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List of works by Bernhard Kuster

18O-labeling of N-glycosylation sites to improve the identification of gel-separated glycoproteins using peptide mass mapping and database searching.

scientific article

90S pre-ribosomes include the 35S pre-rRNA, the U3 snoRNP, and 40S subunit processing factors but predominantly lack 60S synthesis factors

scientific article

A Proteome-wide Approach Identifies Sumoylated Substrate Proteins in Yeast

scientific article published in Journal of Biological Chemistry

A Scalable Approach for Protein False Discovery Rate Estimation in Large Proteomic Data Sets

scientific article

A bead-based western for high-throughput cellular signal transduction analyses

scientific article

A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

scientific article published on 18 February 2019

A hydrodynamically optimized nano-electrospray ionization source and vacuum interface

scientific article

A large synthetic peptide and phosphopeptide reference library for mass spectrometry-based proteomics

scientific article

A multivariate approach to the integration of multi-omics datasets

scientific article

A new chemical probe for quantitative proteomic profiling of fibroblast growth factor receptor and its inhibitors

scientific article published on 31 October 2013

A new variant of the gamma subunit of renal Na,K-ATPase. Identification by mass spectrometry, antibody binding, and expression in cultured cells.

scientific article

A novel two-stage tandem mass spectrometry approach and scoring scheme for the identification of O-GlcNAc modified peptides

scientific article

A physical and functional map of the human TNF-alpha/NF-kappa B signal transduction pathway

scientific article

A public-private partnership to unlock the untargeted kinome

scientific article published in January 2013

A simple and effective cleavable linker for chemical proteomics applications

scientific article published on October 2012

A transmembrane tight junction protein selectively expressed on endothelial cells and platelets

scientific article (publication date: 3 May 2002)

Adaptive Resistance to EGFR-Targeted Therapy by Calcium Signaling in NSCLC Cells

scholarly article by Celine Mulder published in July 2018

Affinity Purification of Proteins Binding to Kinase Inhibitors Immobilized on Self-Assembling Monolayers

Affinity purification-mass spectrometry. Powerful tools for the characterization of protein complexes

scientific article

An improved two-step calibration method for matrix-assisted laser desorption/ionization time-of-flight mass spectra for proteomics

article by Marcus Bantscheff et al published 2002 in Rapid Communications in Mass Spectrometry

Auxin efflux by PIN-FORMED proteins is activated by two different protein kinases, D6 PROTEIN KINASE and PINOID

scientific article

Bacterial production and functional characterization of the Fab fragment of the murine IgG1/lambda monoclonal antibody cmHsp70.1, a reagent for tumour diagnostics

scientific article published in February 2010

Carbonyl-reactive tandem mass tags for the proteome-wide quantification of N-linked glycans

scientific article

Cell cycle-regulated PLEIADE/AtMAP65-3 links membrane and microtubule dynamics during plant cytokinesis

scientific article

Cell-cycle-regulated association of RAD50/MRE11/NBS1 with TRF2 and human telomeres

scientific article published in July 2000

Challenges in Clinical Metaproteomics Highlighted by the Analysis of Acute Leukemia Patients with Gut Colonization by Multidrug-Resistant Enterobacteriaceae

scientific article published on 08 January 2019

Characterization of a chemical affinity probe targeting Akt kinases

scientific article published on 3 July 2013

Characterization of a high field Orbitrap mass spectrometer for proteome analysis

scientific article published on 30 July 2013

Chemical Proteomics Reveals Ferrochelatase as a Common Off-target of Kinase Inhibitors

scientific article published on 10 February 2016

Chemical Proteomics Uncovers EPHA2 as a Mechanism of Acquired Resistance to Small Molecule EGFR Kinase Inhibition

scientific article published on 26 May 2015

Chemoproteomic Selectivity Profiling of PIKK and PI3K Kinase Inhibitors

scientific article published on 03 April 2019

CiRCus: A Framework to Enable Classification of Complex High-Throughput Experiments

scientific article published on 22 March 2019

Clec12a is an inhibitory receptor for uric acid crystals that regulates inflammation in response to cell death

scientific article published on 13 March 2014

Clinical response to chemotherapy in oesophageal adenocarcinoma patients is linked to defects in mitochondria

scientific article published on August 2013

Co-immunoprecipitation-based identification of putative BAX INHIBITOR-1-interacting proteins involved in cell death regulation and plant-powdery mildew interactions.

