{"database":"MassIVE","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://massive-ftp.ucsd.edu/v05/MSV000091319/"]},"type":"primary"},"statusCodeValue":200,"statusCode":"OK"}],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":0,"searchCount":0},"additional":{"submitter":["Reinaldo Salomao","Giuseppe Leite"],"full_dataset_link":["https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=c7d286c99d234bc789b116ca199a6557"],"submitter_email":["rsalomao@unifesp.br","giuseppe.gianini@unifesp.br"],"sample_protocol":[""],"repository":["MassIVE"],"file_size":["37"],"ptm_modification":["UNIMOD:737 - \"Sixplex Tandem Mass Tag.\""],"data_protocol":[""],"omics_type":["Proteomics"],"instrument_platform":["Orbitrap Fusion Lumos"],"species":["Homo Sapiens (ncbitaxon:9606)"],"submitter_affiliation":["Escola Paulista de Medicina/UNIFESP"],"description_synonyms":["Methane, host organism, Nasopharynxes, Rhinopharynges, Peripheral Blood Mononuclear Cells, determination, Participants, positive regulation by symbiont of host non-apoptotic programmed cell death, Virus Infection, 2019 novel coronavirus, Visible Light, protein, Human Volunteers, Virus Disease, 2019 nCoV Disease, trichloro-, Healthy Subjects, protein polypeptide chains, vetispiradiene-forming) activity, sampling sponge, Normal Volunteers, 2019-nCoV Disease, responsivity, hnu, trans-farnesyl-diphosphate diphosphate-lyase (cyclizing, pathogenesis, Impacts, Peripheral Blood Mononuclear Cell, Participant, Software Engineering, Polymerase Chain, Analysis, Environmental Impacts, protein aggregate, COVID 19 Pandemic, foton, WMS, Computer Program, wood alcohol, trans, stimulation by symbiont of host programmed cell death, Analyses, Open, Coronavirus Disease 2019, Inverse Polymerase Chain Reaction, Computer Programs and Programming, chemical analysis., Coronavirus Disease-19, Normal Volunteer, proteins, epipharynx, beta-CoVs, Human Volunteer, Rhinopharynxes, Environmental Impact, TNFSF14, Mononuclear, Mononuclear Leukocytes, Healthy Participants, Reaction, Normal, sample, Sodium Methoxide, GPHYSD2, COVID 19 Virus Disease, gamma, SGS, 2019-nCoV Infections, Anchored Polymerase Chain Reaction, β-CoV, Radiation, Alcohol, UNQ391/PRO726, SARS-CoV-2, pemnaspirodiene synthase activity, Hospitalizations, Light, 2019 Novel Coronavirus Disease, Choanae, 2019 nCoV Infection, COVID 19 Virus Infection, PBMC Peripheral Blood Mononuclear Cells, PBM, not genetically inherited, Subjects, Source Softwares, Volunteers, Software Tools, ACMICD, Programs, Program, Computer Applications, TPSG1, S-adenosyl-L-methionine:thiol S-methyltransferase activity, LIGHT, Computer Applications Software, modulation by symbiont of host system process, Computer Applications Softwares, Coronavirus, COVID-19 Virus Infections, Softwares, Carbinol, PCR, carbinol, Visible Radiations, Healthy Participant, Visible Radiation, specimen sponge, Software Applications, HVEML, Pandemic, Nested Polymerase Chain Reaction, Phytobacteriomycin KJ, Source Software, MASS, polymerase chain reaction, Trichloromethane, data analysis, Wood, Applications, light quantum, Patient, spirit of wood, activation by symbiont of host programmed cell death, PRSS31, Subject, 2019 Novel Coronavirus Infection, 2019-nCoV Diseases, TMT, Methyl Alcohol, Computer Software Applications, COVID19, Healthy Volunteer, HVS, Peptidomics, regulation by symbiont of host system process, COVID-19, number, FBN, Gene, COVID-19 Virus Diseases, Methyl, Polymerase Chain Reactions, CH3OH, Computer, Inverse, protein-containing complex, Methylalkohol, presence, Ly113, surface wipe, Human, Inverse PCR, polypeptide chain, induction by organism of non-apoptotic programmed cell death in other organism during symbiotic interaction, ECTOL1, SARS CoV 2 Infection, vetispiradiene-forming farnesyl pyrophosphate cyclase activity, Gene Products, Severe Acute Respiratory Syndrome Coronavirus 2 Infection, Wood Alcohol, β-coronavirus, 2019-nCoV, Application, portion of blood, absorbant pad, reactivity, Open Source Softwares, β-CoVs, Lichtquant, Software Application, COVID-19 Virus Infection, Rhinopharynx, Open Source Software, severe acute respiratory syndrome coronavirus 