| Isobaric labeling update in MaxQuant | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480, Thermo Orbitrap Fusion Tribid | Read publication here
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| Candida albicans cells exhibit media specific proteomic profiles during induction of filamentation | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| A novel process for transcellular hemoglobin transport from macrophages to cancer cells | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Human VCP mutant ALS/FTD microglia display immune and lysosomal phenotypes independently of GPNMB | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion | Read publication here
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| The PIWI-interacting protein Gtsf1 controls the selective degradation of small RNAs in Paramecium | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Multi-layered proteomics identifies insulin-induced upregulation of the EphA2 receptor via the ERK pathway which is dependent on low IGF1R level | | Publication | 2024 | | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Data-independent acquisition-based blood proteomics unveils predictive biomarkers for neonatal necrotizing enterocolitis | | Publication | 2024 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| Sleep deprivation leads to non-adaptive alterations in sleep microarchitecture and amyloid-β accumulation in a murine Alzheimer model | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Identification and Characterization of Spontaneous AA Amyloidosis in CD-1 Mice Used in Toxicity | | Publication | 2024 | | | 30 SPD | Thermo Q Exactive | Read publication here
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| Spatial Proteomics by Trapped Ion Mobility supported MALDI MS/MS Imaging: A First Glance into Multiplexed and Spatial Peptide Identification | | Publication | 2024 | | | 30 SPD | Bruker timsTOF fleX | Read publication here
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| Increased cholesterol synthesis drives neurotoxicity in patient stem cell-derived model of multiple sclerosis | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Small molecule modulation of protein corona for deep plasma proteome profiling | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Astral | Read publication here
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| Redundant pathways for removal of defective RNA polymerase II complexes at a promoter-proximal pause checkpoint | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| From LAL-D to MASLD: Insights into the role of LAL and Kupffer cells in liver inflammation and lipid metabolism | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Skeletal muscle from TBC1D4 p.Arg684Ter variant carriers is severely insulin resistant but exhibits normal metabolic responses during exercise | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Characterization of the Peroxisomal Proteome and Redox Balance in Human Prostate Cancer Cell Lines | | Publication | 2024 | | | 30 SPD | SCIEX ZenoTOF 7600 | Read publication here
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| Developing a Soft Micropatterned Substrate to Enhance Maturation of Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes | | Publication | 2024 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| Using in vivo intact structure for system-wide quantitative analysis of changes in proteins | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Unveiling the critical role of androgen receptor signaling in avian sexual development | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Streamlined analysis of drug targets by proteome integral solubility alteration indicates organ-specific engagement | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480, Thermo Q Exactive HF-X | Read publication here
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| Probing SARS-CoV-2 Spike Protein Receptor Binding Domain Dynamics via Hydroxyl Radical Protein Footprinting | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Astral | Read publication here
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| A temporal (phospho-)proteomic dataset of neurotrophic receptor tyrosine kinase signalling in neuroblastoma | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Annulate Lamellae biogenesis is essential for nuclear pore function | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| A novel hybrid high speed mass spectrometer allows rapid translation from biomarker candidates to targeted clinical tests using 15N labeled proteins | | Publication | 2024 | | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| 1 Annulate Lamellae biogenesis is essential for nuclear pore function | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Deep Proteome Analysis of Cerebrospinal Fluid from Pediatric Patients with Central Nervous System Cancer | | Publication | 2024 | | | 100 SPD, 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| De novo protein sequencing of antibodies for identification of neutralizing antibodies in human plasma post SARS-CoV-2 vaccination | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Eclipse Tribid, Thermo Orbitrap Exploris 480 | Read publication here
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| A temporal (phospho-)proteomic dataset of neurotrophic receptor tyrosine kinase signalling in neuroblastoma | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| CellEKT: A robust chemical proteomics workflow to profile cellular target engagement of kinase inhibitors | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT | Read publication here
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| Exercise-Induced Proteomic Profile Changes in Patients with Advanced Heart Failure | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Chlorin e6-Loaded Nanostructured Lipid Carriers Targeted by Angiopep-2: Advancing Photodynamic Therapy in Glioblastoma | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Arf1-dependent LRBA recruitment to Rab4 endosomes is required for endolysosome homeostasis | | Publication | 2024 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| Multi-Omics Revealed Regulatory Mechanisms Underlying the Flowering of Ferula sinkiangensis across Three Dimensions | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Combined assembloid modeling and 3D whole-organ mapping captures the microanatomy and function of the human fallopian tube | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT | Read publication here
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| mTOR activity paces human blastocyst stage developmental progression | | Publication | 2024 | | | 30 SPD | Bruker timsTOF SCP | Read publication here
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| A transmitochondrial sodium gradient controls membrane potential in mammalian mitochondria | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Ascend Tribid | Read publication here
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| Tandem mass tag-based proteomic analysis of granulosa and theca interna cells of the porcine ovarian follicle following in vitro treatment with vitamin D3 and insulin alone or in combination | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Plasma proteomes of acute myeloid leukemia patients treated with transfusions reveal signatures of inflammation and hemostatic dysregulation | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Lumos | Read publication here
