{"database":"MassIVE","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://massive.ucsd.edu/v05/MSV000091283/"]},"type":"primary"},"statusCodeValue":200,"statusCode":"OK"}],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":0,"searchCount":0},"additional":{"omics_type":["Proteomics"],"submitter":["Wang Tong"],"instrument_platform":["7890A GC (Agilent, Santa Clara, CA, USA) instrument coupled to a 5975C MSD single quadrupole mass spectrometer (Agilent).Dionex Ultimate 3000 (Thermo Scientific) coupled to TSQ Quantum Ultra mass spectrometer (Thermo Scientific)"],"species":["Homo Sapiens (ncbitaxon:9606)"],"full_dataset_link":["https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=4a1563afd0f64d75b2992ea39c6ac493"],"submitter_email":["y20170157@mail.ecust.edu.cn"],"submitter_affiliation":["East China University of Science and Technology"],"sample_protocol":[""],"repository":["MassIVE"],"file_size":["1,116"],"ptm_modification":["MS:1002864 - No post-translational-modifications are included in the identified peptides of this dataset"],"data_protocol":[""],"name_synonyms":["basal cell epithelioma cell, count in organism, Culture Techniques, Cell Culture Technique., Metabolic, Metabolomes, epithelial carcinoma cell, Profile, HeLa, number, malignant epithelioma cell, Cell Cultures, RCB0007, epithelial cancer cell, Profiles, Cell Culture, Metabolic Profile, presence, Cell, Metabolic Profiles, Culture Technique"],"description_synonyms":["Methane, Water, Doxorubicine Baxter, MeCN, nucleocytoplasm, H(2)O, Metabolic Concepts, Malignant Epithelial Tumors, BOUND WATER, growth and development, Profiles, Tumor, oxidane, Epithelial Tumors, doxorubicin, Urokit Doxo-cell, trichloro-, Long Term, WATER, HOH, Doxorubicina Funk, Carbon-12, Method, CH3-C#N, 2, 3, 4, germacrene A synthase activity, 5, Analysis, 6, Metabolism Concept, 8, 9, Doxorubicina Ferrer Farm, treatment, C, Spindle-Cell Carcinoma, tetraoxophosphate(V), RPN3, Grain, Undifferentiated, amino acids, Saline, Analyses, catabolism, Adrimedac, CG42641, tetraoxidophosphate(3-), N, organic acids, Adenocor, metabolic process resulting in cell growth, procedures, PA1, Dehydrated ethanol, beta-D-adenosine, (1S, Role Concepts, Case Histories, RCB0007, 0.9% Saline, Nucleotide, Inorganic, intracellular, 4-diol, Tumors, spiritus vini, Adenosin, (2R, epithelioma, BZRP, Ado, Doxorubicin, metabolism resulting in cell growth, Liquid Chromatography, \"carcinoma\" EXACT [CSP2005:2000-1867], Doxolem, Longterm Effect, Procedure, Spectrum Analysis, Anaplastic, alpha-amino carboxylic acids, Absolute Alcohol, PBS, PBR, (8S-cis)-, Vitreous, H2O, 9-beta-D-Ribofuranosidoadenine, Benign, Role Concept, Stickstoff, Role, Adriblastin, secretion, Dmel_CG10484, 6-trans-farnesyl-diphosphate diphosphate-lyase (germacrene-A-forming) activity, [OEtH], Hydrogen Oxide, nucleotides, Carcinomas, Acid, Spindle Cell, Amino acids, Urokit Doxo cell, Spectrometry, Benign Neoplasms, Methodological, study protocol, alcohol etilico, Methylcarbinol, Malignant Neoplasms, nitrogen, Painful bladder syndrome, spirit of wood, Spindle-Cell, Adenoscan, Acids, methyl cyanide, other neoplasm, Methyl Alcohol, BPBS, tetraoxophosphate(3-), Adriblastina, Effects, Processes, Neoplasms, etanol, number, secondary metabolites, 2-trans, CH3OH, Doxorubicin NC, Metabolic Processes, abdominal muscles, agua, basal cell epithelioma cell, 