Institute for Surgical Pathology,
Medical Center - University of Freiburg,
Faculty of Medicine,
Institute for Surgical Pathology, Medical Center - University of Freiburg, Faculty of Medicine
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Proteome Profiling of Primary Pancreatic Ductal Adenocarcinomas Undergoing Additive Chemoradiation Link ALDH1A1 to Early Local Recurrence and Chemoradiation Resistance.
Translational oncology Dec, 2018 | Pubmed ID: 30172883
Characterization of the prime and non-prime active site specificities of proteases by proteome-derived peptide libraries and tandem mass spectrometry.
Nature protocols Jan, 2011 | Pubmed ID: 21212787
Protease specificity profiling by tandem mass spectrometry using proteome-derived peptide libraries.
Methods in molecular biology (Clifton, N.J.) , 2011 | Pubmed ID: 21604128
Metalloprotease meprin beta generates nontoxic N-terminal amyloid precursor protein fragments in vivo.
The Journal of biological chemistry Aug, 2011 | Pubmed ID: 21646356
Proteomic analyses reveal an acidic prime side specificity for the astacin metalloprotease family reflected by physiological substrates.
Molecular & cellular proteomics : MCP Sep, 2011 | Pubmed ID: 21693781
Factor Xa subsite mapping by proteome-derived peptide libraries improved using WebPICS, a resource for proteomic identification of cleavage sites.
Biological chemistry Nov, 2011 | Pubmed ID: 21846260
Identification and relative quantification of native and proteolytically generated protein C-termini from complex proteomes: C-terminome analysis.
Methods in molecular biology (Clifton, N.J.) , 2011 | Pubmed ID: 21877277
Proteomic identification of protease cleavage sites characterizes prime and non-prime specificity of cysteine cathepsins B, L, and S.
Journal of proteome research Dec, 2011 | Pubmed ID: 21967108
Contribution of cathepsin L to secretome composition and cleavage pattern of mouse embryonic fibroblasts.
Biological chemistry Nov, 2011 | Pubmed ID: 21972973
NSP4, an elastase-related protease in human neutrophils with arginine specificity.
Proceedings of the National Academy of Sciences of the United States of America Apr, 2012 | Pubmed ID: 22474388
Enhanced identification of peptides lacking basic residues by LC-ESI-MS/MS analysis of singly charged peptides.
Proteomics May, 2012 | Pubmed ID: 22589179
Glycocapture-based proteomics for secretome analysis.
Proteomics Feb, 2013 | Pubmed ID: 23197367
Deletion of cysteine cathepsins B or L yields differential impacts on murine skin proteome and degradome.
Molecular & cellular proteomics : MCP Dec, 2012 | Pubmed ID: 23233448
Global remodelling of cellular microenvironment due to loss of collagen VII.
Molecular systems biology Apr, 2013 | Pubmed ID: 23591773
Double deficiency of cathepsins B and L results in massive secretome alterations and suggests a degradative cathepsin-MMP axis.
Cellular and molecular life sciences : CMLS Mar, 2014 | Pubmed ID: 23811845
Secretome and degradome profiling shows that Kallikrein-related peptidases 4, 5, 6, and 7 induce TGFβ-1 signaling in ovarian cancer cells.
Molecular oncology Feb, 2014 | Pubmed ID: 24120346
Transmembrane collagen XVII modulates integrin dependent keratinocyte migration via PI3K/Rac1 signaling.
PloS one , 2014 | Pubmed ID: 24505282
Prognostic significance of Zinc finger E-box binding homeobox 1 (ZEB1) expression in cancer cells and cancer-associated fibroblasts in pancreatic head cancer.
Surgery Jul, 2014 | Pubmed ID: 24929761
Automated peptide mapping and protein-topographical annotation of proteomics data.
BMC bioinformatics Jun, 2014 | Pubmed ID: 24946880
Carboxyterminal protein processing in health and disease: key actors and emerging technologies.
Journal of proteome research Nov, 2014 | Pubmed ID: 25204196
Septins arrange F-actin-containing fibers on the Chlamydia trachomatis inclusion and are required for normal release of the inclusion by extrusion.
mBio Oct, 2014 | Pubmed ID: 25293760
Protein amino-terminal modifications and proteomic approaches for N-terminal profiling.