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| Human aneuploid cells depend on the RAF/MEK/ERK pathway for overcoming increased DNA damage | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Tumor-agnostic cancer therapy using antibodies targeting oncofetal chondroitin sulfate | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Cell-specific models reveal conformation-specific RAF inhibitor combinations that synergistically inhibit ERK signaling in pancreatic cancer cells | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Pseudouridine guides germline small RNA transport and epigenetic inheritance | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480, Thermo Q Exactive HF | Read publication here
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| Tea Polyphenols Inhibit Methanogenesis and Improve Rumen Epithelial Transport in Dairy Cows | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480, Thermo Q Exactive HF-X | Read publication here
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| Development of bioactive solid-foam scaffolds from decellularized cartilage with chondrogenic and osteogenic properties | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Automated multiplexed affinity-based enrichment of peptides for LC-MS/MS plasma proteomics | | Publication | 2024 | | | 30 SPD | Thermo Q Exactive HF-X | Read publication here
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| An unconventional TOG domain is required for CLASP localization | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| WHIX is a T6SS secretion domain found in polymorphic double-edged sword effectors | | Publication | 2024 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| HSP110 is a modulator of amyloid beta (Aβ) aggregation and proteotoxicity | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Identification of druggable targets from the interactome of the Androgen Receptor and Serum Response Factor pathways in prostate cancer | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Brain Proteome Profiling Reveals Common and Divergent Signatures in Parkinson’s Disease, Multiple System Atrophy, and Progressive Supranuclear Palsy | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Eclipse Tribid | Read publication here
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| Peptide clustering enhances large-scale analyses and reveals proteolytic signatures in mass spectrometry data | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT, Bruker timsTOF Pro | Read publication here
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| Machine learning-based analysis identifies and validates serum exosomal proteomic signatures for the diagnosis of colorectal cancer Refining Spatial Proteomics by Mass Spectrometry: An Efficient Workflow Tailored for Archival Tissue | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Distinct protein patterns related to postnatal development in small for gestational age preterm infants | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| GroEL/ES chaperonin unfolds then encapsulates a nascent protein on the ribosome | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Distinct protein patterns related to postnatal development in small for gestational age preterm infants | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| An Automated High-throughput Affinity Capture-Mass Spectrometry Platform with Data-Independent Acquisition | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Integrative metagenomic, transcriptomic, and proteomic analysis reveal the microbiota-host interplay in early-stage lung adenocarcinoma among non-smokers | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Privacy-Preserving Multi-center Differential Protein Abundance Analysis with FedProt | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro, Thermo Orbitrap Exploris 480, Thermo Orbitrap Fusion Lumos, Thermo Q Exactive HF | Read publication here
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| Glucocorticoid receptor controls atopic dermatitis inflammation via functional interactions with P63 and autocrine signaling in epidermal keratinocytes | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Robust proteome profiling of cysteine-reactive fragments using label-free chemoproteomics | | Publication | 2024 | | | 30 SPD, 60 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Unraveling the differential mechanisms of revascularization promoted by MSCs & ECFCs from adipose tissue or umbilical cord in a murine model of critical limb-threatening ischemia | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| The PP2A regulator IER5L supports prostate cancer progression | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Repurposed 3D Printer Allows Economical and Programmable Fraction Collection for Proteomics of Nanogram Scale Samples | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Ascend Tribid | Read publication here
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| Towards routine proteome profiling of FFPE tissue: Insights from a 1,200 case pan-cancer study | | Publication | 2024 | | | 100 SPD, 15 SPD, 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Culturing Conditions Dictate the Composition and Pathways Enrichment of Human and Rat Perirenal Adipose-Derived Stromal Cells’ Secretomes | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Visfatin impact on the proteome of porcine luteal cells during implantation | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Nivolumab reaches brain lesions in patients with recurrent glioblastoma and induces T-cell activity and upregulation of checkpoint pathways | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Single cell proteomics by mass spectrometry reveals deep epigenetic insight into the actions of an orphan histone deacetylase inhibitor | | Publication | 2024 | | | 100 SPD, 200 SPD, 30 SPD, 500 SPD, 60 SPD | Bruker timsTOF SCP | Read publication here
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| Proteomic Characterisation of Placenta Tissue for Biomarker Discovery – Workflow Development and Application | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT | Read publication here
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| Engineering of TurboID-Wingless for the identification of Wingless interactors through in vivo proximity labelling | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2, Thermo Orbitrap Fusion Lumos | Read publication here
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| A novel hybrid high speed mass spectrometer allows rapid translation from biomarker candidates to targeted clinical tests using 15N labeled proteins | | Publication | 2024 | | | 30 SPD, 60 SPD | Thermo Orbitrap Astral, Thermo Orbitrap Exploris 480 | Read publication here
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| Hepatocellular RECK as a Critical Regulator of Metabolic Dysfunction-Associated Steatohepatitis Development | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Deregulation of cellulose synthesis by site-directed mutagenesis of cellulose synthase leads to heightened bacterial cellulose production | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT | Read publication here