5R)-2-(6-aminopurin-9-yl)-5-(hydroxymethyl)oxolane-3, Undifferentiated Carcinomas, Dox, Malignant Epithelial, Adriblastine, Metabolic Profile, Technique, Longterm, ethanol, Profile, Epithelial Neoplasms, Metabolic Concept, pk18, 11-hexahydrotetracen-1-yl 3-amino-2, Long-Term, Expressions, MBR, Case Study, DmelCG42641, Neoplasias, Study, C2H5OH, Enzyme, 9-beta-D-Ribofuranosyl-9H-purin-6-amine, PTBR, Expression, Adenocard, doxorubicine, Cancer, 9-beta-D-ribofuranosyladenine, [PO4](3-), Enzyme Cofactors, Malignant Neoplasm, 1-(14)C-labeled, degradation, Cofactors, Methyl alcohol, alpha-amino acids, 10-tetrahydro-6, acetonitrile, (+)-(10R)-germacrene A synthase activity, carbone, 0.9%, Cell, Concept, carbono, metabolite traits, disease management., MS, MT, epithelial cancer, \"carcinoma NOS (morphologic abnormality)\" EXACT [SNOMEDCT_2005_07_31:189549006], Long Term Effects, Neoplasm, alcool ethylique, Ribodoxo, Sodium, MeOH, eagle-Barrett syndrome, metabolism, Mass Spectrum Analyses, Metabolic Phenomenon, Anaplastic Carcinoma, Inorganic Phosphate, multicellular organism metabolic process, primary cancer, Doxorubicin Hydrochloride, 6-trideoxy-alpha-L-lyxo-hexopyranoside, postnatal growth, metabolite, Adriablastin, Cancers, azote, ethanenitrile, Epithelial Neoplasm, mDRC, malignant tumor, Sugar, Longterm Effects, plan specification, 12-Naphthacenedione, 0.9% NaCl, 11-trihydroxy-8-(hydroxyacetyl)-1-methoxy-, Malignant Epithelial Tumor, phosphates, Epithelial Tumor, [OH2], Neoplasia, Methoxide, Anabolism, CG10484, biochemical pathways, Farmiblastina, Metabolic Process, Grain Alcohol, NCMe, DoxA2, Aminosaeure, postnatal development, Amino acid, Onkodox, Pi, 1-hydroxyethane, l(2)37Bf, alcohol, Techniques, Ethanol, primary metabolites, \"epithelial carcinoma\" EXACT [NCI2004_11_17:C2916], Roles, Alkohol, Concepts, Impacts, no subtype (morphologic abnormality)\" EXACT [SNOMEDCT_2005_07_31:68453008], Environmental Impacts, Carcinomatosis, Phenomenon, Effect, Adriablastine, wood alcohol, Metabolic Profiles, Mass Spectrum Analysis, S3, 11-trihydroxy-8-(hydroxyacetyl)-1-methoxy-5, Orthophosphate, Gene Expressions, PHOSPHATE ION, Ethyl, Phosphate, IBP, Aethanol, [CH2Me(OH)], free, Environmental Impact, 6-trideoxy-alpha-L-lyxo-hexopyranosyl)oxy)-7, Methodological Studies, malignant neoplasm, Normal, Carbon, C16orf53, Therapies, dihydridooxygen, biotransformation, Malignancies, Sodium Methoxide, dihydrogen oxide, Bladder pain syndrome, Catabolism, Long-Term Effects, 3R, (+)-germacrene A synthase activity, Therapy, Carcinoma, Undifferentiated Carcinoma, Alcohol, 14-hydroxydaunorubicine, Process, epithelial carcinoma cell, Enzyme Cofactor, Aminokarbonsaeure, DOXO cell, Doxotec, aqua, 11-dioxo-1, \"carcinoma, Ethyl alcohol, 4S, Spectroscopy, Epitheliomas, Coenzyme, internal to cell, Case Studies, GAS, ETHANOL, Carbinol, Carcinomatoses, carbinol, Phosphates, Amino Acid, absence of, Painful Bladder Syndrome, EtOH, DOXO-cell, doxorubicinum, 6C, PO4(3-), hydrogen hydroxide, adenine riboside, 6-Amino-9-beta-D-ribofuranosyl-9H-purine, Methodological Study, Treatments, acqua, Trichloromethane, Wood, 9-beta-D-ribofuranosyl-9H-purin-6-amine, Vitreous Carbon, phosphate, phosphate ions, metabolites, Dox-A2, carbonium, Malignant Epithelial Neoplasm, malignant epithelioma cell, Anaplastic Carcinomas, Wasser, 7N, Bladder Pain Syndrome, Procedures, Doxorubicina Tedec, Myocet, Benign