Current opinion in chemical biology Feb, 2015 | Pubmed ID: 25461725
The metalloprotease-disintegrin ADAM8 contributes to temozolomide chemoresistance and enhanced invasiveness of human glioblastoma cells.
Neuro-oncology Nov, 2015 | Pubmed ID: 25825051
Toward improved peptide feature detection in quantitative proteomics using stable isotope labeling.
Proteomics. Clinical applications Aug, 2015 | Pubmed ID: 25931027
Enrichment of protein N-termini by charge reversal of internal peptides.
Proteomics Jul, 2015 | Pubmed ID: 26013158
miR-200c dampens cancer cell migration via regulation of protein kinase A subunits.
Oncotarget Sep, 2015 | Pubmed ID: 26203557
The stromal cell-surface protease fibroblast activation protein-α localizes to lipid rafts and is recruited to invadopodia.
Biochimica et biophysica acta Oct, 2015 | Pubmed ID: 26209915
Quantitative proteomic analysis of formalin-fixed, paraffin-embedded clear cell renal cell carcinoma tissue using stable isotopic dimethylation of primary amines.
BMC genomics Jul, 2015 | Pubmed ID: 26220445
Fibroblast activation protein-α, a stromal cell surface protease, shapes key features of cancer associated fibroblasts through proteome and degradome alterations.
Molecular oncology Jan, 2016 | Pubmed ID: 26304112
Active site specificity profiling of the matrix metalloproteinase family: Proteomic identification of 4300 cleavage sites by nine MMPs explored with structural and synthetic peptide cleavage analyses.
Matrix biology : journal of the International Society for Matrix Biology Jan, 2016 | Pubmed ID: 26407638
An Aminopeptidase in the Drosophila Testicular Niche Acts in Germline Stem Cell Maintenance and Spermatogonial Dedifferentiation.
Cell reports Oct, 2015 | Pubmed ID: 26440886
Impact of cathepsin B on the interstitial fluid proteome of murine breast cancers.
Biochimie Mar, 2016 | Pubmed ID: 26455267
A Single Glycan at the 99-Loop of Human Kallikrein-related Peptidase 2 Regulates Activation and Enzymatic Activity.
The Journal of biological chemistry Jan, 2016 | Pubmed ID: 26582203
Mesopancreatic Stromal Clearance Defines Curative Resection of Pancreatic Head Cancer and Can Be Predicted Preoperatively by Radiologic Parameters: A Retrospective Study.
Medicine Jan, 2016 | Pubmed ID: 26817896
Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses.
BMC cancer Mar, 2016 | Pubmed ID: 26951071
Formalin-Fixed, Paraffin-Embedded Tissues (FFPE) as a Robust Source for the Profiling of Native and Protease-Generated Protein Amino Termini.
Molecular & cellular proteomics : MCP 06, 2016 | Pubmed ID: 27087653
Skin Barrier Defects Caused by Keratinocyte-Specific Deletion of ADAM17 or EGFR Are Based on Highly Similar Proteome and Degradome Alterations.
Journal of proteome research 05, 2016 | Pubmed ID: 27089454
Identification of Protease Specificity by Combining Proteome-Derived Peptide Libraries and Quantitative Proteomics.
Molecular & cellular proteomics : MCP 07, 2016 | Pubmed ID: 27122596
The death enzyme CP14 is a unique papain-like cysteine proteinase with a pronounced S2 subsite selectivity.
Archives of biochemistry and biophysics 08, 2016 | Pubmed ID: 27246477
Cathepsin A inhibition attenuates myocardial infarction-induced heart failure on the functional and proteomic levels.
Journal of translational medicine 05, 2016 | Pubmed ID: 27246731
Comprehensive Proteomic Analysis of Nitrogen-Starved Mycobacterium smegmatis Δpup Reveals the Impact of Pupylation on Nitrogen Stress Response.
Journal of proteome research 08, 2016 | Pubmed ID: 27378031
Yeast membrane proteomics using leucine metabolic labelling: Bioinformatic data processing and exemplary application to the ER-intramembrane protease Ypf1.
