Kültz, D.* ; Gardell, A.M.* ; DeTomaso, A.* ; Stoney, G.* ; Rinkevich, B.* ; Qarri, A. ; Hamar, J.*
Proteome-wide 4-hydroxy-2-nonenal signature of oxidative stress in the marine invasive tunicate Botryllus schlosseri.
Proteomics 25, 12-25 (2025)
Degroote, R.L.* ; Schmalen, A.* ; Renner, S.* ; Wolf, E.* ; Hauck, S.M. ; Deeg, C.A.*
Diabetic retinopathy from the vitreous proteome perspective: The INSC94Y transgenic pig model study.
Proteomics, DOI: 10.1002/pmic.202300591:e2300591 (2024)
Kültz, D.* ; Gardell, A.M.* ; DeTomaso, A.* ; Stoney, G.* ; Rinkevich, B.* ; Rinkevich, Y. ; Qarri, A. ; Dong, W.* ; Luu, B.* ; Lin, M.*
Deep quantitative proteomics of North American Pacific coast star tunicate (Botryllus schlosseri).
Proteomics:e2300628 (2024)
Sun, B.* ; Smialowski, P. ; Aftab, W.* ; Schmidt, A.* ; Forne, I.* ; Straub, T.* ; Imhof, A.*
Improving SWATH-MS analysis by deep-learning.
Proteomics 23:e2200179 (2023)
Witting, M.
(Re-)use and (re-)analysis of publicly available metabolomics data.
Proteomics 23:e2300032 (2023)
Ruzafa, N.* ; Pereiro, X.* ; Lepper, M.F. ; Hauck, S.M. ; Vecino, E.*
A proteomics approach to identify candidate proteins secreted by Müller glia that protect ganglion cells in the retina.
Proteomics 11:e1700321 (2018)
Hauck, S.M. ; Lepper, M.F. ; Hertl, M.* ; Sekundo, W.* ; Deeg, C.A.*
Proteome dynamics in biobanked horse peripheral blood derived lymphocytes (PBL) with induced autoimmune uveitis.
Proteomics 17:1700013 (2017)
Mossina, A. ; Lukas, C. ; Merl-Pham, J. ; Uhl, F.E.* ; Mutze, K. ; Schamberger, A.C. ; Staab-Weijnitz, C.A. ; Jia, J. ; Yildirim, A.Ö. ; Königshoff, M. ; Hauck, S.M. ; Eickelberg, O. ; Meiners, S.
Cigarette smoke alters the secretome of lung epithelial cells.
Proteomics 17:1600243 (2017)
Lahiri, S.* ; Sun, N. ; Solis-Mezarino, V.* ; Fedisch, A.* ; Ninkovic, J. ; Feuchtinger, A. ; Götz, M. ; Walch, A.K. ; Imhof, A.*
In situ detection of histone variants and modifications in mouse brain using imaging mass spectrometry.
Proteomics 16, 437-447 (2016)
Mai, H.J.* ; Lindermayr, C. ; von Toerne, C. ; Fink-Straube, C.* ; Durner, J. ; Bauer, P.*
Iron and FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR (FIT)-dependent regulation of proteins and genes in Arabidopsis thaliana roots.
Proteomics 15, 3030-3047 (2015)
Porras, P.* ; Duesbury, M.* ; Fabregat, A.* ; Ueffing, M. ; Orchard, S.* ; Gloeckner, C.J. ; Hermjakob, H.*
A visual review of the interactome of LRRK2: Using deep-curated molecular interaction data to represent biology.
Proteomics 15, 1390-1404 (2015)
Maier, S.K. ; Bashkueva, K.* ; Rösli, C.* ; Skerra, A.* ; Kuster, B.*
PAS-cal: A repetitive peptide sequence calibration standard for MALDI mass spectrometry.
Proteomics 14, 2427-2431 (2014)
Sun, N. ; Ly, A. ; Meding, S. ; Witting, M. ; Hauck, S.M. ; Ueffing, M. ; Schmitt-Kopplin, P. ; Aichler, M. ; Walch, A.K.
High-resolution metabolite imaging of light and dark treated retina using MALDI-FTICR mass spectrometry.
Proteomics 14, 913-923 (2014)
Zahedi, R.P.* ; Ueffing, M. ; Sickmann, A.*
Proteomics - moving from inventory to personalized medicine?
Proteomics 14, 1953 (2014)
Yentrapalli, R. ; Azimzadeh, O. ; Barjaktarovic, Z. ; Sarioglu, H. ; Wojcik, A.* ; Harms-Ringdahl, M.* ; Atkinson, M.J. ; Haghdoost, S.* ; Tapio, S.
