Prideapplication/xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/manual_annotation_MSMS_top-down_alpha-defensins.xlsxftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Search_Engine_Histatins.prot.xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Search_Engine_P-B.prot.xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Search_Engine_Statherin.prot.xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Search_Engine_P-C.prot.xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SM_023_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_CM_031.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Ctrl_SS.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_026.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CtrlTC_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_CM_031_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Ctrl_TC.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_CM_031_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_CM_045.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SM_002.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SM_002_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/SAL_CASTAGNOLACNTR_130618.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_26_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CtrlCSM030_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CSM033_Roma_HCD_07102015.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_052.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CSM031_Roma_HCD_07102015.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/SM018_Roma_HCD_100915.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/SM024_Roma_HCD_250915.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CSM006_Roma_HCD_290915.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_15_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CtrlTC_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/controllo_adult_MS.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_26_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_52_CID_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CtrlSS_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CSM022_Roma_HCD_06102015.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CSM003_Roma_HCD_250915.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CSM040_Roma_HCD_13102015.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_52_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SM_023.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_CM_045_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/control_055-adult.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CtrlCSM030_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_CM_027.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Control_054_adult.RAWftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CtrlSS_CID.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_015.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SM_002_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Ctrl_Csm030.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/CSM038_Roma_HCD_07102015.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SMC_15_HCD.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/M_SM_006.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Peak_List_Histatins.mgfftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Peak_List_P-B.mgfftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Peak_List_P-C.mgfftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Peak_List_Statherin.mgfftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/manual_annotation_MSMS_top-down_Histatins.xlsftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/manual_annotation_MSMS_top-down_Cystatins.xlsftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/manual_annotation_MSMS_top-down-S100A.xlsftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/manual_annotation_MSMS_top-down_aPRPs.xlsftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/manual_annotation_MSMS_top-down_T-beta4.xlsftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/manual_annotation_MSMS_top-down_SLPI.xlsftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Annotated_Spectra_Histatins.zipftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Annotated_Spectra_Statherin.zipftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Annotated_Spectra_P-C.zipftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/06/PXD017759/Annotated_Spectra_P-B.zipprimaryOK200tcabras@unica.itSimone SerraoMass SpectrometryTop-down proteomicsNot availableMastocytosisSalivary proteinsHplc-msmshttp://www.ebi.ac.uk/pride/archive/projects/PXD017759Saliva41 patients were enrolled from the Internal Medicine and Immunology outpatient clinic of the University of Cagliari. 