scientific article

Comparing immobilized kinase inhibitors and covalent ATP probes for proteomic profiling of kinase expression and drug selectivity

scientific article

Comparison of fragmentation modes for the structural determination of complex oligosaccharides ionized by matrix-assisted laser desorption/ionization mass spectrometry.

scientific article published on January 1995

Comprehensive and reproducible phosphopeptide enrichment using iron immobilized metal ion affinity chromatography (Fe-IMAC) columns

scientific article

Comprehensive identification of proteins from MALDI imaging

scientific article

Comprehensive proteome analysis in Cenococcum geophilum Fr. as a tool to discover drought-related proteins

scientific article published on 8 May 2012

Comprehensive proteomic analysis of human Par protein complexes reveals an interconnected protein network

scientific article

Computational prediction of proteotypic peptides for quantitative proteomics

scientific article published on 31 December 2006

Confident phosphorylation site localization using the Mascot Delta Score

scientific article

Covalent cross-links between the gamma subunit (FXYD2) and alpha and beta subunits of Na,K-ATPase: modeling the alpha-gamma interaction

scientific article published on 2 March 2005

DENEDDYLASE1 Protein Counters Automodification of Neddylating Enzymes to Maintain NEDD8 Protein Homeostasis in Arabidopsis

scientific article published on 17 January 2017

DENEDDYLASE1 deconjugates NEDD8 from non-cullin protein substrates in Arabidopsis thaliana

scientific article published in 2015

DMSO enhances electrospray response, boosting sensitivity of proteomic experiments

scientific article published on 25 August 2013

De novo discovery of phenotypic intratumour heterogeneity using imaging mass spectrometry.

scientific article

Decrypting drug actions and protein modifications by dose- and time-resolved proteomics

scientific article published on 16 March 2023

Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics

scientific article published on 07 June 2021

Defining the carrier proteome limit for single-cell proteomics

scientific article published on 07 December 2020

Detection of tyrosine phosphorylated peptides by precursor ion scanning quadrupole TOF mass spectrometry in positive ion mode

scientific article published in April 2001

Dimension reduction techniques for the integrative analysis of multi-omics data

scientific article

Discovery of O-GlcNAc-6-phosphate modified proteins in large-scale phosphoproteomics data

scientific article

Discovery of O-GlcNAc-modified proteins in published large-scale proteome data

scientific article (publication date: October 2012)

Disruption of the PRKCD-FBXO25-HAX-1 axis attenuates the apoptotic response and drives lymphomagenesis.

scientific article published on 24 November 2014

Dissecting the sequence determinants for dephosphorylation by the catalytic subunits of phosphatases PP1 and PP2A

scientific article published on 17 July 2020

ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins

scientific article

ERCC1/XPF removes the 3' overhang from uncapped telomeres and represses formation of telomeric DNA-containing double minute chromosomes

scientific article

Enterococcus faecalis metalloprotease compromises epithelial barrier and contributes to intestinal inflammation

scientific article published on 26 May 2011

Ethylene glycol improves electrospray ionization efficiency in bottom-up proteomics

article published in 2016

Evaluation of Kinase Activity Profiling Using Chemical Proteomics

scientific article published on 17 September 2015

Femtomol sensitivity post-digest (18)O labeling for relative quantification of differential protein complex composition

scientific article published in January 2004

Functional analysis of the human CDC5L complex and identification of its components by mass spectrometry

scientific article

Functional organization of the yeast proteome by systematic analysis of protein complexes

scientific article

Generating high quality libraries for DIA MS with empirically corrected peptide predictions

scientific article published on 25 March 2020

Global proteome analysis of the NCI-60 cell line panel

scientific article published on 8 August 2013

Glycosylation of natural human neutrophil gelatinase B and neutrophil gelatinase B-associated lipocalin.