Biochimica et biophysica acta 10, 2016 | Pubmed ID: 27426920
Proteomic Profiling of Cardiomyocyte-Specific Cathepsin A Overexpression Links Cathepsin A to the Oxidative Stress Response.
Journal of proteome research 09, 2016 | Pubmed ID: 27432266
Determinants of Macromolecular Specificity from Proteomics-Derived Peptide Substrate Data.
Current protein & peptide science , 2017 | Pubmed ID: 27455965
Proteomic analysis of silenced cathepsin B expression suggests non-proteolytic cathepsin B functionality.
Biochimica et biophysica acta 11, 2016 | Pubmed ID: 27526672
OpenMS: a flexible open-source software platform for mass spectrometry data analysis.
Nature methods Aug, 2016 | Pubmed ID: 27575624
Pregnancy Specific β-1 Glycoprotein 1 is Expressed in Pancreatic Ductal Adenocarcinoma and its Subcellular Localization Correlates with Overall Survival.
Journal of Cancer , 2016 | Pubmed ID: 27877217
Tenascin-C Orchestrates Glioblastoma Angiogenesis by Modulation of Pro- and Anti-angiogenic Signaling.
Cell reports 12, 2016 | Pubmed ID: 27926865
The papain-like cysteine proteinases NbCysP6 and NbCysP7 are highly processive enzymes with substrate specificities complementary to Nicotiana benthamiana cathepsin B.
Biochimica et biophysica acta. Proteins and proteomics Apr, 2017 | Pubmed ID: 28188928
Identification of Protease Cleavage Sites by Charge-Based Enrichment of Protein N-Termini.
Methods in molecular biology (Clifton, N.J.) , 2017 | Pubmed ID: 28299738
System-Wide Profiling of Protein Amino Termini from Formalin-Fixed, Paraffin-Embedded Tissue Specimens for the Identification of Novel Substrates.
Methods in molecular biology (Clifton, N.J.) , 2017 | Pubmed ID: 28315246
Profiling of Protease Cleavage Sites by Proteome-Derived Peptide Libraries and Quantitative Proteomics.
Methods in molecular biology (Clifton, N.J.) , 2017 | Pubmed ID: 28315252
Proteomics highlights decrease of matricellular proteins in left ventricular assist device therapy†.
European journal of cardio-thoracic surgery : official journal of the European Association for Cardio-thoracic Surgery Jun, 2017 | Pubmed ID: 28329269
The Prognostic Impact of the Carcinoembryonic Antigen in Ampullary Cancer - A Retrospective Single Center Study.
Journal of Cancer , 2017 | Pubmed ID: 28367245
Form follows function: Morphological and immunohistological insights into epithelial-mesenchymal transition characteristics of tumor buds.
Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine May, 2017 | Pubmed ID: 28475002
Differential effect of TGFβ on the proteome of cancer associated fibroblasts and cancer epithelial cells in a co-culture approach - a short report.
Cellular oncology (Dordrecht) Dec, 2017 | Pubmed ID: 28808957
HtrA1 activation is driven by an allosteric mechanism of inter-monomer communication.
Scientific reports 11, 2017 | Pubmed ID: 29093542
Identification of tissue damage, extracellular matrix remodeling and bacterial challenge as common mechanisms associated with high-risk cutaneous squamous cell carcinomas.
Matrix biology : journal of the International Society for Matrix Biology 03, 2018 | Pubmed ID: 29158163
Proteomic analysis of lung metastases in a murine breast cancer model reveals divergent influence of CTSB and CTSL overexpression.
Journal of Cancer , 2017 | Pubmed ID: 29187882
Proteome profiling of clear cell renal cell carcinoma in von Hippel-Lindau patients highlights upregulation of Xaa-Pro aminopeptidase-1, an anti-proliferative and anti-migratory exoprotease.
Oncotarget Nov, 2017 | Pubmed ID: 29245961
Proteomic Characterization of Prostate Cancer to Distinguish Nonmetastasizing and Metastasizing Primary Tumors and Lymph Node Metastases.
