GPMDB00685OtherHongyu Zhang, et al.InstrumentNot AvailableNot availableHomo_sapiens_viruses, Human24995952jiangying304@hotmail.comSchool of Life Sciences, Tsinghua University, Beijing, P. R. China, et al.http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002872http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002873http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002874http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002875http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002876http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002854http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002877http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002855http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002856http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002878http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002879http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002857http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002871http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002858http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002859http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002883http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002861http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002862http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002863http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002864http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002865http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002866http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002867http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002868http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002880http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002881http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002860http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002882http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002869Not availableGPMDBActivated hepatic stellate cell (HSC) is the main myofibroblast cell in the liver fibrosis (LF). An important characteristic of the recovery of LF is not only the apoptosis of activated HSCs but also reversal of myofibroblast-like phenotype to a quiescent-like phenotype. Understanding the changes of secreted proteins in the reversion of activated HSCs may provide the broader view of cellular regulatory networks and discover candidate markers or targets for therapeutic strategies of LF. In this study, stable isotope labeling with amino acids (SILAC) combined with linear ion trap-Fourier transform ion cyclotron resonance mass spectrometer (LTQ-FT MS) was performed on in vitro activated HSCs and reverted HSCs to obtain a proteomic view of secretory proteins. In total, 330 proteins showed significant differences in reverted HSCs. Among these, 109 upregulated proteins were mainly involved in amino acid metabolism pathway and glucose metabolism pathway using GeneGO/MetaCore software, while 221 downregulated proteins are closely associated with HSCs activation, such as cytoskeleton remodeling, chemokines, and cell adhesion. Additionally, a set of novel proteins associated with HSCs activation and reversion were validated by Western blotting in the cell secretion and in the sera of LF, including vitronectin, laminin beta 1, and ubiquitin conjugation factor E4B. Our study provided the valuable insight into the mechanisms in the reversion of activated HSCs and identified some potential biomarkers of LF in clinical studies. All MS data have been deposited in the ProteomeXchange with identifier PXD000773 (http://proteomecentral.proteomexchange.org/dataset/PXD000773).SILAC-based quantitative proteomic analysis of secretome between activated and reverted hepatic stellate cells.Zhang Hongyu H,Wu Peng P,Chen Fangyan F,Hao Yunwei Y,Lao Yuanxiang Y,Ren Liangliang L,Sun Longqin L,Sun Wei W,Wei Handong H,Chan Daniel W DW,Jiang Ying Y,He Fuchu F,Zhang Hongyu H, Wu Peng P, Chen Fangyan F, Hao Yunwei Y, Lao Yuanxiang Y, Ren Liangliang L, Sun Longqin L, Sun Wei W, Wei Handong H, Chan Daniel W DW, Jiang Ying Y, He Fuchu Fcount in organism, Stellate Cells, Stellate Cell, Ito, count, Ito Cells., Cells, proteomic analysis, number, Hepatic, Hepatic Stellate Cell, quantitative, Hepatic