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| Broad proteomics analysis of seeding-induced aggregation of α-synuclein in M83 neurons reveals remodeling of proteostasis mechanisms that might contribute to Parkinson’s disease pathogenesis | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| A proteogenomic atlas of the human neural retina | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Effect of hypercholesterolemia on circulating and cardiomyocyte-derived extracellular vesicles | | Publication | 2024 | | | 30 SPD | | Read publication here
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| GLP-1-directed NMDA receptor antagonism for obesity treatment | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| The balance between antiviral and antibacterial responses during M. Tuberculosis infection is regulated by the ubiquitin ligase CBL | | Publication | 2024 | | | 30 SPD, 60 SPD | Bruker timsTOF HT, Bruker timsTOF Pro 2 | Read publication here
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| Longitudinal Fluctuations in Protein Concentrations and Higher-Order Structures in the Plasma Proteome of Kidney Failure Patients Subjected to a Kidney Transplant | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Optimization of protocols for blood-derived extracellular vesicles for studies in liver diseases | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Urinary Proteomics and Outcomes in Heart Failure With Preserved Ejection Fraction | | Publication | 2024 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| Spatial Proteomics Reveals Alcohol-Induced Damages to the Crypts and Villi of the Mouse Small Intestine | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 240 | Read publication here
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| Global organization of phenylpropanoid and anthocyanin pathways revealed by proximity labeling of trans-cinnamic acid 4-hydroxylase (CYP73A412) in Petunia inflata petal protoplasts | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Enrichment, Characterization, and Proteomic Profiling of Small Extracellular Vesicles Derived from Human Limbal Mesenchymal Stromal Cells and Melanocytes | | Publication | 2024 | | | 30 SPD | Bruker timsTOF fleX | Read publication here
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| Exploring the role of production and release of proteins for microbial interactions in kombucha | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Extracellular vesicles derived CXCL4 is a candidate serum tumor biomarker for colorectal cancer | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Cheap, Robust and Versatile Two-Dimensional Chromatography system for Proteomics of Nanogram Scale Samples | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Ascend Tribid | Read publication here
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| RNA damage compartmentalization by DHX9 stress granules | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Theileria parasites sequester host eIF5A to escape elimination by host-mediated autophagy | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Characterization of preovulatory follicular fluid secretome and its effects on equine oocytes during in vitro maturation | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Personalized phosphoproteomics of skeletal muscle insulin resistance and exercise links MINDY1 to insulin action | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Proteomic profiling of IDH-wildtype Glioblastoma Tissue and Serum uncovers prognostic Subtypes and Marker Candidates | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| TIMAHAC: Streamlined Tandem IMAC-HILIC Workflow for Simultaneous and High-Throughput Plant Phosphoproteomics and N-glycoproteomics | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT | Read publication here
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| Polydopamine nanoparticles as a non-pharmaceutical tool in the treatment of fatty liver disease | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| diaPASEF Enables High-throughput Proteomic Analysis of Host Cell Proteins for Biopharmaceutical Process Development | | Publication | 2024 | | | 100 SPD, 15 SPD, 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| The UFM1 E3 ligase recognizes and releases 60S ribosomes from ER translocons | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Eclipse Tribid | Read publication here
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| Automated high-throughput biological sex identification from archaeological human dental enamel using targeted proteomics | | Publication | 2024 | | | 200 SPD, 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Comparative proteomic analysis of the changes in mare milk associated with different lactation stages and management systems | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Personalized Molecular Signatures of Insulin Resistance and Type 2 Diabetes | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| STREAMLINED PROTEOME-WIDE IDENTIFICATION OF DRUG TARGETS INDICATES ORGAN-SPECIFIC ENGAGEMENT | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Proximity labeling proteomics reveals Kv1.3 potassium channel immune interactors in microglia | | Publication | 2024 | | | 15 SPD, 30 SPD | Thermo Q-Exactive Plus Hybrid Quadrupole-Orbitrap | Read publication here
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| Ultra-fast label-free quantification and comprehensive proteome coverage with narrow-window data-independent acquisition | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Astral, Thermo Orbitrap Exploris 480 | Read publication here
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| The Gárdos Channel and Piezo1 Revisited: Comparison between Reticulocytes and Mature Red Blood Cells | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT | Read publication here
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| Implementation of pupylation-based proximity labelling in plant biology reveals regulatory factors in cellulose biosynthesis | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Mechanism of chaperone coordination during cotranslational protein folding in bacteria | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| timsTOF HT Improves Protein Identification and Quantitative Reproducibility for Deep Unbiased Plasma Protein Biomarker Discovery | | Publication | 2024 | | | 100 SPD, 30 SPD, 60 SPD | Bruker timsTOF HT, Bruker timsTOF Pro 2 | Read publication here
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| Kinase inhibitor pulldown assay (KiP) for clinical proteomics | | Publication | 2024 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Cerebrospinal fluid shotgun proteomics identifies distinct proteomic patterns in cerebral amyloid angiopathy rodent models and human patients | | Publication | 2024 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Direct translation of incoming retroviral genomes | | Publication | 2024 | | | 30 SPD | Bruker timsTOF HT | Read publication here
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| Single cell proteomics by mass spectrometry reveals deep epigenetic insight and new targets of a class specific histone deacetylase inhibitor | | Publication | 2024 | | | 100 SPD, 200 SPD, 30 SPD, 300 SPD, 500 SPD, 60 SPD | Bruker timsTOF SCP | Read publication here
