MassIVEapplication/xmlftp://massive-ftp.ucsd.edu/v09/MSV000097212/primaryOK200Arianne Caudalhttps://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=ee0071c049c54dd1bfa1bd63674dde91acaudal@stanford.eduMassIVE102UNIMOD:21 - "Phosphorylation."UNIMOD:4 - "Iodoacetamide derivative."UNIMOD:366 - "Deamidation in presence of O18."UNIMOD:35 - "Oxidation or Hydroxylation."ProteomicstimsTOF UltraHomo Sapiens (ncbitaxon:9606)Stanford UniversitySH2-Bb, IgG Antibody, DUbc9, IPP2A2, para Tyrosine, Protein Structure Database, LCD1, E 920, short stature, SOFT, Feature, BIGH3, cleavage, Irip, N-methylaminoacetic acid, Protein Sequence Database, L-Threonine, SDH, 2-amino-3-(1H-indol-3-yl)propanoic acid, ONR1, ratio-Tryptophan, NAALAdase, phosphorylation, cdb1, L-(+)-glutamine, soft, 2-Amino-3-hydroxypropionic acid, 5730420M11Rik, Protein Databases, NAALADase I, FOLH, L-Isomer Methionine, ratio Tryptophan, Lwr, Methionine, L-Glutaminsaeure-5-amid, Gamma Globulin, C530001K22Rik, 2, L-2-aminoglutaramic acid, betaig-h3, Trofan, PARq, 3.4.17.21, 2-amino-3-mercaptopropanoic acid, Cystein, lcd1, L-sarcosine, Threonin, SH2-B, DL-Asparagine, somitogenic mesoderm, C, SET, asparagina, Man (Taxonomy), Htrp, ATP-dependent proteolysis, Membrane glutamate carboxypeptidase, TAF-I, cisteina, M, N, CDB1, L-Asparagine, 2-amino-3-(4-hydroxyphenyl)propanoic acid, 3-(p-Hydroxyphenyl)alanine, D-Glutamine, Q, DMGDHL1, W, NAALAD1, L-Tryptophan, Y, Protein Degradation, ASN, bigh3, Folylpoly-gamma-glutamate carboxypeptidase, Asn, DmelCG4299, set, IGAAD, 2-amino-3-hydroxypropanoic acid, DmelCG10574, Ardeydorm, Tyr, SAR supergroup, onychodysplasia, Sequence Databases, Half Cystine, Racemethionine, Glutamin, CDGG1, PAR, phapii, L-Tryptophan-ratiopharm, Degradations, Zinc Cysteinate, SXR, unsegmented mesenchyme, Modern, csd2, csd3, PRR, 2-Amino-4-(methylthio)butyric acid, 2-Amino-3-(p-hydroxyphenyl)propionic acid, csd1, StF-IT-1, para-Tyrosine, SH2-B PH domain-containing signaling mediator 1, not genetically inherited, Cys, GIG27, Tyrosine, Sequence Database, IgG3, IgG4, 3-Hydroxyalanine, IgG1, IgG2, Digestion, PSM, Psm, hbl, Methionin, L isomer., PIX2, Hmet, Prostate-specific membrane antigen, presumptive somite mesoderm, (2R)-2-amino-3-sulfanylpropanoic acid, BXR, l(2)02858, L Glutamine, CSD3, alpha-Amino-beta-(3-indolyl)-propionic acid, CSD2, CSD1, l(2)05487, l(2)05486, Hgln, Pteroylpoly-gamma-glutamate carboxypeptidase, IgG, HLA-DR-associated protein II, DI-2, i56, FGCP, I-2Dm, Protein Digestions, L-isomer, EBMD, L-Cysteine, CG4299, 2-amino-3-carbamoylpropanoic acid, tryptophane, (S)-2, Features, ebmd, beta Trypsin, human, i105, L-Cystein, Protein Sequence, I-2PP1, L-glutamic acid gamma-amide, Pro-rich, cdg2, TAF-IBETA, beta-3-indolylalanine, Acetamide, IgG2A, IgG2B, GT, facial dysmorphism, Protein Database, cdgg1, PSMA, CDG2, L Serine, TAF-Ibeta, L-Tyrosine, L-Serine, i2pp2a, Liquimeth, 7S, Fibroblast, Gruppe, GLUTAMINE, SH2 domain-containing protein 1B, human being, Cysteine Hydrochloride, 2-amino-4-(methylsulfanyl)butanoic acid, triptofano, Immunoglobulin, 5-diamino-5-oxopentanoic acid, (methylamino)acetic acid, Degradation, unsegmented paraxial mesoderm, L-Zystein, L Isomer, Levoglutamide, Hasp, Database, (2S)-2-amino-4-carbamoylbutanoic acid, Protein