Quantitative proteomic analysis reveals induction of premature senescence in human umbilical vein endothelial cells exposed to chronic low-dose rate gamma radiation.
Proteomics 13, 1096-1107 (2013)
Braun, P.
Interactome mapping for analysis of complex phenotypes: Insights from benchmarking binary interaction assays.
Proteomics 12, 1499-1518 (2012)
Braun, P. ; Gingras, A.C.*
History of protein-protein interactions: From egg-white to complex networks.
Proteomics 12, 1478-1498 (2012)
Dong, G.F.* ; Callegari, E.* ; Gloeckner, C.J. ; Ueffing, M. ; Wang, H.M.*
Mass spectrometric identification of novel posttranslational modification sites in huntingtin.
Proteomics 12, 2060-2064 (2012)
Merl, J. ; Ueffing, M. ; Hauck, S.M. ; von Toerne, C.
Direct comparison of MS-based label-free and SILAC quantitative proteome profiling strategies in primary retinal Müller cells.
Proteomics 12, 1902-1911 (2012)
Azimzadeh, O. ; Scherthan, H.* ; Sarioglu, H. ; Barjaktarovic, Z. ; Conrad, M. ; Vogt, A.* ; Calzada-Wack, J. ; Neff, F. ; Aubele, M. ; Buske, C. ; Atkinson, M.J. ; Tapio, S.
Rapid proteomic remodeling of cardiac tissue caused by total body ionizing radiation.
Proteomics 11, 3299-3311 (2011)
Holzmeister, C.F. ; Fröhlich, A. ; Sarioglu, H. ; Bauer, N. ; Durner, J. ; Lindermayr, C.
Proteomic analysis of defense response of wildtype Arabidopsis thaliana and plants with impaired NO-homeostasis.
Proteomics 11, 1664-1683 (2011)
Antonov, A.V. ; Dietmann, S. ; Rodchenkov, I. ; Mewes, H.-W.
PPI spider: A tool for the interpretation of proteomics data in the context of protein-protein interaction networks.
Proteomics 9, 2740-2749 (2009)
Milosevic, J.* ; Bulau, P.* ; Mortz, E.* ; Eickelberg, O.
Subcellular fractionation of TGF-β1-stimulated lung epithelial cells: A novel proteomic approach for identifying signaling intermediates.
Proteomics 9, 1230-1240 (2009)
Bode, M.* ; Irmler, M. ; Friedenberger, M.* ; May, C.* ; Jung, K.* ; Stephan, C.* ; Meyer, H.E.* ; Lach, C. ; Hillert, R.* ; Krusche, A.* ; Beckers, J. ; Marcus, K.* ; Schubert, W.*
Interlocking transcriptomics, proteomics and toponomics technologies for brain tissue analysis in murine hippocampus.
Proteomics 8, 1170-1178 (2008)
Hamacher, M.* ; Herberg, F.* ; Ueffing, M. ; Meyer, H.E.
Seven successful years of Omics research: The Human Brain Proteome Project within the National German Research Network (NGFN).
Proteomics 8, 1116-1117 (2008)
Hartl, D.* ; Irmler, M. ; Römer, I.* ; Mader, M.T. ; Mao, L.* ; Zabel, C.* ; Hrabě de Angelis, M. ; Beckers, J. ; Klose, J.*
Transcriptome and proteome analysis of early embryonic mouse brain development.
Proteomics 8, 1257-1265 (2008)
Horsch, M. ; Schädler, S. ; Gailus-Durner, V. ; Fuchs, H. ; Meyer, H.* ; Hrabě de Angelis, M. ; Beckers, J.
Systematic gene expression profiling of mouse model series reveals coexpressed genes.
Proteomics 8, 1248-1256 (2008)
Irmler, M. ; Hartl, D.* ; Schmidt, T.* ; Schuchhardt, J.* ; Lach, C. ; Meyer, H.E.* ; Hrabě de Angelis, M. ; Klose, J.* ; Beckers, J.
An approach to handling and interpretation of ambiguous data in transcriptome and proteome comparisons.
Proteomics 8, 1165-1169 (2008)
Schuchhardt, J.* ; Glintschert, A.* ; Hartl, D.* ; Irmler, M. ; Beckers, J. ; Stephan, C.* ; Marcus, K.* ; Klose., J.* ; Meyer, H.E.* ; Malik, A.*
BrainProfileDB - a platform for integration of functional genomics data.