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| A biotin targeting chimera (BioTAC) system to map small molecule interactomes in situ | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Proteomic comparison between non‐purified cerebrospinal fluid and cerebrospinal fluid‐derived extracellular vesicles from patients with Alzheimer’s, Parkinson’s and Lewy body dementia | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Fully automated workflow for integrated sample digestion and Evotip loading enabling high-throughput clinical proteomics | | Publication | 2023 | | | 100 SPD, 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| IMBAS-MS discovers organ-specific HLA peptide patterns in plasma | | Publication | 2023 | | | 15 SPD, 30 SPD, 60 SPD, Whisper 40 SPD | Bruker timsTOF Ultra | Read publication here
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| Multicenter Collaborative Study to Optimize Mass Spectrometry Workflows of Clinical Specimens | | Publication | 2023 | | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| High-throughput proteomics uncovers exercise training and type 2 diabetes–induced changes in human white adipose tissue | | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| BioE3 identifies specific substrates of ubiquitin E3 ligases | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Mapping cardiac remodeling in chronic kidney disease | | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Antitumor activity of AZD0754, a dnTGFβRII-armored, STEAP2-targeted CAR-T cell therapy, in prostate cancer | Clinical Biochemistry Lab, Vivo | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Sensitive and Specific Global Cell Surface N-Glycoproteomics Shows Profound Differences Between Glycosylation Sites and Subcellular Components | DIA | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Dynamic extracellular proximal interaction profiling reveals Low-Density Lipoprotein Receptor as a new Epidermal Growth Factor signaling pathway component | | Publication | 2023 | | | 30 SPD, 60 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Mass spectrometry quantifies target engagement for a KRASG12C inhibitor in FFPE tumor tissue | Clinical Biochemistry Lab, Clinical proteomics, FFPE | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Interplay between Cultured Human Osteoblastic and Skeletal Muscle Cells: Effects of Conditioned Media on Glucose and Fatty Acid Metabolism | | Publication | 2023 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| A chemoproteomic platform for selective deubiquitinase inhibitor discovery | DIA | Publication | 2023 | | | 30 SPD, 60 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Species-specific metabolic reprogramming in human and mouse microglia during inflammatory pathway induction | DIA | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Autoantibody binding and unique enzyme-substrate intermediate conformation of human transglutaminase 3 | | Publication | 2023 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| Direct isolation of small extracellular vesicles from human blood using viscoelastic microfluidics | Clinical proteomics, DDA | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Spatial single-cell mass spectrometry defines zonation of the hepatocyte proteome | Single Cell Proteomics, Spatial proteomics | Publication | 2023 | | | 30 SPD, Whisper 40 SPD | Bruker timsTOF SCP | Read publication here
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| MassSpecPreppy—An end-to-end solution for automated protein concentration determination and flexible sample digestion for proteomics applications | Automation | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Heterogeneity of radial spokes structural components and associated enzymes in Tetrahymena cilia | | Journal article | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| A dynamic bias in chromatin protein deposition at G-quadruplex sites | DDA | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| A micro-flow, high-pH, reversed-phase peptide fractionation and collection system for targeted and in-depth proteomics of low-abundance proteins in limiting samples | Targeted workflow | Journal article | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Selective targeting of IL2Rbg combined with radiotherapy triggers CD8- and NK-mediated immunity, abrogating metastasis in HNSCC | Clinical Biochemistry Lab, Single Cell Proteomics | Journal article | 2023 | | | 15 SPD, 30 SPD | Bruker timsTOF Pro | Read publication here
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| Deep and fast label-free Dynamic Organellar Mapping | DIA, Spatial proteomics | Journal article | 2023 | | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Proteomic Analysis of Dysfunctional Liver Sinusoidal Endothelial Cells Reveals Substantial Differences in Most Common Experimental Models of Chronic Liver Diseases | Clinical Biochemistry Lab | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| An unconventional TOG domain is required for CLASP localization | DDA | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Loss of N-terminal acetyltransferase A activity induces thermally unstable ribosomal proteins and increases their turnover in Saccharomyces cerevisiae | DIA | Journal article | 2023 | | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Mechanisms of nuclear pore complex disassembly by the mitotic Polo-like kinase 1 (PLK-1) in C. elegans embryos | DDA | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Fatty acids abrogate the growth-suppressive effects induced by inhibition of cholesterol | Clinical Biochemistry Lab | Journal article | 2023 | | | 30 SPD | Bruker timsTOF | Read publication here
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| Cofilin-Driven Nuclear Deformation Drives Dendritic Cell Migration through the Extracellular Matrix | DIA | Publication | 2023 | | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| A seven-transmembrane methyltransferase catalysing N-terminal histidine methylation of lytic polysaccharide monooxygenases | | Journal article | 2023 | | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling | DDA, DIA | Publication | 2023 | | | 30 SPD, 60 SPD, Whisper 20 SPD, Whisper 40 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| A complete and automated end-to-end sample preparation strategy for high-throughput and standardized proteomics with high sensitivity | | Poster | 2023 | | | 100 SPD, 30 SPD, Whisper 40 SPD | | Read app note here
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| Altered intratumoral immune composition after Nivolumab treatment in patients with recurrent glioblastoma | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read journal article here
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| Multiomics analysis of naturally efficacious lipid nanoparticle coronas reveals high-density lipoprotein is necessary for their function | | Journal article | 2023 | | | 30 SPD | Thermo Q Exactive HF | Read journal article here
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| Using In Vivo Intact Structure for System-wide Quantitative Analysis of Changes in Proteins | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| DIS3 ribonuclease prevents the cytoplasmic accumulation of lncRNAs carrying non-canonical ORFs, which represent a source of cancer immunopeptides | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read journal article here
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| The protein and miRNA profile of plasma extracellular vesicles (EVs) can distinguish feline mammary adenocarcinoma patients from healthy feline controls | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read journal article here