Structure Databases, somitomeric mesoderm, PMS Tryptophan, GCPII, Tryptacin, L Tryptophan ratiopharm, PHAPII, and hypotrichosis, Human, Protein Sequence Databases, Glutaminsaeure-5-amid, Antibody, SARD, dip4, AI181842, Homo sapiens, MeGly, N-acetylated-alpha-linked acidic dipeptidase I, L-Methionine, Ubc 9, mKIAA1299, Half-Cystine, 2-Aminoglutaramic acid, xtgfbi, Man, Pedameth, AI747162, SH2B, AW108387, Immunoglobulin GT, IgG(T), DmelCG3018, PXR, L Cysteine, PMS-Tryptophan, (2S)-2, E-920, ipp2a2, beta-Trypsin, 68kDa, 2pp2a, SWISS PROT, mGCP, Hcys, L Threonine, Ubc-9, Protein Degradations, man, semi, CG10574, l(2)01519, Asparagin, methylaminoacetic acid, alpha-amino-beta-3-indolepropionic acid, 2PP2A, 2-amino-4-(methylthio)butanoic acid, CYSTEINE, L Tyrosine, grupos, taf-ibeta, Protein Structure, Structure Database, dSET, dSet, FREE CYSTEINE, L-Glutamine, Characteristics, Tyrosin, (2R)-2-amino-3-mercaptopropanoic acid, metionina, 2-iodo-, Naturruhe, SWISS-PROT, UBC9, grupo, big-h3, Ubc9, DL-Methionine, SwissProt, igaad, Phosphorylations, Trp, sarcosinic acid, Tryptophan Metabolism Alterations, L-2-Aminoglutaramic acid, N-Methylglycine, Protein Digestion, L-Isomer, Digestions, group, GCP2, Amino Acid Sequence, Glutamate carboxypeptidase II, Serin, Cell growth-inhibiting gene 27 protein, Characteristic, FBgn0010602, Proteolyses, 9830004M20Rik, I-2PP2A, tirosina, BPR-2, Protein, dUbc9, Dm I-2, dUBC9, I2PP2A, Glutamic acid 5-amide, ubc9, segmental plate, L-Glutamin, Amino Acid Sequence Databases, WDR51A, Mopsm, Sh2bpsm1, L Tryptophan, Zystein, Met, Tryptan, Ardeytropin, (methylamino)ethanoic acid, Beta-ig, SAR, Sar, PH and SH2 domain-containing signaling mediator, PRSS, Levotryptophan, ensemble, Glutamic acid amide, 2-amino-3-sulfanylpropanoic acid, Polyglobin, Optimax, Rest, Tripcellim, Databases, L-2-Amino-3-mercaptopropionic acid, CSD, (R)-2-amino-3-mercaptopropanoic acid, 4-diamino-4-oxobutanoic acid, 2-Amino-3-mercaptopropionic acid, Folate hydrolase 1, Lyphan, Trypure, dSET/TAF-Ibeta, 2-amino-4-carbamoylbutanoic acid, sar, 2610030F17Rik, D Glutamine, Dmubc9, Modern Man, glutamic acid gamma-amide, AI425885, 7S Gamma Globulin, alpha-amino-gamma-methylmercaptobutyric acid, Allerglobuline, E920, PAR2, csd, PAR1, Structure Databases, AA407739, groupe, CG3018, DmUbc9PXD061188falseWu Selective Inhibition of Matrix Mechanosensing AP-MSAP-MS of primary cardiac fibroblasts (Lonza, #CC-2904), 8 samples (n = 3 replicates per group): Undiff CF, MyoFb, TGFbi, Soft, Soft+TGFbi, SAR, SAR+TGFbi, IgG. The .d files acquired in data-independent mode were analyzed using Spectronaut v 19.1 (Biognosys AG, Schlieren, Switzerland) with the directDIA+ feature against the Uniprot Homo sapiens protein database. Proteolysis with Trypsin was assumed to be semi-specific, allowing for N-ragged cleavage with up to two missed cleavage sites, with a PSM false discovery rate (FDR) of 1%. Data filtering was based on the Q Value, and global normalization was utilized. Cysteine modified with iodoacetamide was set as a fixed modification. Variable modifications included oxidation of methionine and tryptophan, deamidation of asparagine and glutamine, and phosphorylation of serine, threonine, and tyrosine. Tue Feb 25 11:28:00 GMT 2025MSV000097212