scientific article

High-fat diet alters gut microbiota physiology in mice

scientific article

Human Proteinpedia enables sharing of human protein data

scientific article

Identification of Highly Potent Protein Kinase C-Related Kinase 1 Inhibitors by Virtual Screening, Binding Free Energy Rescoring, and in vitro Testing

scientific article

Identifying proteins and post-translational modifications by mass spectrometry

scientific article published in June 1998

Immunomodulatory drugs disrupt the cereblon-CD147-MCT1 axis to exert antitumor activity and teratogenicity

scientific article published on 13 June 2016

Increased Pancreatic Protease Activity in Response to Antibiotics Impairs Gut Barrier and Triggers Colitis

Inhibitor-based affinity probes for the investigation of JAK signaling pathways

scientific article published on 9 May 2015

Investigating RET RTK signaling pathways using an IAP-based activity-profiling approach

scientific article

Ion mobility tandem mass spectrometry enhances performance of bottom-up proteomics

scientific article published on 8 August 2014

Isolation and Structure Determination of a New Iridal from Iris sibirica

K+ Efflux-Independent NLRP3 Inflammasome Activation by Small Molecules Targeting Mitochondria

scientific article

Lactocepin secreted by Lactobacillus exerts anti-inflammatory effects by selectively degrading proinflammatory chemokines.

scientific article

Linking post-translational modifications and protein turnover by site-resolved protein turnover profiling

scientific article published on 10 January 2022

MALDI imaging mass spectrometry for in situ proteomic analysis of preneoplastic lesions in pancreatic cancer

scientific article published in 2012

MALDI imaging mass spectrometry reveals COX7A2, TAGLN2 and S100-A10 as novel prognostic markers in Barrett's adenocarcinoma

scientific article

MALDI-TOF and nESI Orbitrap MS/MS identify orthogonal parts of the phosphoproteome

scientific article

ML3 is a NEDD8- and ubiquitin-modified protein

scientific article

MOGSA: Integrative Single Sample Gene-set Analysis of Multiple Omics Data

scientific article published on 26 June 2019

MScDB: a mass spectrometry-centric protein sequence database for proteomics

scientific article published on 14 May 2013

Mass spectrometry-based proteomics in preclinical drug discovery

scientific article

Mass-spectrometry-based draft of the Arabidopsis proteome

scientific article published on 11 March 2020

Mass-spectrometry-based draft of the human proteome

scientific article (publication date: 29 May 2014)

Measuring and managing ratio compression for accurate iTRAQ/TMT quantification

scientific article published on 2 July 2013

Meltome atlas-thermal proteome stability across the tree of life

scientific article published on 13 April 2020

Mitotic arrest and slippage induced by pharmacological inhibition of Polo-like kinase 1.

scientific article published on 11 August 2014

Molecular mechanisms behind the antimicrobial activity of hop iso-α-acids in Lactobacillus brevis

New affinity probe targeting VEGF receptors for kinase inhibitor selectivity profiling by chemical proteomics.

scientific article published on 22 April 2014

Novel Flp pilus biogenesis-dependent natural transformation

scientific article published on 10 February 2015

O2-03-05 Proteomic analysis of amyloid precursor protein processing complexes in human neuroblastoma cells by tandem affinity purification

Oligosaccharide sequencing technology.

scientific article

Oligosaccharides of recombinant mouse gelatinase B variants

scientific article published on 01 November 1998

Optimized Plk1 PBD Inhibitors Based on Poloxin Induce Mitotic Arrest and Apoptosis in Tumor Cells.