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| Co-administration of angiotensin II and simvastatin triggers kidney injury upon heme oxygenase-1 deficiency | | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Vacuum Insulated Probe Heated Electrospray Ionization Source Enhances Microflow Rate Chromatography Signals in the Bruker timsTOF Mass Spectrometer | | Publication | 2023 | | | 100 SPD, 15 SPD, 200 SPD, 30 SPD, 60 SPD | Bruker timsTOF | Read publication here
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| Structural insights into Siglec-15 reveal glycosylation dependency for its interaction with T cells through integrin CD11b | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read journal article here
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| Evosep One solves the proteomics dilemma – covering high throughput analysis and proteome depth | Technology | Application note | 2023 | The Evosep One offers a diverse range of applications, utilizing its six standard methods. It caters to various use cases, spanning from comprehensive proteome analysis with fractionation strategies to ultra high-throughput single-shot analysis. | | 100 SPD, 200 SPD, 30 SPD, 300 SPD, 60 SPD | | Download application note
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| Proteomic Analysis of Mesenchymal Stem Cells and Monocyte Co-Cultures Exposed to a Bioactive Silica-Based Sol–Gel Coating | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| In depth profiling of the cancer proteome from the flowthrough of standard RNA-preparation kits for precision oncology | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF SCP | Read publication here
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| Matrix Gla Protein drives stemness and tumor initiation in ovarian cancer | | Journal article | 2023 | | | 30 SPD | Thermo Q Exactive 480 | Read publication here
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| A desert Chlorella sp. that thrives at extreme high-light intensities using a unique photoinhibition protection mechanism | | Journal article | 2023 | | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| Flexibility, speed, and throughput for high proteome coverage using Zeno SWATH data-independent acquisition (DIA) coupled with the Evosep One system | | Application note | 2023 | | | 100 SPD, 200 SPD, 30 SPD, 300 SPD, 500 SPD, 60 SPD | Bruker timsTOF Pro 2, SCIEX ZenoTOF 7600 | Read publication here
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| Suspension TRAPping Filter (sTRAP) Sample Preparation for Quantitative Proteomics in the Low µg Input Range Using a Plasmid DNA Micro-Spin Column: Analysis of the Hippocampus from the 5xFAD Alzheimer’s Disease Mouse Model | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Dynamic antagonism between key repressive pathways maintains the placental epigenome | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF SCP | Read journal article here
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| Blue Native PAGE–Antibody Shift in Conjunction with Mass Spectrometry to Reveal Protein Subcomplexes: Detection of a Cerebellar α1/α6-Subunits Containing γ-Aminobutyric Acid Type A Receptor Subtype | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read journal article here
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| Experimental strategies to improve drug-target identification in mass spectrometry-based thermal stability assays | | Journal article | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read journal article here
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| Towards a Standardized Omics Platform with the 30 samples per day method | Technology | Application note | 2023 | This application note describes the 30 samples per day standard method. Get an overview of the method, the chromatographic performance and the results expected from Hela standard injections. | | 30 SPD | Thermo Orbitrap Exploris 480 | Download application note
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| Luminescence-based screening for extracellular vesicle release modulators reveals a role for PI4KIIIβ in exosome biogenesis upon lysosome inhibition | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Mechanisms of Nuclear Pore Complex disassembly by the mitotic Polo Like Kinase 1 (PLK-1) in C. elegans embryos | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| An Electrophysiological and Proteomic Analysis of the Effects of the Superoxide Dismutase Mimetic, MnTMPyP, on Synaptic Signalling Post-Ischemia in Isolated Rat Hippocampal Slices | | Publication | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| No-stain protein labeling as a potential normalization marker for small extracellular vesicle proteins | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro 2 | Read publication here
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| Mesenchyme-derived vertebrate lonesome kinase controls lung organogenesis by altering the matrisome | | Journal article | 2023 | | | 30 SPD | Thermo Q Exactive HF-X | Read publication here
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| Vacuum Insulated Probe Heated ElectroSpray Ionization source (VIP-HESI) enhances micro flow rate chromatography signals in the Bruker timsTOF mass spectrometer | | Publication | 2023 | | | 100 SPD, 200 SPD, 30 SPD, 60 SPD, Extended method | Bruker timsTOF Pro | Read publication here
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| Extracellular Vesicles Isolated from Plasma of Multiple Myeloma Patients Treated with Daratumumab Express CD38, PD-L1, and the Complement Inhibitory Proteins CD55 and CD59 | | Journal article | 2022 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Systematic Adaptation of Bacillus licheniformis to 2-Phenylethanol Stress | | Journal article | 2023 | | | 30 SPD | SCIEX TripleTOF 6600 MS system | Read publication here
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| A chemoproteomic platform for reactive fragment profiling against the deubiquitinases | | Publication | 2023 | | | 30 SPD, 60 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Exploiting Multi-Omics Profiling and Systems Biology to Investigate Functions of TOMM34 | | Journal article | 2023 | | | 30 SPD | Thermo Q Exactive | Read publication here
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| β-oxidation–polyhydroxyalkanoates synthesis relationship in Pseudomonas putida KT2440 revisited | | Journal article | 2023 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Extending the Range of SLIM-Labeling Applications: From Human Cell Lines in Culture to Caenorhabditis elegans Whole-Organism Labeling | | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Fusion | Read publication here
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| Quantitative multi-organ proteomics of fatal COVID-19 uncovers tissue-specific effects beyond inflammation | | Publication | 2023 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Proteomic evaluation of human osteoblast responses to titanium implants over time | | Journal article | 2022 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| MS-DAP Platform for Downstream Data Analysis of Label-Free Proteomics Uncovers Optimal Workflows in Benchmark Data Sets and Increased Sensitivity in Analysis of Alzheimer’s Biomarker Data | | Publication | 2022 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Temporal phosphoproteomics reveals WEE1-dependent control of 53BP1 pathway | | Publication | 2022 | | | 30 SPD | Thermo Fisher Ultimate 3000 | Read publication here
