APMA Junior Board

Representing and supporting young scientists in Proteomics, Lipidomics, Metabolomics and Bioinformatics.

Publications

We proudly present publications from fellow APMA members and scientists in the fields of Proteomics, Lipidomics, Metabolomics and Bioinformatics:

Discovery of the antifungal compound ilicicolin K through genetic activation of the ilicicolin biosynthetic pathway in Trichoderma reesei

by Isabella Burger, Matthias Schmal, Kathrin Peikert, Lukas Fourtis, Christoph Suster, Christian Stanetty, Dominik Schnalzer, Barbara Hufnagel, Thomas Böttcher, Ruth Birner-Gruenberger, Robert L. Mach, Astrid R. Mach-Aigner, Matthias Schittmayer, and Christian Zimmermann, 2025.

Integrating the lactulose-mannitol test for intestinal permeability with untargeted metabolomics for drug monitoring through dual liquid chromatography-mass spectrometry

by Felina Hildebrand, Cemre Cukaci, Harald Schoeny, Christoph Baumgartinger, Bruno Stelzer, Matteo Spedicato, Tobias Frey, Martina Catani, Klaus Schmetterer, Richard Frey, and Gunda Koellensperger, 2025.

Challenging the Astral mass analyzer to quantify up to 5,300 proteins per single cell at unseen accuracy to uncover cellular heterogeneity

by Julia A. Bubis, Tabiwang N. Arrey, Eugen Damoc, Bernard Delanghe, Jana Slovakova, Theresa M. Sommer, Harunobu Kagawa, Nicolas Rivron, Peter Pichler, Karl Mechtler and Manuel Matzinger, 2025.

Proteome-wide non-cleavable crosslink identification with MS Annika 3.0 reveals the structure of the C. elegans Box C/D complex

by Micha J. Birklbauer, Fränze Müller, Sowmya Sivakumar Geetha, Manuel Matzinger, Karl Mechtler and Viktoria Dorfer, 2024.

Triple acquisition mass spectrometry (TRAM) combining targeted and non-targeted metabolomics in a single run

by Lisa Panzenböck, Harald Schoeny, Bruno Stelzer, Elisabeth Foels, Marvin Glas, Marlene Pühringer, Dorian Hirschmann, Daniela Loetsch, Christian Dorfer, Evelyn Rampler, and Gunda Koellensperger, 2024.

Automated Liquid Handling Extraction and Rapid Quantification of Underivatized Amino Acids and Tryptophan Metabolites from Human Serum and Plasma Using Dual-Column U(H)PLC-MRM-MS and Its Application to Prostate Cancer Study

by Tobias Kipura, Madlen Hotze, Alexa Hofer, Anna-Sophia Egger, Lea E. Timpen, Christiane A. Opitz, Paul A. Townsend, Lee A. Gethings, Kathrin Thedieck and Marcel Kwiatkowski, 2024.

MobiLipid: A Tool for Enhancing CCS Quality Control of Ion Mobility–Mass Spectrometry Lipidomics by Internal Standardization

by Felina Hildebrand, Gunda Koellensperger and Tim Causon, 2024.

MS2Rescore 3.0 Is a Modular, Flexible, and User-Friendly Platform to Boost Peptide Identifications, as Showcased with MS Amanda 3.0

by Louise M. Buur, Arthur Declercq, Marina Strobl, Robbin Bouwmeester, Sven Degroeve, Lennart Martens, Viktoria Dorfer and Ralf Gabriels, 2024.

Micropillar arrays, wide window acquisition and AI-based data analysis improve comprehensiveness in multiple proteomic applications

by Manuel Matzinger, Anna Schmücker, Ramesh Yelagandula, Karel Stejskal, Gabriela Krššáková, Frédéric Berger, Karl Mechtler and Rupert L. Mayer, 2024.

Immunopeptidomics in the Era of Single-Cell Proteomics

by Rupert L. Mayer and Karl Mechtler, 2023.

MS Annika 2.0 Identifies Cross-Linked Peptides in MS2–MS3-Based Workflows at High Sensitivity and Specificity

by Micha J. Birklbauer, Manuel Matzinger, Fränze Müller, Karl Mechtler and Viktoria Dorfer, 2023.

Scrutinizing different ionization responses of polar lipids in a reversed-phase gradient by implementing a counter-gradient

by Felina Hildebrand, Harald Schoeny, Evelyn Rampler and Gunda Koellensperger, 2023.

Proteome Coverage after Simultaneous Proteo-Metabolome Liquid–Liquid Extraction

by Alienke van Pijkeren, Anna-Sophia Egger, Madlen Hotze, Elisabeth Zimmermann, Tobias Kipura, Julia Grander, André Gollowitzer, Andreas Koeberle, Rainer Bischoff, Kathrin Thedieck and Marcel Kwiatkowski, 2023.

MS-RIDD paves the way toward routine double bond localization in mass spectrometry-based lipidomics

by Leonida M. Lamp and Jürgen Hartler, 2022.

Decoding Distinct Ganglioside Patterns of Native and Differentiated Mesenchymal Stem Cells by a Novel Glycolipidomics Profiling Strategy

by Katharina Hohenwallner, Nina Troppmair, Lisa Panzenboeck, Cornelia Kasper, Yasin El Abiead, Gunda Koellensperger, Leonida M. Lamp, Jürgen Hartler, Dominik Egger and Evelyn Rampler, 2022.

Combined Metabolic and Chemical (CoMetChem) Labeling Using Stable Isotopes—a Strategy to Reveal Site-Specific Histone Acetylation and Deacetylation Rates by LC–MS

by Alienke van Pijkeren, Jörn Dietze, Alejandro Sánchez Brotons, Anna-Sophia Egger, Tim Lijster, Andrei Barcaru, Madlen Hotze, Philipp Kobler, Frank J. Dekker, Peter Horvatovich, Barbro N. Melgert, Mathias Ziegler, Kathrin Thedieck, Ines Heiland, Rainer Bischoff and Marcel Kwiatkowski, 2021.

Uptake and bio-transformation of telmisartan by cress (Lepidium sativum) from sewage treatment plant effluents using high-performance liquid chromatography/drift-tube ion-mobility quadrupole time-of-flight mass spectrometry

by Tamara Lang, Markus Himmelsbach, Franz Mlynek, Wolfgang Buchberger and Christian W. Klampfl, 2021.