48 sex/age matched healthy controls were enrolled as volunteers among the staff of the Department of Life and Environmental Science, University of Cagliari. The informed consent process agreed with the latest stipulations established by the Declaration of Helsinki. The local review boards authorized the study, and in view of its observational nature, a formal ethical. The patients have been classified in cutaneous mastocytosis (CM) and systemic mastocytosis (SM) on the basis of the clinical criteria established by WHO. All the samples of unstimulated whole saliva were collected during the morning (between 10:00 a.m. and 12:00 p.m.). Donors, in fasting conditions, were invited to sit assuming a relaxed position and to swallow. Whole saliva was collected as it flowed into the anterior floor of the mouth with a soft plastic aspirator for less than 1 min, and transferred to a plastic tube, cooled on ice. Salivary samples were immediately diluted in a 1:1 v/v ratio with a 0.2% solution of trifluoroacetic acid (TFA) containing 50μM of leu-enkephalin as internal standard. Then, each sample was centrifuged at 20000 g for 15 minutes at 4°C. Finally, the supernatant was separated from the precipitate and immediately analyzed by RP-HPLC-ESI-MS or stored at -80°C until the analysis for up to two weeks. The identification of the peptides and proteins investigated in this study were performed by HPLC-high resolution ESI-MS/MS (LTQ-Orbitrap Elite) operating in “Intact Protein Mode”, with the delta HCD vacuum pressure reduced to 0.1. The chromatographic separation was carried out using eluent A: 0.1% (v/v) aqueous formic acid (FA) and eluent B: 0.1% (v/v) FA in ACN-water 80/20. The gradient was: 0-2 min 5% B, 2-10 min from 5% to 25% B (linear), 10-25 min from 25% to 34% B, 25-45 min from 34% to 70% B, 45-55 min from 70% to 90% B at flow rate of 50 µL/min. The injection volume was 19 μL. Full MS experiments were performed in positive ion mode with mass range from 400 to 2000 m/z at resolution of 120000 (at 400 m/z). Capillary temperature was 275°C, source voltage 4.0 kV, S-Lens RF level 69%. In data-dependent acquisition mode the five most abundant ions were acquired and fragmented by using collision-induced dissociation (CID), with 35% normalized collision energy for 10 ms, isolation width of 5 m/z, activation q of 0.25. HPLC-ESI-MS and MS/MS data were generated by Xcalibur 2.2 SP1.48 (Thermo Fisher Scientific, CA) using default parameters of the Xtract program for the deconvolution.PrideNot availableS-nitrosyl-L-cysteinedisulfide crosslinked residuesL-cysteine glutathione disulfideO-phospho-L-threoninemonohydroxylated residuemono N-acetylated residueL-cysteic acid (L-cysteine sulfonic acid)2-pyrrolidone-5-carboxylic acid (Gln)O-phospho-L-serineMS/MS data were analyzed by both manual inspection of the MS/MS spectra recorded along the chromatogram and the Proteome Discoverer 2.2 software elaboration based on the SEQUEST HT cluster as a search engine (University of Washington, licensed to Thermo Electron Corporation, San Jose, CA) against the UniProtKB human data-bank (163 117 entries, release 2018_02). For peptide matching, high-confidence filter settings were applied: the peptide score threshold was 2.3, and the limits were Xcorr scores >1.2 for singly charged ions and 1.9 and 2.3 for doubly and triply charged ions, respectively. The false discovery rate (FDR) was set to 0.01 (strict) and 0.05 (relaxed), and the precursor and fragment mass tolerance was 10 ppm and 0.5 Da, respectively. N-terminal pyroglutamination from E or Q residues, serine phosphorylation, N-terminal acetylation, Met oxidation, Cys glutathionylation, and nitrosylation were selected as dynamic modifications. Because of the difficulties of the automated software to detect with high confidence every protein and their fragments, the structural information derives in part from manual inspections