GPMDB00185OtherBennike TB, et al.InstrumentNot AvailableNot availableHomo_sapiens_viruses, Human, Bacteroides_thetaiotaomicron_vpi_5482, Escherichia_coli_k_12_substr__mg165525993694tbe@hst.aau.dkDepartment of Health Science and Technology, Aalborg University, et al.http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015348http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015369http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015347http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015349http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015362http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015340http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015361http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015364http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015342http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015363http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015341http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015366http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015344http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015365http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015343http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015346http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015368http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015367http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015345http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015360http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015359http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015358http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015351http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015350http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015353http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015352http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015355http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015354http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015356Not availableGPMDBNeutrophils, induced neutrophil extracellular traps, and several proteins that play a part in innate immunity are all increased in abundance in the morphologically normal colon mucosa from patients with UC. The increased abundance of these antimicrobial compounds points to the stimulation of the innate immune system in the etiology of UC.We identified and quantified 5711 different proteins with proteomics. The abundance of the proteins calprotectin and lactotransferrin in the tissue correlated with the degree of tissue inflammation as determined by histology. However, fecal calprotectin did not correlate. Forty-six proteins were measured with a statistically significant differences in abundances between the UC colon tissue and controls. Eleven of the proteins with increased abundances in the UC biopsies were associated with neutrophils and neutrophil extracellular traps. The findings were validated by microscopy, where an increased abundance of neutrophils and the presence of neutrophil extracellular traps by extracellular DNA present in the UC colon tissue were confirmed.Mucosal colon biopsies were taken by endoscopy from noninflamed tissue of 10 patients with UC and 10 controls. The biopsies were either snap-frozen for protein analysis or prepared for histology. The protein content of the biopsies was characterized by high-throughput gel-free quantitative proteomics, and biopsy histology was analyzed by light microscopy and confocal microscopy.The etiology of the inflammatory bowel diseases, including ulcerative colitis (UC), remains incompletely explained. We hypothesized that an analysis of the UC colon proteome could reveal novel insights into the disease etiology.The etiology of the inflammatory bowel diseases, including ulcerative colitis (UC), remains incompletely explained. We hypothesized that an analysis of the UC colon proteome could reveal novel insights into the disease etiology.Mucosal colon biopsies were taken by endoscopy from noninflamed tissue of 10 patients with UC and 10 controls. The biopsies were either snap-frozen for protein analysis or prepared for histology. The protein content of the biopsies was characterized by high-throughput gel-free quantitative proteomics, and biopsy histology was analyzed by light microscopy and confocal microscopy.We identified and quantified 5711 different proteins with proteomics. The abundance of the proteins calprotectin and lactotransferrin in the tissue correlated with the degree of tissue inflammation as determined by histology. However, fecal calprotectin did not correlate. Forty-six proteins were measured with a statistically significant differences in abundances between the UC colon tissue and controls. Eleven of the proteins with increased abundances in the UC biopsies were associated with neutrophils and neutrophil extracellular traps. The findings were validated by microscopy, where an increased abundance of neutrophils and the presence of neutrophil extracellular traps by extracellular DNA present in the UC colon tissue were confirmed.Neutrophils, induced neutrophil extracellular traps, and several proteins that play a part in innate immunity are all increased in abundance in the morphologically normal colon mucosa from patients with UC. The increased abundance of these antimicrobial compounds points to the stimulation of the innate immune system in the etiology of UC.