GPMDB00146OtherChiasserini D, et al.InstrumentNot AvailableNot availableHomo_sapiens_viruses, Human24769233davide.chiasserini@unipg.ithttp://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000055http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000054http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000076http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000075http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000053http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000052http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000074http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000051http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000073http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000072http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000050http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000071http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000070http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000059http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000057http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000056http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000044http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000066http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000043http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000065http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000064http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000042http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000041http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000063http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000062http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000061http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000060http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000049http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000048http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000069http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000047http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000046http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000068http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000067http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000045OncoProteomics Laboratory, Department of Medical Oncology, VU University Medical Center, AmsterdamNot availableGPMDBExtracellular vesicles (EVs) are present in human cerebrospinal fluid (CSF), yet little is known about their protein composition. The aim of this study is to provide a comprehensive analysis of the proteome of CSF EVs by electron microscopy and high resolution tandem mass spectrometry (MS/MS) in conjunction with bioinformatics. We report an extensive catalog of 1315 proteins identified in EVs isolated from two different CSF pools by ultracentrifugation, including 230 novel EV proteins. Out of 1315 proteins, 760 were identified in both CSF pools and about 30% of those were also quantitatively enriched in the EV fraction versus the soluble CSF fraction. The proteome of CSF EVs was enriched in exosomal markers such as alix and syntenin-1, heat shock proteins and tetraspanins and contained a high proportion of brain-derived proteins (n=373). Interestingly, several known biomarkers for neurodegenerative diseases such as the amyloid precursor protein, the prion protein and DJ-1 were identified in the EV fractions. Our dataset represents the first comprehensive inventory of the EV proteome in CSF, underscoring the biomarker potential of this organelle. Further comparative studies on CSF EVs isolated from patients diagnosed with neurological disorders are warranted. Data are available via ProteomeXchange with identifier PXD000608. Biological significance In this study we analyzed the protein composition of extracellular vesicles isolated from pooled samples of human cerebrospinal fluid (CSF). CSF is a colorless fluid surrounding the brain and the spinal cord, important for the physiology of the central nervous system, ensuing mechanical protection, regulation of brain blood flow and elimination of byproducts of the brain. Since brain (patho)physiology is reflected in CSF, this biological fluid represents an ideal source of soluble and vesicle-based biomarkers for neurological diseases. Here we confirm the presence of exosome-like extracellular vesicles in CSF, underscoring a potential role in the physiology of the brain. These extracellular vesicles