of the MS/MS spectra, obtained by either CID fragmentation, against the theoretical ones generated by MS-Product software available at the Protein Prospector Web site (http://prospector.ucsf.edu/prospector/mshome.htm). All of the MS/MS spectra have been manually verified by utilizing all the fragmentation spectra with an acceptable number of fragment ions.ProteomicsTiziana CabrasQ ExactiveDepartment of Life and Environmental Sciences - Biomedical SectionPARTIALHomo Sapiens (human)32575983 Serrao S, Firinu D, Olianas A, Deidda M, Contini C, Iavarone F, Sanna MT, Boroumand M, Amado F, Castagnola M, Messana I, Del Giacco S, Manconi B, Cabras T. Top-down proteomics of human saliva discloses significant variations of the protein profile in patients with mastocytosis. J Proteome Res. 2020 10.1021/acs.jproteome.0c00207simone.serrao@unica.itLife and Environmental Sciences Department (Biomedical Section) - University of CagliariItalyMastocytosis is a myeloproliferative neoplasm causing abnormal clonal mast cell accumulation in different tissues, such as skin and bone marrow. A cutaneous subtype (CM) is distinguished from a systemic one (SM); SM patients can be grouped into SM with (SM+C) or without (SM-C) additional cutaneous lesions, and their classification is often challenging. This study was purposed to highlight variations in the salivary proteome of patients with different mastocytosis subtypes and compared to healthy controls. A top-down proteomics approach coupled to a label-free quantitation revealed salivary profiles in patients different from those of controls and a down-regulation of peptides/proteins involved in the mouth homeostasis and defense, such as statherin, histatins, and acidic proline-rich proteins (aPRPs), and in innate immunity and inflammation, such as the cathepsin inhibitors, suggesting a systemic condition associated with an exacerbated inflammatory state. The up-regulation of antileukoproteinase and S100A8 suggested a protective role against the disease status. The two SM forms were distinguished by the lower levels of truncated forms of aPRPs, statherin, P-B peptide, and cystatin D and the higher levels of thymosin β4 and α-defensins 1 and 4 in SM-C patients with respect to SM+C. Data are available via ProteomeXchange with identifier PXD017759.Top-Down Proteomics of Human Saliva Discloses Significant Variations of the Protein Profile in Patients with Mastocytosis.Serrao Simone S, Firinu Davide D, Olianas Alessandra A, Deidda Margherita M, Contini Cristina C, Iavarone Federica F, Sanna M Teresa MT, Boroumand Mozhgan M, Amado Francisco F, Castagnola Massimo M, Messana Irene I, Del Giacco Stefano S, Manconi Barbara B, Cabras Tiziana Tsodium salt, l(4)17, l(4)13, ammonium formate, Gli, 13C-labeled, IL1BC, cadmium salt, ion, SOFT, Cid[Mel], Ci[D], CASP-1, magnesium formate, AI845540, PSBG-1, cavital oralis, rima oris, zinc salt, CENP-A, General Internal, CENP-C, Trifluoroacetate, lenses, Polypeptides, protein polypeptide chains, cobalt(II) formate dihydrate, Oral Cavity, Il1bc, placement, Cutaneous mastocytosis (disorder), WMS, Multicase, D, DELTA, BcDNA:RE21270, Sex, C79325, Personnel, C1, PS-beta-C|D, PSG95, ocular lens, General Internal Medicine, proteins, Y, Fast, IL-1BC, Phenotypic, adult mouth, Met-enkephalin-Arg-Ser-Leu, HPLC, AI047805, DELTA1, decreased, CI, sex, Voluntary Worker, Vestibule Oris, CM, anatomical tube, ACN, sample, Acn, Medicine, delta D1, SMCD - systemic mast cell disease, Delta, CG3619, systemic tissue mast cell disease, nickel salt, SGS, CiD, Ce, c-SP1, Ci, Caspase-1 subunit p10, DL, 1053/14, cobalt (+2) salt, Volunteerism, Salivas, not genetically inherited, collisionally activated dissociation, CID, ciD, Cid, DmelCG7788, ACMICD, sodium (4:1:1) salt, cavitas oris, DL1, Dm1, magnesium salt, NF-E1, ci-D, University, relational spatial quality, activation, Hydrogen Oxide, Genotypic, Acid, CENP-A/Cid, CENP-A/CID, PSGIIA, lens, CENPA, proportionality, formate, rate, cromium (+3), 1304/03, CT12133, Spn1, CKTSF1B3, duct, Drice, vestibule of mouth, ammonium (4:1) salt, l(3)92Ab, oral cavity, DRICE, lead (+2) salt, Ci-155, Cutaneous, l(3)j8C3, lifespan, nickel formate dihydrate, lead formate, fractured, DrIce, DrICE, aluminum salt, Lens <eudicots>, splitted from, protein-containing complex, thomson, combined T and B cell immunodeficiency, CG7826, lens