Neoplasia (New York, N.Y.) 02, 2018 | Pubmed ID: 29248718
HtrA1 Mediated Intracellular Effects on Tubulin Using a Polarized RPE Disease Model.
EBioMedicine Jan, 2018 | Pubmed ID: 29269042
Reproducible proteomics sample preparation for single FFPE tissue slices using acid-labile surfactant and direct trypsinization.
Clinical proteomics , 2018 | Pubmed ID: 29527141
The pleiotropic roles of ADAM9 in the biology of solid tumors.
Cellular and molecular life sciences : CMLS 07, 2018 | Pubmed ID: 29550974
N-Terminomics identifies HtrA1 cleavage of thrombospondin-1 with generation of a proangiogenic fragment in the polarized retinal pigment epithelial cell model of age-related macular degeneration.
Matrix biology : journal of the International Society for Matrix Biology 09, 2018 | Pubmed ID: 29572155
Morphology of Immunomodulation in Breast Cancer Tumor Draining Lymph Nodes Depends on Stage and Intrinsic Subtype.
Scientific reports 03, 2018 | Pubmed ID: 29593307
Specificity profiling of human trypsin-isoenzymes.
Biological chemistry 09, 2018 | Pubmed ID: 29883318
The two cathepsin B-like proteases of Arabidopsis thaliana are closely related enzymes with discrete endopeptidase and carboxydipeptidase activities.
Biological chemistry 09, 2018 | Pubmed ID: 29924726
Nanoparticle decoration impacts airborne fungal pathobiology.
Proceedings of the National Academy of Sciences of the United States of America 07, 2018 | Pubmed ID: 29925597
Structural determinants of specificity and regulation of activity in the allosteric loop network of human KLK8/neuropsin.
Scientific reports Jul, 2018 | Pubmed ID: 30013126
Proteomic distinction of renal oncocytomas and chromophobe renal cell carcinomas.
Clinical proteomics , 2018 | Pubmed ID: 30087584
Identification of Novel Natural Substrates of Fibroblast Activation Protein-alpha by Differential Degradomics and Proteomics.
Molecular & cellular proteomics : MCP 01, 2019 | Pubmed ID: 30257879
Kallikrein-related peptidases 4, 5, 6 and 7 regulate tumour-associated factors in serous ovarian cancer.
British journal of cancer 10, 2018 | Pubmed ID: 30287916
Biomolecule-corona formation confers resistance of bacteria to nanoparticle-induced killing: Implications for the design of improved nanoantibiotics.
Biomaterials 02, 2019 | Pubmed ID: 30530244
Infection of HeLa cells with Chlamydia trachomatis inhibits protein synthesis and causes multiple changes to host cell pathways.
Cellular microbiology 04, 2019 | Pubmed ID: 30551267
ADAM9 contributes to vascular invasion in pancreatic ductal adenocarcinoma.
Molecular oncology 02, 2019 | Pubmed ID: 30556643
Detection and Characterization of a Mycobacterial L-Arabinofuranose ABC Transporter Identified with a Rapid Lipoproteomics Protocol.
Cell chemical biology 06, 2019 | Pubmed ID: 31006617
Radiomic features from PSMA PET for non-invasive intraprostatic tumor discrimination and characterization in patients with intermediate- and high-risk prostate cancer - a comparison study with histology reference.
Theranostics , 2019 | Pubmed ID: 31131055
Cathepsin B increases ENaC activity leading to hypertension early in nephrotic syndrome.
Journal of cellular and molecular medicine 10, 2019 | Pubmed ID: 31368174
A human endogenous retrovirus encoded protease potentially cleaves numerous cellular proteins.
Mobile DNA , 2019 | Pubmed ID: 31462935
Impact of left ventricular assist device therapy on the cardiac proteome and metabolome composition in ischemic cardiomyopathy.
Artificial organs Mar, 2020 | Pubmed ID: 31494943
Neuronal-specific microexon splicing of mRNA is directly regulated by SRRM4/nSR100.
RNA biology 01, 2020 | Pubmed ID: 31559909
Targeted Metabolic Profiling of Methionine Cycle Metabolites and Redox Thiol Pools in Mammalian Plasma, Cells and Urine.