Stellate, presence, Cell, presence or absence in organismhematopoietic precursor cell, hemopoietic stem cell, Aminosaeure, caspase-dependent programmed cell death, Aminocarbonsaeure, Gene, apoptotic programmed cell death, type I programmed cell death, Isotope-Coded Affinity, perisinusoidal cell, Cirrhosis of liver, activation of apoptosis, Hepatic Cirrhoses, Readability, blood forming stem cell, Cirrhosis of liver without mention of alcohol, hematopoietic progenitor cell, Extrinsic Pathway Apoptoses, Gene Products, Fibroses, Cirrhoses, Type I, Isotopically-Coded Affinity, Isotopically-Coded Affinity Tagging, study, amino acids, CFU-S, Liver Fibrosis, proteins, apoptosis activator activity, liver stellate cell, Intrinsic Pathway Apoptosis, Liver Cirrhoses, Stable, blutbildende Stammzelle, execution phase of apoptotic process, Isotope-Coded Affinity Tagging, hepatic perisinusoidal cell, Hepatic, lipocyte, Tagging, programmed cell death by apoptosis, Stable Isotope Labeling, Apoptosis, Gene., cellular suicide, data, Liver, cell suicide, Aminokarbonsaeure, apoptotic cell death, Proteins, Cirrhosis of liver NOS (disorder), HSC, Hedgehog signalling complex, Ito cell, Labeling, fat-storing cell, polypeptide, Isotope, hemopoietic progenitor cell, signaling (initiator) caspase activity, induction of apoptosis, Intrinsic Pathway, Stable Isotope, Programmed Cell Death, Extrinsic Pathway Apoptosis, liver cirrhosis, Protein, Cirrhosis, NOS, Fibrosis, colony forming unit hematopoietic, FT_ICR, Isotope Coded Affinity Tagging, apoptosis signaling, Cirrhosis of liver NOS, Myofibroblast, MFB, apoptosis, smooth muscle-like cell, HSC cell, Liver Fibroses, Understanding, Isotope Labeling, Amino, vitamin A-storing cells, Affinity Tagging, Isotopically-Coded, cirrhosis, Intrinsic Pathway Apoptoses, Protein Gene Products, Phenotypes, Gene Proteins, induction of apoptosis by p53, CL - Cirrhosis of liver, apoptotic program, progenitor cell, Extrinsic Pathway, commitment to apoptosis, Isotope-Coded, Hepatic cirrhosis, Acids, Cirrhosis of liver (disorder), Apoptoses, colony forming unit spleencount in organism, Stellate Cells, Stellate Cell, Ito, count, Ito Cells., Cells, proteomic analysis, number, Hepatic, Hepatic Stellate Cell, quantitative, Hepatic Stellate, presence, Cell, presence or absence in organismbiochemical pathways, hematopoietic precursor cell, IPP2A2, Metabolic Process, Viral Marker, Biological Markers, Surrogate Endpoints, Microtrabecular, PHGDHD, Laboratory, hemopoietic stem cell, Aminosaeure, Metabolic Concepts, Biochemical, Endpoint, Serum, type I programmed cell death, perisinusoidal cell, Cirrhosis of liver, A10, 5730420M11Rik, Hepatic Cirrhoses, Readability, Laboratory Markers, phosphoglyceric acid dehydrogenase activity, SerA, SERA, Extrinsic Pathway Apoptoses, Cytoskeletons, Biological, Concepts, Cirrhoses, Software Engineering, Metabolism Concept, Gpi-1, Phenomenon, Laminin M, Microtrabecular Lattice, Computer Program, Isotopically-Coded Affinity Tagging, 3-phosphoglyceric acid dehydrogenase activity, Set, SET, amino acids, High Mobility Protein 20, CFU-S, Cytoplasmic Filament, TAF-I, catabolism, Nlk, Cytoskeletal, Sets (Psychology), phosphatase 2A inhibitor I2PP2A, Liver Fibrosis, Computer Programs and Programming, NLS, Ubiquitin-related 1, proteins, metabolic process resulting in cell growth, 4930479N23, NLS1, phosphoglycerate oxidoreductase activity, 3-phosphoglycerate:NAD+ 2-oxidoreductase activity, APF-1, Adhesions, IGAAD, Intrinsic Pathway Apoptosis, Immune, Liver Cirrhoses, Markers, Microtrabecular Lattices, SerA 3PG dehydrogenase activity, blutbildende Stammzelle, Viral Markers, Adhesion, hepatic perisinusoidal cell, biotransformation, associated, Tagging, Catabolism, Stable Isotope Labeling, PGAD, Data Set., incorporation, Gpi, cellular suicide, Liver, Viral, Surrogate Endpoint, Process, Aminokarbonsaeure, external secretion, metabolism resulting in cell growth, StF-IT-1, Laminin, Biochemical Markers, HSC, CEP52, Biologic Marker, PGDH, Software Tools, Programs, exocrine gland fluid/secretion, Program, Computer Applications, signaling (initiator) caspase activity, induction of apoptosis, mOC-X, Intrinsic Pathway, Marker, PGDH activity, Extrinsic Pathway Apoptosis, Computer Applications Software, Computer Applications Softwares, Cytoskeletal Filament, Cirrhosis, Intercrines, NOS, secretion, M