crystallina, mass-to-charge ratio, regio oralis, CenpA, stomatodaeum, B1G1, PENK(114-133), CG7835, Gene Products, CG42273, CG5896, Siah, Sp1-1, Cesium Trifluoroacetate, proportion, Genotypic Sex, 2310061K05Rik, Acinus, Academic, Oral, thallium (+1) salt, Volunteer Worker, saliva atomaris, INO80S, PCE-2, rubidium salt, Sciences, Worker, Opioid growth factor, methanoic acid, ESI, ions, Solution, oral vestibule, acinusL, Injectable, Caspase-1 subunit p20, acinusS, OGF, CG2125, peptidos, SP2, SP1, sp1, oral fissure, lens capsule, DmelCG5896, caspase 3, Grass, systemic mastocytosis, Proteins, 1440/11, split, potassium formate, CE-2, copper (+2) salt, mKIAA0670, Synenkephalin, polypeptide, native protein, Temperatures, ci[D], cupric formate, chemical analysis, 0495/20, hemorrhaged, biological sex, MFS1, aluminum formate, dJ142L7.2, AU020952, torn, lithium formate, DmelCG2125, COCO, Met-enkephalin, ci155, CenH3, underdeveloped, IL-1 beta-converting enzyme, Interleukin-1 beta-converting enzyme, ME-IV, Gene Proteins, 1485/04, Phenotypic Sex, salivary gland secretion, Strikes, quotient, Met-enkephalin-Arg-Phe, CenpA/CID, delta, determination, CRL2, zinc formate, Untrained, CG7788, DHFRP2, Cavity, crice, lead salt, protein, combined T cell and B cell immunodeficiency, PBG1, CER2, UCRBP, PENK(143-184), peptide, YIN-YANG-1, Cavitas Oris, ammonium tetraformate, peptido, Internal Medicine, BANF, 0926/11, Min, protein aggregate, present in fewer numbers in organism, Injectables, Oral Cavity Proper, DmelCG42273, CG13329, CERL2, peptides, vestibulum oris, entire life cycle, 2610036I19Rik, mouth cavity, 2610510L13Rik, hypoplasia, Untrained Personnel, min, crystalline lens, mAPC, Cavitas oris propria, copper, SM, fSAP152, lithium salt, ICE, CD66f, discontiguous, trifluoro-, Cenp-A, oral orifice, blood capillary, Volunteer Personnel, GPHYSD2, ammonium (2:1) salt, DANTE, ratio, Tube, ice, iCE, drice, Dmel_CG7826, Th, Hunger Strike, fragmented, TUBE, HCD, Ionen, drIce, drICE, Voluntary, systemic mast cell disease, Mast cell disease, cavum oris, PIX2, General, nickel (+2) salt, Dmel_CG7835, Acetic acid, cenpA, Mnb, MNB, ammonium salt, stoma, Ci/Gli, Ci/GLI, CenH3/CID, Review, Programs., DmelCG3619, life, cracked, P45, Trifluoroacetic, cobaltous formate, MASS, AA450830, AW124434, systemic tissue Mast cell disease, congenital combined immunodeficiency, precipited material, Patient, Cesium, copper salt, PS-beta-G-1, p45, PSGGA, mouth, Polypeptide, Review of Reported Cases, Agressive systemic mastocytosis, location, Lens <bivalves>, Internal, anon-WO0118547.269, cesium salt, FBN, Gene, ACINUS, formic acid, Volunteer Workers, l(4)102ABc, systemic mastocytosis with associated hemotologic non-mast cell lineage disease (SM-AHNMD), potassium salt, PSBG1, polypeptide chain, reduced, subnumerary, Injection, ECTOL1, 14C-labeled, saliva molecularis, Vestibule of the Mouth, camera-type eye lens, tiny, CG9456, Leu-enkephalin, CenH3[Cid], CenH3[CID], Mastocytosis, study, Plastic, 1119/09, entire lifespan, iones, Hunger, Mouth Cavity Proper, DmelCG13329, decreased number, calcium formate, Environmental Sciences, OCTD, X-linked combined immunodeficiency, LMPY, Clients, Voluntary Workers, dmDelta, trophic apparatus, cromium (+3) salt, eye lens, sodium formate, combined immunodeficiency, small, DYRK1, data, DmelCG9456, l(3)05151, nickel formate, protein complex, strontium formate, cenH3, strontium salt, Client, Peptide, Environmental, capillary vessel, Review Literature, CAD, oral part of face, divided_from, natural protein, Ci155, Protein, AI551343, Dyrk1, CES2A1, Vacuums, 1110003E12Rik, WDR51A, buccal cavity, WMS2, Volunteer, Science, PENK(238-259), 1423/11, GREM3, CC1, Hunger Strikes, E(ls)2, oral region, sample population, chromic formate, Interleukin-1 beta convertase, Protein Gene Products, FL-NCA-1|2, Strike, Pressures, Ion, SSKS, 3.4.22.36, calcium salt, Peptid, sailva normalis, assay, SCH, CID/CENP-Ahuman being, mast cell hyperplasia., Peptidomics, protein complex, saliva atomaris, Salivas, proteins, urticaria pigmentosa, protein, protein-containing complex, man, Client, human, protein polypeptide chains, native protein, natural protein, polypeptide chain, Patient, salivary gland secretion, Clients, Protein, saliva molecularis, MAST cell disease, Mast cell disease, sailva normalis, mastocytosis, protein