Avramova, Viktoriya;Dawid, Corinna;Frishman, Dmitrij;Gutjahr, Caroline;Hückelhoven, Ralph;Ludwig, Christina;Pauling, Josch;Schön, Chris‐Carolin;Schwechheimer, Claus;Wilhelm, Mathias;Wilhelm, Stephanie;Poppenberger, Brigitte;Küster, Bernhard
The Proteomes that Feed the World
Lebensmittelchemie
2023
77
S1

McGann, Chris D.;Barshop, William D.;Canterbury, Jesse D.;Lin, Chuwei;Gabriel, Wassim;Huang, Jingjing;Bergen, David;Zabrouskov, Vlad;Melani, Rafael D.;Wilhelm, Mathias;McAlister, Graeme C.;Schweppe, Devin K.
Real-Time Spectral Library Matching for Sample Multiplexed Quantitative Proteomics
Journal of Proteome Research
2023
22
9
2836-2846

Chiva, Cristina;Elhamraoui, Zahra;Solé, Amanda;Serret, Marc;Wilhelm, Mathias;Sabidó, Eduard
Assessment and Prediction of Human Proteotypic Peptide Stability for Proteomics Quantification
Analytical Chemistry
2023
95
37
13746-13749

Reinecke, Maria;Brear, Paul;Vornholz, Larsen;Berger, Benedict-Tilmann;Seefried, Florian;Wilhelm, Stephanie;Samaras, Patroklos;Gyenis, Laszlo;Litchfield, David William;Médard, Guillaume;Müller, Susanne;Ruland, Jürgen;Hyvönen, Marko;Wilhelm, Mathias;Kuster, Bernhard
Chemical proteomics reveals the target landscape of 1,000 kinase inhibitors
Nature Chemical Biology
2023

Tretter, Celina;de Andrade Krätzig, Niklas;Pecoraro, Matteo;Lange, Sebastian;Seifert, Philipp;von Frankenberg, Clara;Untch, Johannes;Zuleger, Gabriela;Wilhelm, Mathias;Zolg, Daniel P.;Dreyer, Florian S.;Bräunlein, Eva;Engleitner, Thomas;Uhrig, Sebastian;Boxberg, Melanie;Steiger, Katja;Slotta-Huspenina, Julia;Ochsenreither, Sebastian;von Bubnoff, Nikolas;Bauer, Sebastian;Boerries, Melanie;Jost, Philipp J.;Schenck, Kristina;Dresing, Iska;Bassermann, Florian;Friess, Helmut;Reim, Daniel;Grützmann, Konrad;Pfütze, Katrin;Klink, Barbara;Schröck, Evelin;Haller, Bernhard;Kuster, Bernhard;Mann, Matthias;Weichert, Wilko;Fröhling, Stefan;Rad, Roland;Hiltensperger, Michael;Krackhardt, Angela M.
Proteogenomic analysis reveals RNA as a source for tumor-agnostic neoantigen identification
Nature Communications
2023
14
1

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
Toward an Integrated Machine Learning Model of a Proteomics Experiment
Journal of Proteome Research
2023
22
3
681-696

Zecha, Jana;Bayer, Florian P.;Wiechmann, Svenja;Woortman, Julia;Berner, Nicola;Müller, Julian;Schneider, Annika;Kramer, Karl;Abril-Gil, Mar;Hopf, Thomas;Reichart, Leonie;Chen, Lin;Hansen, Fynn M.;Lechner, Severin;Samaras, Patroklos;Eckert, Stephan;Lautenbacher, Ludwig;Reinecke, Maria;Hamood, Firas;Prokofeva, Polina;Vornholz, Larsen;Falcomatà, Chiara;Dorsch, Madeleine;Schröder, Ayla;Venhuizen, Anton;Wilhelm, Stephanie;Médard, Guillaume;Stoehr, Gabriele;Ruland, Jürgen;Grüner, Barbara M.;Saur, Dieter;Buchner, Maike;Ruprecht, Benjamin;Hahne, Hannes;The, Matthew;Wilhelm, Mathias;Kuster, Bernhard
Decrypting drug actions and protein modifications by dose- and time-resolved proteomics
Science
2023
380
6640
93-101