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| Characterization of TGF-β signaling in a human organotypic skin model reveals that loss of TGF-βRII induces invasive tissue growth | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Correlation between biological responses in vitro and in vivo to Ca-doped sol-gel coatings assessed using proteomic analysis | | Publication | 2022 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Kinase Inhibitor Pulldown Assay (KiP) for Clinical Proteomics | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| 2-O-Methylation of the second transcribed nucleotide within the mRNA 5 cap impacts the protein production level in a cell-specific manner and contributes to RNA immune evasion | | Journal article | 2022 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read journal article here
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| PKC isoforms activate LRRK1 kinase by phosphorylating conserved residues (Ser1064, Ser1074, and THR1075) within the COR GTPase domain | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Exploris 240 | Read publication here
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| Cellular proteomic profiling using proximity labelling by TurboID-NES in microglial and neuronal cell lines | | Publication | 2022 | | | 30 SPD | Thermo Q Exactive | Read publication here
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| The spike of SARS-CoV-2 promotes metabolic rewiring in hepatocytes | | Publication | 2022 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| The addition of FAIMS increases targeted proteomics sensitivity from FFPE tumor biopsies | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Widespread hydroxylation of unstructured lysine-rich protein domains by JMJD6 | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| High throughput and high confidence sequence variant analysis in therapeutic antibodies using Evosep One liquid chromatography tandem mass spectrometry with synthetic heavy peptides | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Osteocytes Serve as a Reservoir for Intracellular Persisting Staphylococcus aureus Due to the Lack of Defense Mechanisms | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Neddylation tunes peripheral blood mononuclear cells immune response in COVID-19 patients | | Publication | 2022 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| High-throughput quantitative proteomics using Zeno SWATH data-independent analysis (DIA) and the Evosep One system | | Application note | 2022 | | | 100 SPD, 200 SPD, 30 SPD, 60 SPD | SCIEX ZenoTOF 7600 | Read publication here
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| Rapid and in-depth coverage of the (phospho-)proteome with deep libraries and optimal window design for dia-PASEF | | Publication | 2022 | | | 100 SPD, 30 SPD, 60 SPD | Bruker timsTOF Pro | Read publication here
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| Brain proteome profling implicates the complement and coagulation cascade in multiple system atrophy brain pathology | | Publication | 2022 | | | 30 SPD | Thermo Q Exactive HF-X | Read publication here
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| Proteomic phenotype of cerebral organoids derived from autism spectrum disorder patients reveal disrupted energy metabolism, cellular components, and biological processes | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Fusion | Read publication here
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| Inflammation-induced downregulation of succinate dehydrogenase regulates adrenocortical function | | Publication | 2022 | | | 30 SPD | Bruker timsTOF Pro | Read publication here
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| Integrative analysis of non-small cell lung cancer patient-derived xenografts identifies distinct proteotypes associated with patient outcomes | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| DebaryOmics: an integrative –omics study to understand the halophilic behaviour of Debaryomyces hansenii | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Comprehensive proteomics with 8.000 proteins identified with DIA-PASEF using the 30 samples per day method | | Application note | 2022 | | | 30 SPD | | Read application note
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| Improve and enhance your proteome coverage with the performance column for our long methods | | Application note | 2022 | | | 30 SPD, Extended method | Bruker timsTOF Pro | Read application note
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| Toxoplasma gondii ROP1 subverts murine and human innate immune restriction | | Publication | 2022 | | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase | | Publication | 2021 | This publication by the Costa group describes the mechanism whereby the Dbf4 dependent kinase selectively targets fully loaded MCM double hexamers on the path to helicase activation, and uncover the mechanism whereby the checkpoint kinase Rad53 blocks this function. | | 30 SPD | Thermo Orbitrap Lumos | Read publication here
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| Hyperinflammatory environment drives dysfunctional myeloid cell effector response to bacterial challenge in COVID-19 | | Publication | 2022 | This publication by the Zinkernagel group, assess the influence of COVID-19 plasma hypercytokinemia on the functional responses of myeloid immune cells upon bacterial challenges from acute-phase COVID-19 patients and their corresponding recovery-phase. We show that a severe hypercytokinemia status in COVID-19 patients correlates with the development of bacterial superinfections. | | 30 SPD | Bruker timsTOF Pro | Read application note here
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| Data independent acquisition enables deep and fast label-free dynamic organellar mapping | | Publication | 2021 | This publication by the Borner group, describes a DIA workflow to establish organellar maps, which combines cell fractionation and shotgun proteomics into a profiling analysis of subcellular localization. They apply this to HeLa cells and investigate changes in response to starvation/disruption of lysosomal pH. | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Plasma extracellular vesicles in people living with HIV and type 2 diabetes are related to microbial translocation and cardiovascular risk | DDA | Publication | 2021 | This publication, led by the Trøseid group at Oslo University Hospital investigates the potential role of plasma extracellular vesicles (EVs) in relation to gut microbiota alterations and low-grade endotoxemia in HIV and type 2 diabetes. | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| DebaryOmics: an integrative –omics study to understand the halophilic behaviour of Debaryomyces hansenii | DIA, Yeast | Publication | 2021 | This publication by the Martinez group at the Technical University of Denmark, presents the first global phosphoproteomics analysis in Debaryomyces hansenii, a non-conventional yeast considered to be a well-suited option for a number of different industrial bioprocesses. | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Evaluation of Disposable Trap Column nanoLC–FAIMS–MS/MS for the Proteomic Analysis of FFPE Tissue | Clinical proteomics, DDA, FFPE | Publication | 2021 | This publication by the Kuster group presents a robust workflow to support the analysis of large cohorts of patient samples using formalin-fixed paraffin-embedded FFPE tissue. They make use of online fractionation by FAIMS requiring 50% less sample than conventional high pH fractionation. | | 30 SPD, 60 SPD, Extended method | Thermo Orbitrap Exploris 480 | Read publication here