aggregatel(4)17, IPP2A2, l(4)13, Gli, ion, Hgfr, Cid[Mel], Ci[D], 5730555F13Rik, atado, protein, combined T cell and B cell immunodeficiency, AI451642, phosphorylation, CENP-A, CENP-C, binding site, 2-Amino-3-hydroxypropionic acid, 5730420M11Rik, BANK, peptide, Polypeptides, protein polypeptide chains, Drug Tolerance, Methionine, ClvPrd, peptido, HGFR, Software Engineering, protein aggregate, Computer Program, WMS, CG13329, SET, 2810441M03Rik, F, BcDNA:RE21270, peptides, TAF-I, MUB3_18, M, Open, phosphatase 2A inhibitor I2PP2A, Computer Programs and Programming, beta-particle, proteins, CG12352, number of, MUB3.18, DmelCG4299, hNAT5, set, IGAAD, e, CI, e-, hSAN, 2-amino-3-hydroxypropanoic acid, DmelCG10574, ppm, Cenp-A, RG7MT1, GPHYSD2, Racemethionine, DmAAF34715, drug tolerance, Mak3p, SGS, ratio, CiD, phapii, Ce, proto-oncogene c-Met, Ci, NAT13, PRO, immune system tolerance, acetylation, 2-Amino-4-(methylthio)butyric acid, StF-IT-1, Search, extra or missing physical or functional parts, 9130215G10Rik, Nat13, CYS, Source Softwares, collisionally activated dissociation, Software Tools, CID, ciD, Cid, Programs, ACMICD, Program, Computer Applications, Ionen, 3-Hydroxyalanine, Computer Applications Software, 163, Computer Applications Softwares, Immunologic Tolerance, Methionin, ci-D, University, methionine, Softwares, Hmet, and GLY protein 2, region, cenpA, parent ion, HGF receptor, HGF/SF receptor, and GLY protein 1, Software Applications, Serine, HLA-DR-associated protein II, positional polypeptide feature, Ci/Gli, Ci/GLI, CenH3/CID, DI-2, CENP-A/Cid, CENP-A/CID, Source Software, CENPA, I-2Dm, proportionality, rate, CG4299, MASS, inhibitor of granzyme A-activated DNase, hCMT1c, c-Met, human, beta(-), I-2PP1, congenital combined immunodeficiency, Applications, TAF-IBETA, Self Tolerance, precursor ion, Tolerance, 2018, L Serine, TAF-Ibeta, Polypeptide, L-Serine, i2pp2a, 2600005K24Rik, Ci-155, Computer Software Applications, nat5, human being, 2-amino-4-(methylsulfanyl)butanoic acid, False, region or site annotation, e(-), number, FBN, NAT5P, Computer, electron, precursor, NAT13P, protein-containing complex, combined T and B cell immunodeficiency, PHAPII, CenpA, l(4)102ABc, HGF, template-activating factor I, polypeptide chain, ECTOL1, F15E12.6, RCCP2, nat13, Siah, Application, CenH3[Cid], CenH3[CID], Open Source Softwares, Search Engines, proportion, F15E12_6, positional, iones., scatter factor receptor, Software Application, iones, Elektron, ipp2a2, Open Source Software, Acetylations, DmelCG13329, 2pp2a, ions, man, CG10574, AUTS9, Computer Software Application, OCTD, X-linked combined immunodeficiency, 2PP2A, 2-amino-4-(methylthio)butanoic acid, Tools, 10^[-6], taf-ibeta, DmelCG12352, has or lacks parts of type, Nat5, NAT5, dSET, dSet, CG2125, site, peptidos, AI838057, metionina, span, combined immunodeficiency, Applications Software, serine, Open Source, data, Computer Software, DL-Methionine, protein complex, mak3, igaad, Phosphorylations, cenH3, Peptide, Engine, Tool, mereological quality, polypeptide, AW112078, Serin, Software Tool, CAD, Immune Tolerance, native protein, natural protein, I-2PP2A, ci[D], Ci155, Dm I-2, Protein, I2PP2A, A530094C12Rik, MFS1, Software, WMS2, MET, Met, ATCMPG1, ATCMPG2, San, SAN, DmelCG2125, ci155, CenH3, negatron, INSDC_feature:misc_binding, tyrosine-protein kinase Met, Engineering, beta, Computer Programs, san, dSET/TAF-Ibeta, 2610030F17Rik, Applications Softwares, binding_or_interaction_site, AVIEF, Ion, SSKS, cardinality, quotient, alpha-amino-gamma-methylmercaptobutyric acid, Peptid, Par4, Mak3, AA407739, 5730455C01Rik, CenpA/CID, SF receptor, MAK3, Immunological Tolerance, CID/CENP-AForms, HSN1E, determination, urticaria pigmentosa, protein, rima oris, element, Classifications, peptide, Polypeptides, protein polypeptide chains, hierarchies, hierarchy, peptido, diseases, systematics, medulla ossea, diseases and disorders, establishment and maintenance of substrate location, Analysis, protein aggregate, Cutaneous mastocytosis (disorder), chronic myeloproliferative disorder, organ, Mass Spectrum Analysis, human disease, peptides, vestibulum oris, Analyses, activation inducer molecule, mouth cavity, Tissue, alimentary tract, iecur, U, proteins, Tissue Basophils, number of, SM, free, HPLC, Red Marrow, method used in an experiment., chronic