scientific article published on 17 August 2015

Optimized chemical proteomics assay for kinase inhibitor profiling

scientific article

Oxidative stress modulates theophylline effects on steroid responsiveness

scientific article published on 23 October 2008

PAS-cal: A repetitive peptide sequence calibration standard for MALDI mass spectrometry

scientific article

PAS-cal: a generic recombinant peptide calibration standard for mass spectrometry

scientific article

PLK1-dependent phosphorylation restrains EBNA2 activity and lymphomagenesis in EBV-infected mice

scientific article published on 04 October 2021

PROTAC-mediated degradation reveals a non-catalytic function of AURORA-A kinase

scientific article published on 28 September 2020

PROTEOFORMER 2.0: Further Developments in the Ribosome Profiling-assisted Proteogenomic Hunt for New Proteoforms

scientific article published on 30 April 2019

Partially glucose-capped oligosaccharides are found on the hemoglobins of the deep-sea tube worm Riftia pachyptila ⬇️

scientific article published on July 1, 1998

Persistent inhibition of pore-based cell migration by sub-toxic doses of miuraenamide, an actin filament stabilizer

scientific article published on 27 November 2017

Perspectives in the glycosciences--matrix-assisted laser desorption/ionization (MALDI) mass spectrometry of carbohydrates.

scientific article

Pharmacoproteomic characterisation of human colon and rectal cancer.

scientific article published on 3 November 2017

Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins

scientific article

Phosphoramidates as Novel Activity-Based Probes for Serine Proteases

scholarly article by Ute R. Haedke published in May 2014

Phosphorylation site localization in peptides by MALDI MS/MS and the Mascot Delta Score

scientific article

Phosphotyrosine mediated protein interactions of the discoidin domain receptor 1.

scientific article

Plant Cytokinesis Is Orchestrated by the Sequential Action of the TRAPPII and Exocyst Tethering Complexes

article

Probing SH2-domains using Inhibitor Affinity Purification (IAP).

scientific article published on 16 July 2014

Profiling core proteomes of human cell lines by one-dimensional PAGE and liquid chromatography-tandem mass spectrometry

scientific article published on 6 October 2003

Prosit: proteome-wide prediction of peptide tandem mass spectra by deep learning

scientific article published on 27 May 2019

Proteome activity landscapes of tumor cell lines determine drug responses

scientific article published on 20 July 2020

Proteome survey reveals modularity of the yeast cell machinery

scientific article

Proteome wide purification and identification of O-GlcNAc-modified proteins using click chemistry and mass spectrometry

scientific article

Proteomic and Metabolite Profiling Reveals Profound Structural and Metabolic Reorganization of Adipocyte Mitochondria in Obesity

scientific article published on 07 February 2020

Proteomic and transcriptomic profiling of aerial organ development in Arabidopsis

scientific article published on 09 October 2020

Proteomic meta-study harmonization, mechanotyping and drug repurposing candidate prediction with ProHarMeD

scientific article published in 2023

Proteomics: a pragmatic perspective

scientific article published on 09 July 2010

Quantification and discovery of sequence determinants of protein-per-mRNA amount in 29 human tissues

scientific article published on 18 February 2019

Quantitative chemical proteomics reveals a Plk1 inhibitor-compromised cell death pathway in human cells

scientific article published on July 2014

Quantitative chemical proteomics reveals mechanisms of action of clinical ABL kinase inhibitors

scientific article

Quantitative chemical proteomics reveals new potential drug targets in head and neck cancer

scientific article published on 28 September 2011

Quantitative mass spectrometry in proteomics

article published in 2012

Quantitative mass spectrometry in proteomics: a critical review

scientific article (publication date: October 2007)

Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present

scientific article published on 08 July 2012

Quantitative proteome profiling of human myoma and myometrium tissue reveals kinase expression signatures with potential for therapeutic intervention

scientific article published on 17 December 2014

Rebuilding core abscisic acid signaling pathways of Arabidopsis in yeast

scientific article published on 01 August 2019

Reduced mitochondrial mass and function add to age-related susceptibility toward diet-induced fatty liver in C57BL/6J mice

scientific article

Repurposing human kinase inhibitors to create an antibiotic active against drug-resistant Staphylococcus aureus, persisters and biofilms

scientific article published on 16 December 2019

Requirement of ATM-Dependent Monoubiquitylation of Histone H2B for Timely Repair of DNA Double-Strand Breaks

Requirement of ATM-dependent monoubiquitylation of histone H2B for timely repair of DNA double-strand breaks

scientific article

Robust and sensitive iTRAQ quantification on an LTQ Orbitrap mass spectrometer

scientific article published on 29 May 2008

Robust, reproducible and quantitative analysis of thousands of proteomes by micro-flow LC-MS/MS

scientific article published on 09 January 2020

SARS-CoV-2 infection remodels the host protein thermal stability landscape

scientific article published on 01 February 2021

SCFFbxo9 and CK2 direct the cellular response to growth factor withdrawal via Tel2/Tti1 degradation and promote survival in multiple myeloma

scientific article

SIMSI-Transfer: Software-assisted reduction of missing values in phosphoproteomic and proteomic isobaric labeling data using tandem mass spectrum clustering

scientific article published on 22 April 2022

Scoring proteomes with proteotypic peptide probes

scientific article

Selective multi-kinase inhibition sensitizes mesenchymal pancreatic cancer to immune checkpoint blockade by remodeling the tumor microenvironment

scientific article published on 31 January 2022

Semi-supervised Learning Predicts Approximately One Third of the Alternative Splicing Isoforms as Functional Proteins

scientific article

Sequencing of N-Linked Oligosaccharides Directly from Protein Gels: In-Gel Deglycosylation Followed by Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry and Normal-Phase High-Performance Liquid Chromatography ⬇️

scientific article published on July 15, 1997

Software tools for MS-based quantitative proteomics: a brief overview

scientific article published on January 2012

Sorafenib promotes graft-versus-leukemia activity in mice and humans through IL-15 production in FLT3-ITD-mutant leukemia cells.

scientific article published on 12 February 2018

Stress-primed secretory autophagy promotes extracellular BDNF maturation by enhancing MMP9 secretion ⬇️

scientific article published on 30 July 2021

Systematic identification of the HSP90 candidate regulated proteome

scientific article

Target and identify: triazene linker helps identify azidation sites of labelled proteins via click and cleave strategy

scientific article

The Formation of a Camalexin Biosynthetic Metabolon

scientific article published on 11 September 2019

The RALF signaling pathway regulates cell wall integrity during pollen tube growth in maize

scientific article published in 2023

The gut microbiota promotes hepatic fatty acid desaturation and elongation in mice

scientific article published in Nature Communications

The target landscape of clinical kinase drugs

scientific article

Tofacitinib and analogs as inhibitors of the histone kinase PRK1 (PKN1).

scientific article

Towards Understanding Male Infertility After Spinal Cord Injury Using Quantitative Proteomics

scientific article published on 26 January 2016

Tracking cancer drugs in living cells by thermal profiling of the proteome

scientific article

Transgenic mouse proteomics identifies new 14-3-3-associated proteins involved in cytoskeletal rearrangements and cell signaling

scientific article

Translatomics combined with transcriptomics and proteomics reveals novel functional, recently evolved orphan genes in Escherichia coli O157:H7 (EHEC).

scientific article

Tyrosine phosphorylation mapping of the epidermal growth factor receptor signaling pathway

scientific article (publication date: 11 January 2002)

Ultra-high intra-spectrum mass accuracy enables unambiguous identification of fragment reporter ions in isobaric multiplexed quantitative proteomics

scientific article published in May 2012

Unconventional tethering of Ulp1 to the transport channel of the nuclear pore complex by karyopherins

scientific article

moCluster: Identifying Joint Patterns Across Multiple Omics Data Sets

scientific article

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