IsoProt: A Complete and Reproducible Workflow To Analyze iTRAQ/TMT Experiments

by Griss, Johannes, Vinterhalter, Goran, Schwämmle, Veit
Published in J Proteome Res (2019)

Future Prospects of Spectral Clustering Approaches in Proteomics

by Perez‐Riverol, Yasset, Vizcaíno, Juan Antonio, Griss, Johannes
Published in Proteomics (2018)

jmzReader: A Java parser library to process and visualize multiple text and XML-based mass spectrometry data formats

by Griss, Johannes, Reisinger, Florian, Hermjakob, Henning, Vizcaíno, Juan Antonio
Published 2012

PRIDE Cluster: building the consensus of proteomics data

by Griss, Johannes, Foster, Joseph M., Hermjakob, Henning, Vizcaíno, Juan Antonio
Published 2013

Identifying novel biomarkers through data mining—A realistic scenario?

by Griss, Johannes, Perez‐Riverol, Yasset, Hermjakob, Henning, Vizcaíno, Juan Antonio
Published in Proteomics Clin Appl (2015)

Cleaning out the Litterbox of Proteomic Scientists’ Favorite Pet: Optimized Data Analysis Avoiding Trypsin Artifacts

by Schittmayer, Matthias, Fritz, Katarina, Liesinger, Laura, Griss, Johannes, Birner-Gruenberger, Ruth
Published in J Proteome Res (2016)

Published and Perished? The Influence of the Searched Protein Database on the Long-Term Storage of Proteomics Data

by Griss, Johannes, Côté, Richard G., Gerner, Christopher, Hermjakob, Henning, Vizcaíno, Juan Antonio
Published 2011

ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis

by Griss, Johannes, Viteri, Guilherme, Sidiropoulos, Konstantinos, Nguyen, Vy, Fabregat, Antonio, Hermjakob, Henning
Published in Mol Cell Proteomics (2020)

Consequences of the discontinuation of the International Protein Index (IPI) database and its substitution by the UniProtKB “complete proteome” sets

by Griss, Johannes, Martín, María, O'Donovan, Claire, Apweiler, Rolf, Hermjakob, Henning, Vizcaíno, Juan Antonio
Published 2011

jmzTab: A Java interface to the mzTab data standard

by Xu, Qing-Wei, Griss, Johannes, Wang, Rui, Jones, Andrew R, Hermjakob, Henning, Vizcaíno, Juan Antonio
Published in Proteomics (2014)

Spectral Clustering Improves Label-Free Quantification of Low-Abundant Proteins

by Griss, Johannes, Stanek, Florian, Hudecz, Otto, Dürnberger, Gerhard, Perez-Riverol, Yasset, Vizcaíno, Juan Antonio, Mechtler, Karl
Published in J Proteome Res (2019)

Functional Classification of Cellular Proteome Profiles Support the Identification of Drug Resistance Signatures in Melanoma Cells

by Paulitschke, Verena, Haudek-Prinz, Verena, Griss, Johannes, Berger, Walter, Mohr, Thomas, Pehamberger, Hubert, Kunstfeld, Rainer, Gerner, Christopher
Published 2013

Spatiotemporal Analysis of B Cell- and Antibody Secreting Cell-Subsets in Human Melanoma Reveals Metastasis-, Tumor Stage-, and Age-Associated Dynamics

by Chen, Minyi, Werner, Franziska, Wagner, Christine, Simon, Martin, Richtig, Erika, Mertz, Kirsten D., Griss, Johannes, Wagner, Stephan N.
Published in Front Cell Dev Biol (2021)

A Standardized Analysis of Tertiary Lymphoid Structures in Human Melanoma: Disease Progression- and Tumor Site-Associated Changes With Germinal Center Alteration

by Werner, Franziska, Wagner, Christine, Simon, Martin, Glatz, Katharina, Mertz, Kirsten D., Läubli, Heinz, Griss, Johannes, Wagner, Stephan N.
Published in Front Immunol (2021)

Deep learning embedder method and tool for spectral similarity search

by Qin, Chunyuan, Luo, Xiyang, Deng, Chuan, Shu, Kunxian, Zhu, Weimin, Griss, Johannes, Hermjakob, Henning, Bai, Mingze, Perez-Riverol, Yasset
Published in J Proteomics (2021)

Proteome signatures of inflammatory activated primary human peripheral blood mononuclear cells()

by Haudek-Prinz, Verena J., Klepeisz, Philip, Slany, Astrid, Griss, Johannes, Meshcheryakova, Anastasia, Paulitschke, Verena, Mitulovic, Goran, Stöckl, Johannes, Gerner, Christopher
Published 2012

Loss of Lymphotoxin Alpha-Expressing Memory B Cells Correlates with Metastasis of Human Primary Melanoma

by Werner, Franziska, Wagner, Christine, Simon, Martin, Glatz, Katharina, Mertz, Kirsten D., Läubli, Heinz, Richtig, Erika, Griss, Johannes, Wagner, Stephan N.
Published in Diagnostics (Basel) (2021)

Greazy: open-source software for automated phospholipid MS/MS identification

by 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.
Published in Anal Chem (2016)

Analysis of the tryptic search space in UniProt databases

by Alpi, Emanuele, Griss, Johannes, da Silva, Alan Wilter Sousa, Bely, Benoit, Antunes, Ricardo, Zellner, Hermann, Ríos, Daniel, O'Donovan, Claire, Vizcaíno, Juan Antonio, Martin, Maria J
Published in Proteomics (2015)

Spontaneously Resolved Atopic Dermatitis Shows Melanocyte and Immune Cell Activation Distinct From Healthy Control Skin

by Rindler, Katharina, Krausgruber, Thomas, Thaler, Felix M., Alkon, Natalia, Bangert, Christine, Kurz, Harald, Fortelny, Nikolaus, Rojahn, Thomas B., Jonak, Constanze, Griss, Johannes, Bock, Christoph, Brunner, Patrick M.
Published in Front Immunol (2021)