myeloproliferative disorders, CM, Red, SMCD - systemic mast cell disease, Homo sapiens disease, mastocytosis, 2610009E16Rik, associated, alimentary system, systemic tissue mast cell disease, GI Tracts, establishment and maintenance of substance location, myeloproliferative tumor, Systematics, Salivas, extra or missing physical or functional parts, Spectrum Analysis, Spectroscopy, Taxonomies, single organism localization, cavitas oris, soluble, systemic mast cell disease, Diseases, myeloproliferative disorder, Mast cell disease, cavum oris, Digestive Tract, ParaT, early T-cell activation antigen p60, gastrointestinal tract, ADCADN, Digestive Tracts, medulla of bone, Spectrometry, lien, Tissue Basophil, systemic tissue Mast cell disease, GI tract, chronic myeloproliferative neoplasm, human, disease, Patient, gastrointestinal system, Cells, vestibule of mouth, Gastrointestinal Tracts, Polypeptide, Agressive systemic mastocytosis, oral cavity, Bone, CD69, Proteomes, GI Tract, establishment and maintenance of cellular component location, Cutaneous, MPD, gastrointestinal (GI) tract, other disease, human being, MPN, taxonomy, number, chronic myeloproliferative disease, EA1, Gene, Spectrum Analyses, MLR-3, protein-containing complex, presence, myeloproliferative neoplasms, jecur, method, AIM, systemic mastocytosis with associated hemotologic non-mast cell lineage disease (SM-AHNMD), polypeptide chain, IT, Marrow, establishment and maintenance of position, Mass, saliva molecularis, Gene Products, Mast, disease or disorder, Yellow, early activation antigen CD69, Mass Spectroscopy, Mastocytosis, Taxonomy, Basophil, saliva atomaris, bucca, gastroenterological system, ESI, man, non-neoplastic, oral vestibule, gastro-intestinal system, leukocyte surface antigen Leu-23, anatomical unit, Clients, body organ, has or lacks parts of type, cavity of mouth, C-type lectin domain family 2 member C, disorder, peptidos, oral fissure, Mast Cell, systemic mastocytosis, protein complex, Proteins, disorders, DNMT, total expressed protein, medical condition, MCMT, Client, chronic, Cell, Peptide, mereological quality, BL-AC/P26, polypeptide, count in organism, native protein, medulla ossium, natural protein, Protein, chemical analysis, condition, establishment and maintenance of localization, NCI CTEP SDC Chronic Myeloproliferative Disease Sub-Category Terminology, Basophils, mast cell hyperplasia, buccal cavity, Mass Spectrum Analyses, CXXC9, CMPD, Mass Spectrum, Yellow Marrow, medullary bone, patient, single-organism localization, Protein Gene Products, plan specification, Livers, Gene Proteins, localisation, GP32/28, salivary gland secretion, cardinality, MAST cell disease, Peptid, assay, sailva normalis, quantitative, myeloproliferative neoplasm, CLEC2C, presence or absence in organismForms, the integument, P-B, MA387, Inflammations, pelt, Skn-li, nonspecific immune response, cysteine protease inhibitor activity, Cavity, urticaria pigmentosa, protein, cavital oralis, rima oris, Downregulation, Classifications, peptide, Polypeptides, protein polypeptide chains, Cavitas Oris, Personal, hierarchies, hierarchy, peptido, ClvPrd, diseases, Roles, MIF, systematics, medulla ossea, L-Proline, Concepts, diseases and disorders, Oral Cavity, protein aggregate, PROL3, Oral Cavity Proper, integumentum commune, chronic myeloproliferative disorder, human disease, tissue basophil, inflammatory response, L1Ag, peptides, vestibulum oris, mouth cavity, Tissue, dermoid system, entire skin, U, proteins, Cavitas oris propria, inhibition of homeostatic process, free, adult mouth, 60B8Ag, Red Marrow, Vestibule Oris, MRP8, Mrp8, chronic myeloproliferative disorders, data., cathepsin, Otf11, Fam91a1, Role Concepts, Red, homeostasis, oral orifice, Homo sapiens disease, mastocytosis, associated, AV220772, skin and subcutaneous tissue, 60B8AG, aberrant, myeloproliferative tumor, Systematics, Up-Regulation (Physiology), integumental organ, Thymosin Fs, Taxonomies, cavitas oris, Role Concept, Receptor Down-Regulation, positive regulation of homeostatic process, CP-10, BC033609, Diseases, myeloproliferative disorder, Role, Mast cell disease, cavum oris, PBII, Defensin, CGLA, fam:CTS, stoma, medulla of bone, Upregulation, PRL3, Dignity, pooled, AI323541, labrocyte, chronic myeloproliferative neoplasm, mKIAA0493, B8Ag, disease, vertebrate