<h4>Background</h4>The etiology of the inflammatory bowel diseases, including ulcerative colitis (UC), remains incompletely explained. We hypothesized that an analysis of the UC colon proteome could reveal novel insights into the disease etiology.<h4>Methods</h4>Mucosal colon biopsies were taken by endoscopy from noninflamed tissue of 10 patients with UC and 10 controls. The biopsies were either snap-frozen for protein analysis or prepared for histology. The protein content of the biopsies was characterized by high-throughput gel-free quantitative proteomics, and biopsy histology was analyzed by light microscopy and confocal microscopy.<h4>Results</h4>We identified and quantified 5711 different proteins with proteomics. The abundance of the proteins calprotectin and lactotransferrin in the tissue correlated with the degree of tissue inflammation as determined by histology. However, fecal calprotectin did not correlate. Forty-six proteins were measured with a statistically significant differences in abundances between the UC colon tissue and controls. Eleven of the proteins with increased abundances in the UC biopsies were associated with neutrophils and neutrophil extracellular traps. The findings were validated by microscopy, where an increased abundance of neutrophils and the presence of neutrophil extracellular traps by extracellular DNA present in the UC colon tissue were confirmed.<h4>Conclusions</h4>Neutrophils, induced neutrophil extracellular traps, and several proteins that play a part in innate immunity are all increased in abundance in the morphologically normal colon mucosa from patients with UC. The increased abundance of these antimicrobial compounds points to the stimulation of the innate immune system in the etiology of UC.Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies.Bennike Tue Bjerg TB,Carlsen Thomas Gelsing TG,Ellingsen Torkell T,Bonderup Ole Kristian OK,Glerup Henning H,Bøgsted Martin M,Christiansen Gunna G,Birkelund Svend S,Stensballe Allan A,Andersen Vibeke V,Bennike Tue Bjerg TB, Carlsen Thomas Gelsing TG, Ellingsen Torkell T, Bonderup Ole Kristian OK, Glerup Henning H, Bøgsted Martin M, Christiansen Gunna G, Birkelund Svend S, Stensballe Allan A, Andersen Vibeke Vpolynuclear neutrophilic leukocyte, Eosinophil Extracellular Trap, determination, Traps, Ulcerative colitis (disorder), ULCERATVE COLITIS UNSPCF, ulcerative colitis, neutrophils, Extracellular DNA, DNA Trap, neutrophil granulocyte, neutrocyte, Extracellular Trap, unspecified, neutrophilic leucocyte, Other ulcerative colitis, NET (Neutrophil Extracellular Traps), neutrophil leukocyte, Eosinophil Extracellular DNA Traps, chemical analysis, NETs (Neutrophil Extracellular Traps), Extracellular DNA Traps, Colitis, Left-sided ulcerative (chronic) colitis, Left-sided ulcerative colitis, neutrophil leucocyte, Eosinophil Extracellular Traps, UC - ulcerative colitis, neutrophilic leukocyte, Biopsies., Neutrophil Extracellular, EEDTs (Eosinophil Extracellular DNA Traps), EEDT (Eosinophil Extracellular DNA Traps), Neutrophil Extracellular Traps, Eosinophil Extracellular, Trap, Ulcerative, polynuclear neutrophilic leucocyte, polymorphonuclear leukocyte, Extracellular, Eosinophil, PMN, polymorphonuclear leucocyte, DNA Traps, ulcerative colitis (disorder), assay, Neutrophil Extracellular Trap, poly, Other ulcerative colitis (disorder), Extracellular Traps, Neutrophil, Proteomes, polymorphonuclear neutrophil, Extracellular DNA Trap, Ulcerative colitisdata, Omental Appendix, human disease, Bowel Diseases, Left-sided ulcerative colitis, IBD, determination, posterior intestine, Appendices, INFLAMM BOWEL DIS, posterior intestine - zebrafish, UC - ulcerative colitis, Ulcerative colitis (disorder), causes, Omental, ULCERATVE COLITIS UNSPCF, ulcerative colitis, Inflammatory Bowel Disease, Appendix Epiploica, sample population, hindgut, unspecified, Inflammatory Bowel Diseases, large bowel, Other ulcerative colitis, COLON, Ulcerative, Entire colon, Taenia Coli, sample, chemical analysis, Appendix, causality, Diseases, pathogenesis, Homo sapiens disease, causality., ulcerative colitis (disorder), assay, Other ulcerative colitis (disorder), Inflammatory, Omental Appendices, Colitis, Proteomes, Left-sided ulcerative (chronic) colitis, Ulcerative colitispolynuclear neutrophilic leukocyte, Eosinophil Extracellular Trap, determination, Traps, Ulcerative colitis (disorder), ULCERATVE COLITIS