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| High-Throughput Drug Discovery with the Evosep One | Drug Discovery | Webinar | 2021 | In this webinar we will look into how the Evosep One with high-throughput and sensitivity is a good fit when developing new drug applications or biologics license applications. | | 30 SPD | Thermo Orbitrap Exploris 480 | Watch webinar
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| Plasma Proteomics with the Evosep One | DIA | Webinar | 2021 | In this webinar you will learn how the Evosep One, with high reproducibility and robustness, is ideally suited for analysis of large sample cohorts of blood plasma. | | 30 SPD | Bruker timsTOF Pro, Thermo Orbitrap Exploris 480 | Watch webinar
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| A deeper look at carrier proteome effects for single-cell proteomics | DDA, Single Cell Proteomics | Publication | 2021 | This publication by the Olsen group at University of Copenhagen describes the carrier proteome effects in single cell proteomics with mixed species TMTpro-labeled samples. Using the 30 SPD method, they show that quantitative precision and signal intensity are limited at high carrier levels, hindering the recognition of regulated proteins. | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Time evolution of PEG-shedding and serum protein coronation determines the cell uptake kinetics and delivery of lipid nanoparticle formulated mRNA | DDA, Drug Discovery | Publication | 2021 | This publication, led by the Esbjörner group at the Chalmers University of Technology in Gothenburg, Sweden investigates the uptake and delivery of mRNA formulated into MC3 lipid nanoparticles focusing on the role of serum proteins in driving the temporal evolution of PEG-shedding reactions and protein coronation events. | | 30 SPD | Thermo Q Exactive HF | Read publication here
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| PD-L1 Overexpression, SWI/SNF Complex Deregulation, and Profound Transcriptomic Changes Characterize Cancer-Dependent Exhaustion of Persistently Activated CD4+ T Cells | DDA, HUPO | Publication | 2021 | This publication from the Sarnowska group at Maria Sklodowska-Curie National Research Institute of Oncology in Poland investigates the mechanisms of immune response during continuous stimulation of tumor-infiltrating lymphocytes by tumors. They use the Evosep One to measure the secreted proteins from restimulated CD4+ T cells grown with cancer cells. | | 30 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| A personalized mass spectrometry-based assay to monitor M-protein in multiple myeloma patients (EasyM) | A Beginner's Guide To Evosep, DDA, Targeted workflow, Tumor Tissue Proteomics | Publication | 2021 | This publication by the Trudel group describes the development of a non-invasive MS-based assay, called EasyM, which is used to assess minimal residual disease, a measure of depth of response to treatment, which has become an important parameter in assessing the disease burden in multiple myeloma. | | 30 SPD, 60 SPD | Thermo Orbitrap Fusion, Thermo Q Exactive | Read publication here
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| Exploitation of the Secretory Pathway by SARS-CoV-2 Envelope | Covid-19, DDA | Publication | 2021 | This publication by the Carlton group investigates the mechanism, by which Coronaviral Eenvelope proteins achieves its steady state localization to the Endoplasmic Reticulum Golgi Intermediate Compartment. They use proximity biotinylation to define the vicinal proteome of wild type and ER-restricted versions of Envelope. | | 30 SPD | Thermo Orbitrap Fusion Lumos | Read publication here
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| Mass Spectrometry Provides a Highly Sensitive Noninvasive Means of Sequencing and Tracking M-Protein in the Blood of Multiple Myeloma Patients | A Beginner's Guide To Evosep, DDA, Targeted workflow, Tumor Tissue Proteomics | Publication | 2021 | The amino acid sequence of the M-protein for multiple myeloma is unique compared to the polyclonal antibodies in patients’ blood. This publication from Rapid Novor describes a targeted MS/MS assay to detect and quantify the unique M-protein sequence in serum samples from multiple myeloma patients. | | 30 SPD | Thermo Q Exactive | Read publication here
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| An ultrasensitive method for analysis of viral spike N-glycoforms | DDA | Publication | 2021 | This publication from the Yates group describes a new ultrasensitive “single-pot” method applicable for analysis of site-specific glycosylation of any glycoprotein and characterizing glycosylation of viral spike proteins and potential vaccines. | | 30 SPD, Extended method | Bruker timsTOF Pro | Read publication here
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| Proteomics of resistance to Notch1 inhibition in acute lymphoblastic leukemia reveals targetable kinase signatures | Automation, DDA, DIA, T-ALL | Publication | 2021 | In this publication, the Olsen group highlights the potential of proteomics to dissect alterations in cellular signaling and identify druggable pathways in cancer. They identify protein kinase C delta (PKCδ) inhibition as a strategy to overcome resistance to Notch1 inhibition in T-cell acute lymphoblastic leukemia. | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Read publication here
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| Co-translational assembly and localized translation of nucleoporins in nuclear pore complex biogenesis | DDA | Publication | 2021 | In this study, the Palancade group provides the complete depiction of the co-translational events involved in the biogenesis of a large multiprotein assembly, the nuclear pore complex (NPC) in yeast. Their data reveal that distinct, spatially segregated modes of co-translational interactions foster the ordered assembly of NPC subunits. | | 30 SPD | | Download publication
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| Hemorrhage and saline resuscitation are associated with epigenetic and proteomic reprogramming in the rat lung | DDA | Publication | 2021 | In this study, the Sillesen group investigates the alteration of the proteome in the context of hemorrhage and saline resuscitation in trauma patients. They used rat lungs as a model and pooled 10 rats in one combined TMT experiment subjected to high pH offline fractionation. | | 30 SPD | Thermo Orbitrap Fusion | Download publication
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| Malaria Parasite Schizont Egress Antigen-1 Plays an Essential Role in Nuclear Segregation during Schizogony | DDA | Publication | 2021 | This publication by the Blackman group describes the role of SEA1, a suggested malaria vaccine antigen candidate. They conclude that SEA1 does not play a direct mechanistic role in egress to invade new erythrocytes but instead is an essential blood-stage protein that plays an important role in orchestrating the correct partitioning of DNA into merozoites. | | 30 SPD | Thermo Orbitrap Fusion Lumos | Download publication