provide a rich source of candidate biomarkers, representing a brain "fluid biopsy". Most interestingly, the involvement of extracellular vesicles in transferring toxic proteins such as α-synuclein and β-amyloid has been postulated as one of the mechanisms involved in the spreading of neurodegeneration to different brain areas. In line with this, we show that human CSF extracellular vesicles contain prionogenic proteins such as the amyloid precursor protein and the prion protein. Delineating the protein composition of extracellular vesicles in CSF is a first and crucial step to comprehend their origin and their function in the central nervous system and to establish their biomarker potential.Proteomic analysis of cerebrospinal fluid extracellular vesicles: a comprehensive dataset.Chiasserini Davide D,van Weering Jan R T JR,Piersma Sander R SR,Pham Thang V TV,Malekzadeh Arjan A,Teunissen Charlotte E CE,de Wit Heidi H,Jiménez Connie R CR,Chiasserini Davide D, van Weering Jan R T JR, Piersma Sander R SR, Pham Thang V TV, Malekzadeh Arjan A, Teunissen Charlotte E CE, de Wit Heidi H, Jiménez Connie R CRData Set., Cerebro Spinal Fluid, Exovesicles, Apoptotic Body, Bodies, Apoptotic Bodies, Fluids, Vesicles, Cerebrospinal Fluids, spinal fluid, CSF, Extracellular Vesicle, Cerebro, Body, Spinal Fluid, Cerebrospinal, Vesicle, Cerebro Spinal Fluids, Spinal Fluids, Fluid, cerebral spinal fluid, Extracellular, Apoptotic, proteomic analysis, Cerebro Spinal, liquor cerebrospinalis, ExovesicleCerebro Spinal Fluid, APR, CSF2, data, human being, Exovesicles, HSN1E, determination, Tandem, LRP, Apoptotic Body, Bodies, Apoptotic Bodies, DNMT, Vesicles, Fluids, APOER, Cerebrospinal Fluids, EA1, GM-CSF, Extracellular Vesicle, spinal fluid, Homo sapiense, MCMT, MLR-3, Spinal Fluid, Vesicle, Cerebrospinal, Cerebro Spinal Fluids, BL-AC/P26, Electron Microscopy, Spinal Fluids, Homo spaiens, AIM, CD91, Homo sapien, Fluid, cerebral spinal fluid, Homo sapian, Sargramostim, Homo sapians, Apoptotic, chemical analysis, colony-stimulating factor, Cerebro Spinal, TGFBR5, liquor cerebrospinalis, Homo sapeins, early activation antigen CD69, Exovesicle, GMCSF, CXXC9, early T-cell activation antigen p60, study, ADCADN, Homo sapients, activation inducer molecule, NOXA, molgramostin, Humo sapiens, present in organism, Mass Spectrometry, CSF, Mass Spectrometry-Mass Spectrometry, Colony-stimulating factor, Csfgm, Cerebro, man, Homo sapines, Body, human, sargramostim, Homo spiens, Molgramostin, leukocyte surface antigen Leu-23, "human" EXACT genbank_common_name [], A2MR, Homo sapience, GP32/28, Homo sampiens, Extracellular, LRP1A, C-type lectin domain family 2 member C, Mass Spectrometry Mass Spectrometry., assay, Home sapiens, CD69, Proteomes, CLEC2C, IGFBP3RData Set., Cerebro Spinal Fluid, Exovesicles, Apoptotic Body, Bodies, Apoptotic Bodies, Fluids, Vesicles, Cerebrospinal Fluids, spinal fluid, CSF, Extracellular Vesicle, Cerebro, Body, Spinal Fluid, Cerebrospinal, Vesicle, Cerebro Spinal Fluids, Spinal Fluids, Fluid, cerebral spinal fluid, Extracellular, Apoptotic, proteomic analysis, Cerebro Spinal, liquor cerebrospinalis, ExovesicleHP95, Viral Marker, Biological Markers, Entire brain, Surrogate Endpoints, Terminalis, Medullari, HSN1E, determination, Tandem, Laboratory, Blood, Cerebrospinal Axis, Biochemical, Neurologic Diseases, Endpoint, Aip1, Extracellular Vesicle, AIP1, Neurologic Degenerative Condition, Organelle, Homo sapiense, Serum, fluid, Mass Spectrometry Mass Spectrometry, central nervous system degenerative disorder, Neurodegenerative Diseases, Central Nervous, Laboratory Markers, encircling, Homo sapien, cerebral spinal fluid, Nervous Systems, Neurologic Disorders, Roles, Biological, Homo sapians, Concepts, liquor cerebrospinalis, extracellular vesicular exosome, synganglion, Tentorium Cerebelli, spinal cord structure, Nervous System Degenerative Diseases, Spinali, fissura cerebro-cerebellaris, Homo sapients, Degenerative Condition, Biopsies, Dj1, Coccygeal, activation inducer molecule, HEL-S-67p, Eig2, PTPSTEP, molgramostin, present in organism, Mass Spectrometry, proteins, Conus Medullaris, suprasegmental levels of nervous system, Substance, Neurodegenerative Disorder, Amyloid, Falx Cerebrus, Conus, Immune, Conus Terminali, Markers, Coccygeal Cords, Homo sapience, Degenerative Neurologic Disease, DJ1, Viral Markers, Role Concepts, Neurologic Degenerative Disease, Home sapiens, ratio, Cerebro Spinal Fluid, Spinal Cords, ALIX, Cerebelli, suprasegmental structures, Viral, Surrogate