{"database":"MassIVE","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://massive-ftp.ucsd.edu/v05/MSV000091650/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":0,"searchCount":0},"additional":{"omics_type":["Proteomics"],"submitter":["Michael Marty"],"instrument_platform":["Q Exactive UHMR"],"species":["Adeno-associated Dependoparvovirus A (ncbitaxon:1511891)"],"full_dataset_link":["https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=50b76c9932624d69a5bc621d5053e870"],"submitter_email":["mtmarty@arizona.edu"],"submitter_affiliation":["University of Arizona"],"sample_protocol":[""],"repository":["MassIVE"],"file_size":["208"],"ptm_modification":["MS:1002864 - No post-translational-modifications are included in the identified peptides of this dataset"],"data_protocol":[""],"pubmed_abstract":["Adeno-associated virus (AAV) capsids are among the leading gene delivery platforms used to treat a vast array of human diseases and conditions. AAVs exist in a variety of serotypes due to differences in viral protein (VP) sequences with distinct serotypes targeting specific cells and tissues. As the utility of AAVs in gene therapy increases, ensuring their specific composition is imperative for the correct targeting and gene delivery. From a quality control perspective, current analytical tools are limited in their selectivity for viral protein (VP) subunits due to their sequence similarities, instrumental difficulties in assessing the large molecular weights of intact capsids, and the uncertainty in distinguishing empty and filled capsids. To address these challenges, we combined two distinct analytical workflows that assess the intact capsids and VP subunits separately. First, a selective temporal overview of resonant ion (STORI)-based charge detection-mass spectrometry (CD-MS) was applied for characterization of the intact capsids. Liquid chromatography, ion mobility spectrometry, and mass spectrometry (LC-IMS-MS) separations were then used for the capsid denaturing measurements. This multimethod combination was applied to three AAV serotypes (AAV2, AAV6, and AAV8) to evaluate their intact empty and filled capsid ratios and then examine the distinct VP sequences and modifications present."],"pubmed_title":["Characterizing Adeno-Associated Virus Capsids with Both Denaturing and Intact Analysis Methods."],"pubmed_authors":["Ryan Jack P JP, Kostelic Marius M MM, Hsieh Chih-Chieh CC, Powers Joshua J, Aspinwall Craig C, Dodds James N JN, Schiel John E JE, Marty Michael T MT, Baker Erin S ES"],"name_synonyms":["AAV, antineutrophil cytoplasmic antibody-associated vasculitis., ANCA-associated vasculitis"],"description_synonyms":["ZIP, Zip, MHC, determination, GPATCH6, e(-), DELTA AND GAMMA, Myo-II HC, electron, Computer, betaTub1, zip, Myo, B1t, Dm nmII, B-spec, CG8374, betaspec, Software Engineering, Computer Program, Application, CG15792, ZIPK, outer-doublet microtubules, Open Source Softwares, DmelCG3533, 0481/03, betatub(56D), kus, beta1tub, ZC3HDC9, CG9277, Myo-II, Myo2, EPB49, Software Application, zip/MyoII, Elektron, Open, beta[[1]] tubulin, beta1t, Open Source Software, Computer Programs and Programming, T, beta-particle, DROMHC, Computer Software Application, anon-EST:fe1B3, NMMII, 1t, e, e-, Tools, beta1Tub, SPEC8, NMM, DmnmII, CG5870, DmelCG8374, ZIP3, Myo II, l(2)02957, Applications Software, GPATC6, beta-tubulin56D, Spec-beta, Open Source, Dmbeta1, BETA 56D, Computer Software, ZC3H9, Tubulin, Mhc-c[1], E(br), i168, myoII, Source Softwares, Software Tools, Tool, Programs, s048103., Program, Computer Applications, Software Tool, l(1)G0108, nmMHC, chemical