Metabolites Oct, 2019 | Pubmed ID: 31635306
Accessible and reproducible mass spectrometry imaging data analysis in Galaxy.
GigaScience 12, 2019 | Pubmed ID: 31816088
Depletion of histone methyltransferase KMT9 inhibits lung cancer cell proliferation by inducing non-apoptotic cell death.
Cancer cell international , 2020 | Pubmed ID: 32095117
The secreted inhibitor of invasive cell growth CREG1 is negatively regulated by cathepsin proteases.
Cellular and molecular life sciences : CMLS Jan, 2021 | Pubmed ID: 32385587
FOLFIRINOX Gemcitabine-based Therapy for Pancreatic Ductal Adenocarcinoma: Lessons from Patient-derived Cell Lines.
Anticancer research Jul, 2020 | Pubmed ID: 32620605
Deep multiple instance learning classifies subtissue locations in mass spectrometry images from tissue-level annotations.
Bioinformatics (Oxford, England) 07, 2020 | Pubmed ID: 32657378
HIF-1α and HIF-2α differently regulate tumour development and inflammation of clear cell renal cell carcinoma in mice.
Nature communications 08, 2020 | Pubmed ID: 32807776
Neoplastic-Stromal Cell Cross-talk Regulates Matrisome Expression in Pancreatic Cancer.
Molecular cancer research : MCR 12, 2020 | Pubmed ID: 32873625
Corrigendum to "Biomolecule-corona formation confers resistance of bacteria to nanoparticle-induced killing: Implications for the design of improved nanoantibiotics" [Biomaterials 192 (2019) 551-559].
Biomaterials Dec, 2020 | Pubmed ID: 32932141
Multimodal imaging for radiation therapy planning in patients with primary prostate cancer.
Physics and imaging in radiation oncology Oct, 2018 | Pubmed ID: 33458410
Discovery of a small protein factor involved in the coordinated degradation of phycobilisomes in cyanobacteria.
Proceedings of the National Academy of Sciences of the United States of America 02, 2021 | Pubmed ID: 33509926
SRGAP1 Controls Small Rho GTPases To Regulate Podocyte Foot Process Maintenance.
Journal of the American Society of Nephrology : JASN Mar, 2021 | Pubmed ID: 33514561
Origin and Expansion of the Serine Protease Repertoire in the Myelomonocyte Lineage.
International journal of molecular sciences Feb, 2021 | Pubmed ID: 33562184
Role of Kallikrein 7 in Body Weight and Fat Mass Regulation.
Biomedicines Jan, 2021 | Pubmed ID: 33572949
Impact of DJ-1 and Helix 8 on the Proteome and Degradome of Neuron-Like Cells.
Cells Feb, 2021 | Pubmed ID: 33669258
First report on establishment and characterization of a carcinosarcoma tumour cell line model of the bladder.
Scientific reports Mar, 2021 | Pubmed ID: 33727576
A Systematic Evaluation of Semispecific Peptide Search Parameter Enables Identification of Previously Undescribed N-Terminal Peptides and Conserved Proteolytic Processing in Cancer Cell Lines.
Proteomes May, 2021 | Pubmed ID: 34070654
Rüdiger Braun1,
Olha Lapshyna1,
Susanne Eckelmann2,3,
Kim Honselmann1,
Louisa Bolm1,
Meike ten Winkel1,
Steffen Deichmann1,
Oliver Schilling4,
Charli Kruse2,3,
Tobias Keck1,
Ulrich Wellner1,
Peter Bronsert4,5,6,
Matthias Brandenburger3
1Department of Surgery, University Medical Center Schleswig-Holstein,
2Institute of Medical and Marine Biotechnology, University of Lübeck,
3, Fraunhofer Research and Development Center for Marine and Cellular Biotechnology,
4Institute for Surgical Pathology, Medical Center - University of Freiburg, Faculty of Medicine, University of Freiburg,
5Tumorbank Comprehensive Cancer Center Freiburg, Medical Center - University of Freiburg,
6Core Facility Histopathology and Digital Pathology Freiburg, Medical Center - University of Freiburg