Endpoint, Data Set, DJ-1, enclosing, Heat Shock Protein, Sacral Cords, Medullaris, Biochemical Markers, fissura cerebrocerebellaris, Biologic Marker, Tentorium Cerebellus, brain structure, Central Nervous Systems, CAP1, Cerebro Spinal Fluids, Electron Microscopy, Amyloid Fibrils, Alix, Role Concept, blood cells, count, soluble, Medulla, Homo sapian, Marker, wrapping, Apoptotic, Myelon, membrane-enclosed vesicle, Diseases, 3.1.3.48, Role, mKIAA1375, Sacral Cord, cerebrocerebellar fissure, early T-cell activation antigen p60, ADCADN, Amyloid Substance, End Points, systema nervosum centrale, Degenerative Diseases, Step, System, Encephalon, proportionality, pooled, Cerebri, rate, Lumbar Cords, Striatum-enriched protein-tyrosine phosphatase, Immunologic, unpigmented, Neurologic Disease, Colony-stimulating factor, Csfgm, Laboratory Marker, Cerebro, Homo sapines, human, Patient, Biochemical Marker, Degenerative, STEP, Axi, CD69, Proteomes, exosome, the brain, Comparative Studies, Brain, CSF2, Stress Proteins, Cerebellus, human being, Exovesicles, Coccygeal Cord, Apoptotic Body, Bodies, Clinical Markers, Clinical Marker, number, Vesicles, Degenerative Neurologic Disorders, EA1, Gene, GM-CSF, MLR-3, Encephalons, presence, Cerebrospinal, Surrogate End Points, Surrogate Markers, Homo spaiens, AIM, central nervous system, colony-stimulating factor, Gene Products, body fluid, Cerebro Spinal, AI480591, Entire spinal cord, early activation antigen CD69, cerebro-cerebellar fissure, Tentorium, GMCSF, portion of blood, Thoracic Cord, study, proportion, Nervous System, Heat Shock Proteins, Clinical, CNS, Brains, Synuclein, Biological Marker, man, Neurodegenerative Disorders, Myelons, sargramostim, Neurologic, Molgramostin, leukocyte surface antigen Leu-23, Immunologic Markers, Entire central nervous system, AW544830, circulating cells, Neurologic Degenerative Diseases, SpC, Neural-specific protein-tyrosine phosphatase, Homo sampiens, Clients, Extracellular, Degenerative Neurologic Diseases, Sacral, C-type lectin domain family 2 member C, Spinal Cord, biological marker, biological marker., Immunologic Marker, DRIP4, SP22, membrane-bounded vesicle, Biologic, Terminali, data, Neurologic Disorder, Falx, neuraxis, whole blood, Central, vertebrate blood, Apoptotic Bodies, Proteins, Serum Markers, DNMT, Cords, Fluids, End Point, Cerebrospinal Fluids, medulla spinalis, spinal fluid, function, MCMT, encephalon, Client, Spinal Fluid, Cord, Immune Marker, Vesicle, Concept, Degenerative Neurologic Disorder, BL-AC/P26, polypeptide, Spinal Fluids, count in organism, Fluid, Cerebrus, Conus Medullari, Sargramostim, Surrogate End Point, chemical analysis, Protein, cerebrospinal axis, Systems, Heat-Shock Protein, Homo sapeins, Exovesicle, Biologic Markers, CXXC9, Degenerative Conditions, Cerebrospinal axis, Serum Marker, Thoracic Cords, Peripheral Blood, Falx Cerebri, Surrogate, Endpoints, Humo sapiens, Spinalis, Neurologic Degenerative Conditions, CSF, Mass Spectrometry-Mass Spectrometry, Conus Terminalis, circulating cell, Neuraxis, Body, Surrogate Marker, Axis, Protein Gene Products, Reticuloendothelial System, Gene Proteins, spinal medulla, Homo spiens, "human" EXACT genbank_common_name [], Fibrils, GP32/28, Cerebrospinal Axi, quotient, Spinal, Neurodegenerative Disease, Central Nervous System, regulation, assay, quantitative, Medulla Spinalis, C76364, Lumbar, Thoracic, Lumbar Cord, CLEC2C, Medulla Spinali, Immune Markers, presence or absence in organism1406http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310000045dbgap_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~0tsa_masters~0go~1biosamples-covid19~0ebiweb_corporate~0omim~0lrg~0earlycause-molecular-sequences~0ipd-kir~0empiar~0rnacentral~0orcid_data_claims~0gpmdb~2lineage-covid19~0metagenomics~0pfam~0pride archive~1varsite~00Resource Reanalysis0.00.00.004318322023442321.00.0falseProteomic analysis of cerebrospinal fluid extracellular vesicles: A comprehensive dataset.Data from ProteomeXchange, PXD ID: PXD000608. File: QE1_120417_OPL0006_16_CSFexosomes_SP_DC_G3.mzml. Published as part of J Proteomics. 2014 Apr 24 . From the Abstract: {{i}} Extracellular vesicles (EVs) are present in human cerebrospinal fluid (CSF), yet little is known about their protein composition. The aim of this study is to provide a comprehensive analysis of the proteome of CSF EVs by electron microscopy and high resolution tandem mass spectrometry (MS/MS) in conjunction with bioinformatics ... {{/i}}2014-05-07GPM3231000004524769233PXD000608PXD000608