analysis, Computer Applications Software, Computer Applications Softwares, betaSpec, FLOWERING TIME CONTROL PROTEIN FCA ALPHA, Mhc-c, Softwares, b-Spec, Software, s048103, DmelCG15792, nzip, DLK, beta-tub, DmelCG5870, l(1)G0074, Software Applications, l(1)G0198, Beta <eudicots>, negatron, beta[[1]]-tubulin, anon-WO0118547.317, Source Software, Engineering, b spectrin, FCAALL.331, beta1, beta56D, DmelCG9277, KIAA1847, beta, beta1-tub, beta(-), DTB2, Tub, Computer Programs, beta-Tub, Applications, Osi, Applications Softwares, beta-spec, DMT, Dmt, i6, DL4180C, BETA, Dronm-MII, anon-WO0140519.37, CG3533, assay, MyoII, beta-Tub56D, Spec, betaTub, Specbeta, zpr, beta1-Tubulin, nmy-2, Computer Software Applications"],"pubmed_title_synonyms":["Adeno Associated Viruses, Dependoparvoviruses, Viruses, Procedures, determination, Adeno Associated, Adeno Associated Virus, Dependoparvovirus, Methodological, procedures, Procedure, Methodological Study, Study, Techniques, Adeno-Associated Viruses, Methodological Studies, Dependoviruses, Method, Isolation of Nuclei TAgged in specific Cell Types, chemical analysis, Virus, Studies, assay, techniques, methodology., Adeno-Associated, Technique, Adeno-Associated Virus"],"pubmed_abstract_synonyms":["big, other disease, Materials, human being, ion, Addresses, Proheads, Mbp1, Gene, protein, Spectrum Analyses, protein-containing complex, froggy, temporal, Gyltl1a, Human, protein polypeptide chains, large, Differential Mobility Analysis, Adeno-Associated Viruses, Homo sapiens, diseases, polypeptide chain, Prohead, Virus, Gene Products, Mass, Capsids, disease or disorder, diseases and disorders, AAV, Analysis, protein aggregate, myd, Man, Mass Spectroscopy, Mass Spectrum Analysis, treatment, human disease, Genetic, Man (Taxonomy), Viruses, Analyses, MDDGB6, iones, Tissue, Dependoparvovirus, Mbp-1, proteins, LARGE, ions, Charges, non-neoplastic, BPFD#36, Quality Controls, Fee, great, disease management, Therapies, disorder, Homo sapiens disease, Adeno-Associated, incidence, Procapsid, Therapy, Dependoparvoviruses, gyltl1b-b, protein complex, ANCA-associated vasculitis, Modern, Proteins, disorders, Liquid Chromatography, medical condition, Cistrons, Spectrum Analysis, Cell, Spectroscopy, MS, native protein, natural protein, Ionen, MDDGA6, mKIAA0609, Protein, IMS, Diseases, sequence, Genetic Materials, condition, Ion Mobility, KIAA0609, Adeno-Associated Virus, Genetic Material, Mass Spectrum Analyses, Differential Mobility, fg, Adeno Associated Viruses, Mass Spectrum, distinct., gyltl1b, distinct, Adeno Associated, Adeno Associated Virus, mdc1d, Control, expanded, Spectrometry, INSDC_feature:gene, Quality, Controls, Treatments, human, primary structure of sequence macromolecule, Protein Gene Products, Gene Proteins, disease, MDC1D, enr, Charge, Therapeutic, enlarged, Ion, Material, Dependoviruses, Isolation of Nuclei TAgged in specific Cell Types, Fees, Modern Man, Charges and Fees, microarray, Cistron, Treatment, Procapsids, humans, antineutrophil cytoplasmic antibody-associated vasculitis"],"citation_count":["0"],"additional_accession":[]},"is_claimable":false,"name":"AAV Orbitrap CD-MS for AAV2, AAV6, and AAV8","description":"CD-MS analysis collected on an Orbitrap UHMR. Note, this data was collected on a beta version of the DMT software and thus contains STORI files stored in separate zip files. The DMT files are also included as supplemental files, along with the UniDecCD processing parameters.","dates":{"publication":"Wed Apr 05 16:56:00 BST 2023"},"accession":"MSV000091650","cross_references":{"pubmed":["38010134"]}}