Neoplasm, Aminocarbonsaeure, p58, Gene, Methyl, carbon, Spectrum Analyses, alpha-amino acid, Methylalkohol, Malignant, presence, metabolite levels, 12-naphthacenedione, Aethylalkohol, method, Metabolism, method used in an experiment, Studies, Mass, Wood Alcohol, Epithelioma, Metabolism Phenomena, Mass Spectroscopy, protoplasm, study, protoplast, Malignancy, Metabolomes, Absolute, HeLa, Inorganic Phosphates, eau, Kohlenstoff, (8S-cis)-10-((3-amino-2, wood naphtha, epithelial cancer cell, liquid, Normal Saline, Long-Term Effect, malignant Epithelioma, l(2)37Bf[+], 14-hydroxydaunomycin, 3H-labeled, DBI, Cofactor, 6-trans-farnesyl-diphosphate diphosphate-lyase [(+)-germacrene-A-forming] activity, DXA2_DROME, Ade-Rib, Impact, Metabolic Phenomena, Environmental, development, Metabolism Concepts, count in organism, PKBS, 3S)-3-glycoloyl-3, 12-trihydroxy-10-methoxy-6, water, Phenomena, Spindle-Cell Carcinomas, Hydrochloride, Malignant Epithelial Neoplasms, techniques, ACETONITRILE, cyanomethane, Ethyl Alcohol, Mass Spectrum, with urinary tract Abnormality and cryptorchidism, Adriamycin, biodegradation, Metabolic, coenzymes, Amino, nitrogeno, Carbon 12, hydroxyethane, Rubex, Therapeutic, wood spirit, Environments, Treatment, 10-((3-amino-2, Doxorubicin Hexal, growth, methodology"],"citation_count":["0"],"additional_accession":[]},"is_claimable":false,"name":"A systematic evaluation of quenching and extraction procedures for quantitative metabolome profiling of Hela carcinoma cell under 2D and 3D cell culture conditions","description":"Metabolic reprogramming has been coined as a hallmark of cancer, accompanied by which the alterations in metabolite levels have profound effects on gene expression, cellular differentiation and the tumor environment. Yet a systematic evaluation of quenching and extraction procedures for quantitative metabolome profiling of tumor cells is currently lacking. To achieve this, this study is aimed at establishing an unbiased and leakage-free metabolome preparation protocol for Hela carcinoma cell. We evaluated 12 combinations of quenching and extraction methods from three quenchers (liquid nitrogen, 50% methanol, normal saline) and four extractants (80% methanol, methanol: chloroform: water (1:1:1, v/v/v), 50% acetonitrile, 70% ethanol) for global metabolite profiling of adherent Hela carcinoma cells. Based on the isotope dilution mass spectrometry (IDMS) method, gas/liquid chromatography in tandem with mass spectrometry was used to quantitatively determine 43 metabolites including sugar phosphates, organic acids, amino acids, adenosine nucleotides and coenzymes involved in central carbon metabolism. Among 12 combinations, cells that washed twice with phosphate buffered saline (PBS), quenched with liquid nitrogen, and then extracted with 50% acetonitrile was found to be the most optimal method to acquire intracellular metabolites with minimal loss during sample preparation. Furthermore, a case study was carried out to evaluate the effect of doxorubicin (DOX) on both adherent cells and 3D tumor spheroids using quantitative metabolite profiling. Based on this, quantitative time-resolved metabolite data can serve to the generation of hypotheses on metabolic reprogramming to reveal its important role in tumor development and treatment.","dates":{"publication":"Wed Feb 15 03:35:00 GMT 2023"},"accession":"MSV000091283","cross_references":{}}