2, labeling, causes, Visible, SARS-CoV-2 Infection, Computer Software Application, OCTD, COVID-19 Virus, data processing, Tools, wood naphtha, Mononuclear Leukocyte, Clients, sample pad, causality, photon, TR2, Anchored PCR, vetispiradiene cyclase activity, SARS Coronavirus 2 Infection, thiol methyltransferase activity, Applications Software, Open Source, Disease, Leukocyte, Coronavirus Disease 19, activation by organism of non-apoptotic programmed cell death in other organism, Computer Software, whole blood, beta-CoV, hemolysin activity, protein complex, vertebrate blood, Proteins, Methyl alcohol, SARS-CoV-2 Infections, CD258, Nasenrachenraum, Hospital, Client, polysponge, Cell, Tool, Impact, COVID-19 Virus Disease, 2019-nCoV Infection, Environmental, count in organism, Software Tool, native protein, natural protein, Protein, Infection, swab, MFS1, Sodium, MeOH, Software, WMS2, Radiations, Peripheral Blood Human Mononuclear Cells, Anchored, Volunteer, betacoronavirus, Disease 2019, Reactions, Nested, HVEM-L, Healthy Subject, Photoradiation, Engineering, Nasopharynges, COVID-19 Pandemics, COVID-19 Pandemic, sample population, SARS-coronavirus 2, LTg, Healthy, Protein Gene Products, Computer Programs, Gene Proteins, Photoradiations, Applications Softwares, Data, wood spirit, SSKS, Environments, Nested PCR, assay, response, COVID 19, Data Analyses, Methoxide, pars nasalis pharyngis"],"name_synonyms":["liquid chromatography tandem mass spectroscopy, LC-MS2, COVID19, Disease, Coronavirus Disease 19, β-CoV, beta-CoV, Proteins, COVID-19, LC-MS/MS, SARS-CoV-2, Gene, Virus Infection, COVID-19 Virus Diseases, 2019 novel coronavirus, 2019 Novel Coronavirus Disease, SARS-CoV-2 Infections, 2019 nCoV Infection, COVID 19 Virus Infection, Virus Disease, 2019 nCoV Disease, LC-MS-MS, COVID-19 Virus Disease, 2019-nCoV Infection, TPSG1, S-adenosyl-L-methionine:thiol S-methyltransferase activity, LC/MS/MS, Client., 2019-nCoV Disease, LC-MSMS, Protein, SARS CoV 2 Infection, Gene Products, Infection, Severe Acute Respiratory Syndrome Coronavirus 2 Infection, Coronavirus, COVID-19 Virus Infections, β-coronavirus, 2019-nCoV, COVID 19 Pandemic, β-CoVs, LCMSMS, betacoronavirus, Disease 2019, Pandemic, COVID-19 Virus Infection, Coronavirus Disease 2019, severe acute respiratory syndrome coronavirus 2, labeling, Coronavirus Disease-19, COVID-19 Pandemics, SARS-CoV-2 Infection, COVID-19 Pandemic, beta-CoVs, SARS-coronavirus 2, Protein Gene Products, Gene Proteins, COVID-19 Virus, Patient, liquid chromatography-tandem mass spectroscopy, Clients, PRSS31, liquid chromatography tandem mass spectrometry, 2019 Novel Coronavirus Infection, 2019-nCoV Diseases, TMT, COVID 19 Virus Disease, SARS Coronavirus 2 Infection, COVID 19, thiol methyltransferase activity, 2019-nCoV Infections"],"citation_count":["0"],"additional_accession":["PXD040245"]},"is_claimable":false,"name":"TMT labeling and LC-MS/MS strategy to quantify differentially abundant proteins among COVID-19 patients","description":"Coronavirus Disease 2019 (COVID-19) is characterized by a dysregulated host response. Proteomic studies have shed light in its complex pathogenesis, but there are few studies using cells, such as peripheral blood mononuclear cells (PBMCs). Here, we used TMT-based quantitative proteomics to characterize PBMCs from COVID-19 patients along their clinical course.  Blood samples were collected prospectively from 29 patients with COVID-19 (confirmed by PCR in a nasopharynx swab) and 11 healthy volunteers (HVs), between May and September 2020. Samples were obtained at the first day of admission (D0; n=30), after seven days of hospitalization (D7; n=17), and 31 days after hospital discharge (Convalescent Sample; CS30; n=15). Protein extraction, quantification, reducing/alkylating, methanol/chloroform precipitations, digestion, and TMT Labeling were performed in PBM. The mass spectrometric data were acquired in a Orbitrap Fusion Lumos and data analysis was performed in Proteome Discoverer and imported to the R software environment for further analysis. ","dates":{"publication":"Fri Feb 17 12:18:00 GMT 2023"},"accession":"MSV000091319","cross_references":{}}