epidermis, Patient, vestibule of mouth, Thymosins, mouth, Polypeptide, entire integument, oral cavity, dermal system, Innate, Bone, Proteomes, MPD, dermis plus epidermis plus hypodermis, atypia, Inflammatory Response, other disease, region of skin, Respect, MPN, taxonomy, Peptidomics, Otf-11, chronic myeloproliferative disease, Gene, truncate, protein-containing complex, epidermis, myeloproliferative neoplasms, regio oralis, stomatodaeum, polypeptide chain, Marrow, Gene Products, disease or disorder, Vestibule of the Mouth, atypical, Yellow, Skn-1a, study, Taxonomy, skin, Oral, Receptor Up-Regulation, Up Regulation, Mouth Cavity Proper, inflammation, SKIN, oral vestibule, non-neoplastic, skin organ, Innate Inflammatory Response, Clients, L Proline, Personal Respect, negative regulation of homeostatic process, disorder, peptidos, trophic apparatus, oral fissure, Autoregulation, Oct-11a, protein complex, Proteins, disorders, total expressed protein, histaminocyte, skin zone, innate immunity, defective, medical condition, Client, chronic, Peptide, mastocyte, Down Regulation, Concept, polypeptide, skin plus hypodermis, Down-Regulation, skin region, Oct11, CAGA, native protein, medulla ossium, natural protein, oral part of face, Down-Regulation (Physiology), Protein, condition, NCI CTEP SDC Chronic Myeloproliferative Disease Sub-Category Terminology, Skin-1a, tegument, regulation of homeostatic process, Skin, mast cell hyperplasia, buccal cavity, CMPD, Yellow Marrow, Caga, p8, medullary bone, vertebrate integument, Cathepsin, CFAG, cystatin, oral region, SMR1B, Epoc-1, Protein Gene Products, Gene Proteins, portion of skin, activation of homeostatic process, P8, integument, NIF, Innate Inflammatory Responses, MAST cell disease, Peptid, Receptor, CFAg, thiol protease inhibitor, myeloproliferative neoplasmprotein complex, Proteins, Gene, proteins, urticaria pigmentosa, protein, ESI, protein-containing complex, HPLC, Protein Gene Products, Gene Proteins, protein polypeptide chains, Client., native protein, natural protein, polypeptide chain, Patient, Clients, Protein, Gene Products, MAST cell disease, Mast cell disease, mastocytosis, protein aggregate, mast cell hyperplasiafalseHPLC-ESI-MS PROFILE OF SALIVARY PROTEINS IN MASTOCYTOSIS PATIENTSMastocytosis is a myeloproliferative neoplasm characterized by infiltration of clonally derived mast cells in different tissues. According to mast cells localization, it is possible to discriminate cutaneous mastocytosis (CM) from systemic mastocytosis (SM), the latter involving at least an extracutaneous organ, like bone marrow, liver, spleen and gastrointestinal tract. Some of the SM patient can develop also cutaneous lesions (SM+C). Disease classification is often tricky. Oral cavity is commonly involved in the symptomatology. With the aim to highlight possible qualitative/quantitative modifications of the salivary proteome associated to the different forms of the disease, we investigated the protein profiles of CM, SM, and SM+C patients, and healthy controls, by integrated top-down platforms. a top-down proteomic platform, based on high performance liquid chromatography separation coupled to electrospray-ion trap mass spectrometry (HPLC-ESI-IT-MS) analysis of the acidic soluble proteome of human saliva, which was standardized in our previous studies for detecting and quantifying of hundreds salivary peptides/proteins. By this approach, it is possible to obtain a profiling of the naturally occurring salivary proteome, including isoforms and post-translational modifications (PTMs), to compare an unlimited number of samples and to quantify proteins aby a label-free method.2020-06-252020-02-27PXD017759280655164609918049829535851114513335244224942024527872842188090368093270429330845811363336351524260119834300662758385NCBITaxon:12806888856189611143011872635555711452623649346136403195206512695736664923916197467073853883641135461582158231066568895390531136364762721123294422291180992323122586365458333460792519365914320597129386558195851149315242592637371250232NCBITaxon:12721119577481866148858431043002451358672256807617554373592540816918045426683429531945305861266835149822505814963674452158554528113208147956410039237514636942049433208964208963445974137979138712728384400667203275453293529367156759388036478434643867716052165994048321659721659545501315282693