Proteomics 8, 1162-1164 (2008)
Deeg, C.A.* ; Altmann, F.* ; Hauck, S.M. ; Schoeffmann, S. ; Amann, B.* ; Stangassinger, M.* ; Ueffing, M.
Down-regulation of pigment epithelium-derived factor in uveitic lesion associates with focal vascular endothelial growth factor expression and breakdown of the blood-retinal barrier.
Proteomics 7, 1540-1548 (2007)
Gloeckner, C.J. ; Boldt, K. ; Schumacher, A. ; Roepman, R.* ; Ueffing, M.
A novel tandem affinity purification strategy for the efficient isolation and characterisation of native protein complexes.
Proteomics 7, 4228-4234 (2007)
Hamacher, M.* ; Stephan, C.* ; Eisenacher, M.* ; Lewczuk, P.* ; Wiltfang, J.* ; Martens, L.* ; Vizcaíno, J.A.* ; Kwon, K.H.* ; Yoo, J.S.* ; Park, Y.M.* ; Beckers, J. ; Horsch, M. ; Hrabě de Angelis, M. ; Cho, Z.H.* ; Apweiler, R.* ; Meyer, H.E.*
High Performance Proteomics: 7th HUPO Brain Proteome Project Workshop.
Proteomics 7, 2490-2496 (2007)
Kiemer, L.* ; Costa, S. ; Ueffing, M. ; Cesareni, G.*
WI-PHI: A weighted yeast interactome enriched for direct physical interactions.
Proteomics 7, 932-943 (2007)
Blazek, E. ; Meisterernst, M.
A functional proteomics approach for the detection of nuclear proteins based on derepressed importin alpha.
Proteomics 6, 2070-2078 (2006)
Islinger, M.* ; Lüers, G.H.* ; Zischka, H. ; Ueffing, M. ; Völkl, A.*
Insights into the membrane proteome of rat liver peroxisomes: Microsomal glutathione-S-transferase is shared by both subcellular compartments.
Proteomics 6, 804-816 (2006)
Sarioglu, H. ; Brandner, S. ; Jacobsen, C. ; Meindl, T.* ; Schmidt, A.* ; Kellermann, J.* ; Lottspeich, F.* ; Andrae, U.
Quantitative analysis of 2,3,7,8-tetrachlorodibenzo-p-dioxin-induced proteome alterations in 5L rat hepatoma cells using isotope-coded protein lables.
Proteomics 6, 2407-2421 (2006)
Schmitt, S.* ; Prokisch, H. ; Schlunck, T.* ; Camp II, D.G.* ; Ahting, U. ; Waizenegger, T.* ; Scharfe, C.* ; Meitinger, T. ; Imhof, A.* ; Neupert, W.* ; Oefner, P.J.*
Proteome analysis of mitochondrial outer membrane from Neurospora crassa.
Proteomics 6, 72-80 (2006)
Facius, A. ; Englbrecht, C.C. ; Birzele, F. ; Groscurth, A. ; Benjamin, S. ; Wanka, S. ; Mewes, H.-W.
PRIME: A graphical interface for integrating genomic/proteomic databases.
Proteomics 5, 76-80 (2005)
Hauck, S.M. ; Schoeffmann, S. ; Deeg, C.A.* ; Gloeckner, C.J. ; Swiatek-de Lange, M. ; Ueffing, M.
Proteomic analysis of the porcine interphotoreceptor matrix.
Proteomics 5, 3623-3636 (2005)
Klein, C.* ; Garcia-Rizo, C.* ; Bisle, B.* ; Scheffer, B.* ; Zischka, H. ; Pfeiffer, F.* ; Siedler, F.* ; Oesterhelt, D.*
The membrane proteome of Halobacterium salinarum.
Proteomics 5, 180-197 (2005)
Zischka, H. ; Gloeckner, C.J. ; Klein, C.* ; Willmann, S. ; Swiatek-de Lange, M. ; Ueffing, M.
Improved mass spectrometric identification of gel-separated hydrophobic membrane proteins after sodium dodecyl sulfate removal by ion-pair extraction.
Proteomics 4, 3776-3782 (2004)
Zischka, H. ; Weber, G.* ; Weber, P.J.* ; Posch, A.* ; Braun, R.J. ; Bühringer, D.* ; Schneider, U.* ; Nissum, M.* ; Meitinger, T. ; Ueffing, M. ; Eckerskorn, C.*
Improved proteome analysis of Saccharomyces cerevisiae mitochondria by free-flow electrophoresis.
Proteomics 3, 906-916 (2003)