UNSPCF, ulcerative colitis, neutrophils, Extracellular DNA, DNA Trap, neutrophil granulocyte, neutrocyte, Extracellular Trap, unspecified, neutrophilic leucocyte, Other ulcerative colitis, NET (Neutrophil Extracellular Traps), neutrophil leukocyte, Eosinophil Extracellular DNA Traps, chemical analysis, NETs (Neutrophil Extracellular Traps), Extracellular DNA Traps, Colitis, Left-sided ulcerative (chronic) colitis, Left-sided ulcerative colitis, neutrophil leucocyte, Eosinophil Extracellular Traps, UC - ulcerative colitis, neutrophilic leukocyte, Biopsies., Neutrophil Extracellular, EEDTs (Eosinophil Extracellular DNA Traps), EEDT (Eosinophil Extracellular DNA Traps), Neutrophil Extracellular Traps, Eosinophil Extracellular, Trap, Ulcerative, polynuclear neutrophilic leucocyte, polymorphonuclear leukocyte, Extracellular, Eosinophil, PMN, polymorphonuclear leucocyte, DNA Traps, ulcerative colitis (disorder), assay, Neutrophil Extracellular Trap, poly, Other ulcerative colitis (disorder), Extracellular Traps, Neutrophil, Proteomes, polymorphonuclear neutrophil, Extracellular DNA Trap, Ulcerative colitispolynuclear neutrophilic leukocyte, Band Cell, Plays, Immune Systems, antibiotique, large bowel mucosa of organ, nonspecific immune response, Traps, Gene, antimicrobial agents, large bowel mucous membrane, supernumerary, DNA Trap, Polymorphonuclear, Entire colonic mucous membrane, microbicides, neutrophilic leucocyte, large bowel organ mucosa, neutrophil leukocyte, Gene Products, pathogenesis, NETs (Neutrophil Extracellular Traps), LE Cell, causality., Extracellular DNA Traps, antibiotics, Toy, Neutrophil Band Cells, Segmented/Neutrophils, Normalities, average, mucosa of organ of colon, antimicrobial, increased, Playthings, colon mucous membrane, N, Antibiotika, neutrophil leucocyte, Eosinophil Extracellular Traps, proteins, colon mucosa of organ, causes, neutrophilic leukocyte, Neutrophil Extracellular, colonic mucosa, Immune, Neutrophils, Eosinophil Extracellular, Puppets, Trap, Clients, polynuclear neutrophilic leucocyte, polymorphonuclear leukocyte, Extracellular, organ mucosa of colon, Play, Neutrophil Extracellular Trap, LE, Extracellular Traps, Neutrophil, Puppet, Antibiotikum, antibiotic, Eosinophil Extracellular Trap, Leukocyte, organ mucosa of large bowel, Leukocytes, large bowel mucosa, Proteins, innate immunity, Normalcy, Client, neutrophils, Polymorphonuclear Leukocyte, Cell, Extracellular DNA, mucosa of organ of large bowel, colon organ mucosa, Neutrophil Band Cell, polypeptide, neutrophil granulocyte, neutrocyte, Extracellular Trap, LE Cells, colonic mucous membrane, Playthings and Play, mucosa of segment of colon, NET (Neutrophil Extracellular Traps), Band Cells, Eosinophil Extracellular DNA Traps, Protein, Systems, Plaything, microbicide, mucosa of large bowel, Normality, mucous membrane of large bowel, increased number, System, Toys, NEUTSGNE, EEDTs (Eosinophil Extracellular DNA Traps), Protein Gene Products, Gene Proteins, present in greater numbers in organism, EEDT (Eosinophil Extracellular DNA Traps), Health, Neutrophil Extracellular Traps, Patient, mucosa of colon, Cells, Eosinophil, colon mucosa, PMN, Polymorphonuclear Leukocytes, mucous membrane of colon, polymorphonuclear leucocyte, DNA Traps, poly, polymorphonuclear neutrophil, accessory, Extracellular DNA Trap1805http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320015348dbgap_ncbi~0patentfamilies~0rfam~0merops~0complex-portal~0uniprot~0wormbaseparasite~0embl-covid19~0reactome~0emdb~0wgs_masters~0ebiweb_resources~0opentargets_genetics~0biomodels_all~0ipd-mhc~0ebiweb_teams~0taxonomy~0genome_assembly~0sc-experiments~0ebiweb_people~0enzymeportal_enzymes~0ipd-nhkir~0cellosaurus~0pdbe~0chebi~0patentproteins~0interpro7~0uniref~0chembl~0pdbekb~0gpcrdb~0hgnc~0sc-genes~0intact~0rhea~0ebiweb_training~0alphafold~0imgt-hla~0patentnucleotides~0ensemblroot~0eva_studies~0non-coding~0europepmc~0pubmed~1identifiers_registry~0pdbechem~0hpa-covid19~0eva-variants-covid19~0biosamples~0gwas_catalog~0biotools~0tls_masters~0mesh~0coding~0sra~0opentargets~0efo~0embl-pathogen~0project~0pride~1human_diseases~0geo_datasets~0embl~0treefam~0uniparc~0ols~0dgva~0intenz~0go~0tsa_masters~0biosamples-covid19~0ebiweb_corporate~0omim~0lrg~0earlycause-molecular-sequences~0ipd-kir~0empiar~0rnacentral~0orcid_data_claims~0gpmdb~2lineage-covid19~0metagenomics~0pfam~0pride archive~1varsite~00Resource Reanalysis0.00.00.0055521283158544110.01.0falseNeutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies.Data from ProteomeXchange, PXD ID: PXD001608. File: UC_2_3.mzml. Ulcerative colitis sample. Published as part of Inflamm Bowel Dis. 2015 May 19 . From the Abstract: {{i}} The etiology of the inflammatory bowel diseases, including ulcerative colitis (UC), remains incompletely explained. We hypothesized that an analysis of the UC colon proteome could reveal novel insights into the disease etiology {{/i}}2015-05-29GPM3232001534825993694PXD001608PXD001608