Chain, NK|GPI, Softwares, Fibrosis, activation, glucose metabolism, Ubiquitin, Cirrhosis of liver NOS, Org, ORG, Software Applications, HLA-DR-associated protein II, End Points, Merosin, PDG, Human Ubiquitin, Gpi1-r, Liver Fibroses, Filaments, Gpi1-s, Immunologic, inhibitor of granzyme A-activated DNase, Laboratory Marker, vitamin A-storing cells, Gpi1-t, turnover, Intrinsic Pathway Apoptoses, Phenotypes, Applications, TAF-IBETA, induction of apoptosis by p53, Biochemical Marker, Laminin M Chain, Extrinsic Pathway, Acids, Cirrhosis of liver (disorder), exocrine gland secretion, Apoptoses, Bglap-rs1, Gpi1s, Computer Software Applications, Lattices, Chemotactic, exocrine gland fluid, exocrine gland fluid or secretion, Clinical Markers, AI461847, Processes, Cytoplasmic Filaments, glycerate 3-phosphate dehydrogenase activity, Clinical Marker, Chemotactic Cytokines, caspase-dependent programmed cell death, Aminocarbonsaeure, Gene, ATP Dependent Proteolysis Factor 1, Computer, Ubiquitin carboxyl extension protein 80, Metabolic Processes, apoptotic programmed cell death, Isotope-Coded Affinity, 3PHP reductase activity, activation of apoptosis, PHAPII, Human, Surrogate End Points, Filament, Surrogate Markers, blood forming stem cell, Cirrhosis of liver without mention of alcohol, alpha-phosphoglycerate dehydrogenase activity, hematopoietic progenitor cell, template-activating factor I, Metabolism, PGD, Cytoskeletal Filaments, Gene Products, Fibroses, HMG-20, Pgi, single organism cell adhesion, 3-phosphate dehydrogenase activity, Type I, Isotopically-Coded Affinity, ubiquitin-like protein modifier, Metabolism Phenomena, Application, D-3-phosphoglycerate:NAD+ oxidoreductase activity, Chain, study, Clinical, cell, Gpi-1r, Software Application, cell adhesion molecule activity, Gpi-1s, Biological Marker, Phi, Gpi-1t, Metabolic 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D-3-phosphoglycerate dehydrogenase activity, Ubiquitin-related 2, Surrogate End Point, Programmed Cell Death, liver cirrhosis, Protein, D- and L-HGA, Phenomena, I2PP2A, 3-PGDH, ATP-Dependent Proteolysis Factor 1, colony forming unit hematopoietic, FT_ICR, metabolism, Software, Isotope Coded Affinity Tagging, NK, Metabolic Phenomenon, Biologic Markers, apoptosis signaling, covalent modifier, mobilization, multicellular organism metabolic process, Serum Marker, Myofibroblast, MFB, apoptosis, biodegradation, Metabolic, Surrogate, glycerate-1, smooth muscle-like cell, alphaKG reductase activity, Endpoints, Engineering, cellular glucose metabolic process, HSC cell, Cell Adhesions, Understanding, Isotope Labeling, Amino, Affinity Tagging, Isotopically-Coded, Surrogate Marker, cirrhosis, Protein Gene Products, 3-phosphoglycerate dehydrogenase activity, Computer Programs, Gene Proteins, single-organism metabolic process, 2610030F17Rik, Applications Softwares, 3-phospho-D-glycerate:NAD+ 2-oxidoreductase activity, 60S ribosomal protein L40, CL - Cirrhosis of liver, apoptotic program, progenitor cell, Lattice, commitment to apoptosis, Isotope-Coded, Ubiquitin-related, Hepatic cirrhosis, AA407739, colony forming unit spleen, Anabolism, Immune 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archive~1varsite~00Resource Reanalysis0.00.00.0209747069710055530.01.0falseSILAC-based quantitative proteomic analysis of secretome between activated and reverted hepatic stellate cells.Data from ProteomeXchange, PXD ID: PXD000773. File: zhanghongyu_20110913_13.mzml. Published as part of . From the Abstract: {{i}} Activated hepatic stellate cell (HSC) is the main myofibroblast cell in the liver fibrosis (LF). An important characteristic of the recovery of LF is not only the apoptosis of activated HSCs but also reversal of myofibroblast-like phenotype to a quiescent-like phenotype. Understanding the changes of secreted proteins in the reversion of activated HSCs may provide the broader view of cellular regulatory networks and discover candidate markers or targets for therapeutic strategies of LF. In this study, stable isotope labeling with amino acids (SILAC) combined with linear ion trap-Fourier transform ion cyclotron resonance mass spectrometer (LTQ-FT MS) was performed on in vitro activated HSCs and reverted HSCs to obtain a proteomic view of secretory proteins ... {{/i}}2014-08-13GPM3231000286624995952PXD000773PXD000773