042165915627161696833916243218321729204277944762376454317203094980197525556978159509439843948840479NCBITaxon:2157525338551531051067439899037122857759515205968762262311210884555588845587077918178081736309431796758144571698936160488409859NCBITaxon:371621047826794015059071483643204210613204913816936303555432046632633311994565453511025411103217459216129264201288676410026420369456941016763410210761277351524867131658239254727933428146135843014172987609174633457744491675476048932128735675684030135062191726518130194111929439367110411310239320255598632582788396591047594120347495109716049016529983552566366817585439801102432608663102459808757417555183201964471452680457966313670190832331156114155355104219325552113834397634981812359871069955529NCBITaxon:4751850298335476113615741465477180066556484337677144137929976798251021699823897641400820840741400821137351155711089725482444474153NCBITaxon:50557899698446752510003646534933414714749354801946751299114359741276473137086326547876565893639835322159589366983819201110677577271034819852348780265554479464098609958615718717668599191572951372211711012929210768783497419860202809392499148840633424923423515233598598865591324974649987039202111072943311711393635272159874190850371170827117082841823502414511396929319021978224746360461471237472269402375939723287581722532566481219071905079452659600131972211915853101774208588596NCBITaxon:615750521028307989515586411051989972375059576131720002634196102641088878176179212190659407121906772275885815689964975151950582873757244NCBITaxon:22023717NCBITaxon:170361220199985705060506172407476792745062724915961533355433355418400524643213686150596487844612286662941786661347515363291018194301086731018510184NCBITaxon:1763573039635586331492862876705801321650852718481865368595105135553482260710185687294296110091416333NCBITaxon:619184023210007348824123363630710470058127187878645159812894555663577553470951451225786425011449447260704NCBITaxon:13356262607052607076584574054163677483167233150561007133705654195NCBITaxon:305550445791399878168119011928752829126806315327341478281055524NCBITaxon:960613585846900811116781502283051930283672859300852900561742NCBITaxon:569382688306401794699151011849952622543525875913151590144824283811139442258441604193704759272120441437086042328167728503515819901195195326738637013702492405360883858162248839432186156227748817562615835583715333760572671193501998086119350216787910857913711371272407190650371475917262981288057125627457572709030903113335503728142433747924910078711082NCBITaxon:96157243359463318586260799141262200298147802492670NCBITaxon:12637192812492125283038568385695911692661006581373523756127504542666255151978813566383750644223360094129349790546322455525363524721401257515115199764990851515143899237453747445446415243235937605920222887051580595536555088157932716029385157811497863389229382894535936479437509173NCBITaxon:6854412754225117752991590109013416738715895521012966103061296715851584515849376593934327159100226376733889147923590461423451287689591198332966467041464792936576164280341160221641331599280382803536909108917688149894621812141080348179392287889295027113133295282829445686174934681911265269972273218903821076012471904007271597369978281143114020641198108713554774365814245072295337969820423212422312916321803347087145372091645733215358157546266940401379928777020206032811431933829355083329129221148643745725264999728303573908718308726727103790855071762997076789268370415573729214053651388294128160783956392431426265489822737756115596207322086595882735551693605330797255181135491432137159749535026115955614321384060725878141447335215094933491949634016143347280059360463164610466076290338151845474485003567097477265669771951240174841855601335755547920427415805360769946881037620148873297261005941200375828909316435428268314256850071230383990013894649408382835941442423221978542337742171598921409212205853939621157781154756929793244704749906604162103591905158114452749907312987779913112273170187546991103589915NCBITaxon:3729610360983341871049113079813367953164072994671034015786582645303337330638301130641399253064236365059116965478854698112116203431765261610337286129940445862073401153571119529652611745531114716133865413131663430552132312017983602532373127612552329935129938505731631764261979401151345844577267872862321933415134618620862116079139222798351681196125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