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| The COVIDome Explorer Researcher Portal | Clinical research, Covid-19, DDA | Publication | 2021 | Researchers from University of Colorado led by Joaquin M. Espinosa, have created a user-friendly researcher portal enabling easy access and real-time analysis of matched multi-omics datasets for COVID-19, termed the COVIDome Explorer. They illustrate the use through a multi-omics analysis of biosignatures associated with C-reactive protein (CRP), an established marker of poor prognosis in COVID-19. | | 30 SPD | Bruker timsTOF Pro | Download publication
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| The Host Interactome of Spike Expands the Tropism of SARS-CoV-2 | Clinical research, Covid-19 | Publication | 2021 | This publication from the Yates lab, investigates the host interactome determining whether a SARS-CoV-2 infection is productive. They find an “S2 only” dependent, alternative infection of additional cell types with SARS-CoV-2 may impact vaccination strategies and provide a molecular explanation for a severe or prolonged progression of disease in select COVID-19 patients. | | 30 SPD | Bruker timsTOF Pro | Download publication
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| Basement membrane stiffness determines metastases formation | DDA | Publication | 2021 | In this study, the Erler group from the BRIC Institute at University of Copenhagen, Denmark identifies Net4 as a key regulator of basement membrane stiffness, a special type of extracellular matrix, which presents the major barrier cancer cells have to overcome multiple times to form metastases. | | 30 SPD | Thermo Orbitrap Exploris 480 | Download publication
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| Interactions of Viral Proteins from Pathogenic and Low or Non-Pathogenic Orthohantaviruses with Human Type I Interferon Signaling | DDA | Publication | 2021 | A collaboration led by the Ermonval group from Institute Pasteur describes the interactions of structural and non-structural proteins of pathogenic and low or non-pathogenic orthohantaviruses with human type I Interferon signaling. They suggest that the activation of IFN-I is probably not the only antiviral pathway to be counteracted by orthohantaviruses. | | 30 SPD | Thermo Orbitrap Fusion | Download publication
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| Seroconversion stages COVID19 into distinct pathophysiological states | Clinical research, Covid-19 | Publication | 2020 | In this study, researchers from University of Colorado led by Joaquin M. Espinosa, found highly variable seroconversion status among hospitalized Covid-19 patients. Their results support the existence of distinct pathophysiological states, with seroconversion status being potentially useful as a surrogate marker of underlying processes. | | 30 SPD | Bruker timsTOF Pro | Download publication
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| Development of a multiplexed targeted mass spectrometry assay for LRRK2-phosphorylated Rabs and Ser910/Ser935 biomarker sites | Clinical research, Targeted workflow | Publication | 2020 | This publication from University of Dundee led by Dario R Alessi, describes the validation and development of a new, multiplexed targeted assay that enables the relative quantification of the key components of the LRRK2 pathway, defining the impact of LRRK2 inhibitors and Parkinson’s disease causing mutations. | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | Download publication
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| High dynamic range proteome analysis with BoxCar DIA and super-resolution Orbitrap mass spectrometry | DIA, Technology | Poster | 2020 | BoxCar DIA | | 100 SPD, 30 SPD | Thermo Orbitrap Exploris 480 | Download poster
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| Sensitive, Rapid, Robust and Reproducible Workflow for Host Cell Protein Profiling in Biopharmaceutical Process Development | DDA, Targeted Workflows | Publication | 2020 | HCP analysis in Biopharma | | 30 SPD, 60 SPD | Thermo Orbitrap Fusion Lumos | Download publication
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| Characterization of glutathione proteome in CHO cells and its relationship with productivity and cholesterol synthesis | DDA | Publication | 2020 | | | 30 SPD | Thermo Q Exactive HF-X | Download publication
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| An Ultra High-Throughput Plasma Protein Profiling (uHTPPP) Workflow Using a Modified Quadrupole-Orbitrap Mass Spectrometer | Clinical research, DDA | Application note | 2020 | In this application note, the group of Emily Chen at the Thermo Fisher Precision Medicine Science Center describes a high-throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a standardized sample preparation method, high-throughput data acquisition, and easy to implement QC standard. | | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 240 | Download poster or booklet
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| Scalable and Automated Plasma Workflow Based on the Thermo Scientific Q Exactive HF-X MS Platform | Clinical research, DDA | Application note | 2019 | In this application note, the group of Emily Chen at PMSC describes a high-throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a standardized sample preparation method, high-throughput data acquisition, and easy to implement QC standard. | | 100 SPD, 30 SPD, 60 SPD | Thermo Q Exactive HF-X | Learn more or download application note
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| Multi-level proteomics reveals host-perturbation strategies of SARS-CoV-2 and SARS-CoV | Clinical research, Covid-19, DIA | Publication | 2020 | This publication describes the molecular functions of viral proteins and their interactions with the host proteome of SARS-CoV-2. The impact of viral infection on the proteome and phosphoproteome were analyzed in a time-resolved manner by DIA. The analysis revealed key pathways perturbed during the infection identifying potential vulnerable points of SARS-CoV-2. | | 30 SPD, 60 SPD | Thermo Q Exactive HF-X | Download publication
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| A paired liver biopsy and plasma proteomics study reveals circulating biomarkers for alcohol-related liver disease | Clinical research, DIA | Publication | 2020 | This publication from Matthias Mann groups in Copenhagen and Münich describes a paired liver biopsy and plasma proteomics study, which make use of Boxcar DIA scanning for a large clinical cohort of nearly 600 patients. They have developed a machine learning model based on their biomarker panel, which for the first time outperforms existing tests, … | | 30 SPD | Thermo Q Exactive HF-X | Download or read blog post
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| Evosep One Enables Robust Deep Proteome Coverage Using Tandem Mass Tags While Significantly Reducing Instrument Time | | Video | 2019 | Comparison study with TMT, same coverage in shorter time | | 30 SPD, 60 SPD | Thermo Orbitrap Fusion Lumos | Watch
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| Covalent Protein Painting Reveals Structural Changes In The Proteome In Alzheimer Disease | DDA | Publication | 2020 | Development of Covalent Protein Painting (CPP), a structural proteomics approach to quantify changes in protein fold or altered protein-protein interaction for any protein in a proteome. CPP directly determines the relative surface accessibility of amino acid side chains by measuring the molar fraction of a chemical functionality that is accessible for chemical modification on the … | | 30 SPD | Thermo Orbitrap Fusion Lumos | Download
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