#METABOLOMICS WORKBENCH araskind_20160112_9277591_mwtab.txt DATATRACK_ID:475 kenanazam_20160113_161707 STUDY_ID:ST000312 ANALYSIS_ID:AN000498 PROJECT_ID:PR000251 VERSION 1 CREATED_ON January 13, 2016, 4:17 pm #PROJECT PR:PROJECT_TITLE IDH1 gliomas PR:PROJECT_SUMMARY Analyze IDH1R132H activity in glioma cell lines and tumnor tissue PR:INSTITUTE University of Michigan PR:DEPARTMENT Neurosurgery PR:LABORATORY Castro Lab PR:LAST_NAME Castro PR:FIRST_NAME Maria PR:ADDRESS Ann Arbor, MI PR:EMAIL mariacas@umich.edu PR:PHONE 734-764-0850 #STUDY ST:STUDY_TITLE IDH1R132H activity in glioma cell lines and tumnor tissue (2HG) ST:STUDY_TYPE Regular ST:STUDY_SUMMARY We developed genetically engineered mice to generate brain tumors with especific ST:STUDY_SUMMARY genetic lessions. The animals were split in three groups: NRAS, P53 knockdown, ST:STUDY_SUMMARY IDH1-R132H and ATRX knock down (NPAID); NRAS, P53 knockdown, IDH1-R132H (NPI); ST:STUDY_SUMMARY NRAS, P53 knockdown, (NshP53). From these tumor we obtain and culture tumor ST:STUDY_SUMMARY cells growth like neurospheres and attached cells. ST:INSTITUTE University of Michigan ST:DEPARTMENT Biomedical Research Core Facilities ST:LABORATORY Metabolomics core ST:LAST_NAME Kachman ST:FIRST_NAME Maureen ST:ADDRESS 6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714 ST:EMAIL mkachman@med.umich.edu ST:PHONE (734) 232-8175 ST:NUM_GROUPS 4 ST:TOTAL_SUBJECTS 4 #SUBJECT SU:SUBJECT_TYPE Animal SU:SUBJECT_SPECIES Mus musculus SU:TAXONOMY_ID 10090 #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Additional sample data SUBJECT_SAMPLE_FACTORS - S00017646 Genetic makeup:NPAID SUBJECT_SAMPLE_FACTORS - S00017647 Genetic makeup:NPI SUBJECT_SAMPLE_FACTORS - S00017648 Genetic makeup:NshP53 SUBJECT_SAMPLE_FACTORS - S00020347 Genetic makeup:Pooled cells #COLLECTION CO:COLLECTION_SUMMARY None provided. CO:SAMPLE_TYPE Cells #TREATMENT TR:TREATMENT_SUMMARY None provided. #SAMPLEPREP SP:SAMPLEPREP_SUMMARY None provided. SP:SAMPLEPREP_PROTOCOL_FILENAME 15DEC2015 2HG cells Castro.docx #CHROMATOGRAPHY CH:CHROMATOGRAPHY_TYPE Reversed phase MS:INSTRUMENT_NAME Agilent 6410A QQQ CH:COLUMN_NAME Waters Acquity HSS T3 (50 x 2.1mm, 1.8um) CH:METHODS_FILENAME 2015-04-07-2HG.m.zip CH:METHODS_ID DQM0033 #ANALYSIS AN:ANALYSIS_TYPE MS #MS MS:MS_COMMENTS - MS:INSTRUMENT_NAME Agilent 6410A QQQ MS:INSTRUMENT_TYPE Triple quadrupole MS:MS_TYPE ESI MS:ION_MODE NEGATIVE #MS_METABOLITE_DATA MS_METABOLITE_DATA:UNITS µM/500µl extraction solvent MS_METABOLITE_DATA_START Samples S00017646 S00017647 S00017648 Factors Genetic makeup:NPAID Genetic makeup:NPI Genetic makeup:NshP53 D-2-hydroxyglutarate 10177.9815 3358.08205 2486.28377 L-2-hydroxyglutarate 182.37969 182.01126 454.50883 2-Phosphoglycerate/3-Phosphoglycerate 6.9806871 1.143851 4.5894202 6-phosphogluconic acid 37.638728 4.0799159 3.6714762 Acetyl-CoA 1.0653526 0.5927918 0.5995497 Adenosine diphosphate 33.130553 40.394093 41.9677 Adenosine monophosphate 153.44076 28.144997 44.537019 Adenosine triphosphate 11.329268 60.98457 67.54665 Citrate/iso-citrate 39.284676 7.8404032 3.760665 Fructose-6-Phosphate/glucose-6-phosphate 8.5134921 8.0508339 9.8884122 Flavin adenine dinucleotide 1.3357146 0.9016864 0.7557498 Fructose 1,6 Bisphosphate 40.714398 83.385701 182.38143 Malate 51.030168 16.612637 9.7442914 Nicotinamide adenine dinucleotide_1 0.6017222 0.076668 0.1132844 Nicotinamide adenine dinucleotide, reduced Nicotinamide adenine dinucleotide phosphate 0.9081965 0.80392 0.6518834 Nicotinamide adenine dinucleotide phosphate, reduced Phosphoenolpyruvate 0.8181748 0.5428246 1.0626774 D-ribulose-5-phosphate/D-xylulose-5-phosphate 41.767487 9.6581304 12.04663 Sedoheptulose-7P 128.23932 31.777984 31.560467 Succinate 50.19386 4.2907129 1.698174 Nicotinic acid Nicotinamide adenine dinucleotide_2 0.4297534 0.1688857 0.2019378 Nicotinamide 5.6608956 20.430295 9.5880366 Nicotinic acid mononucleotide 0.1541794 0.155716 0.1544609 Nicotinamide mononucleotide 0.1721849 0.1247026 0.1338116 Quinolinic acid 0.1506504 0.1303641 0.1301834 MS_METABOLITE_DATA_END #METABOLITES METABOLITES_START metabolite_name retention index quantified m/z PubChem ID KEGG ID D-2-hydroxyglutarate 439391 L-2-hydroxyglutarate 439939 2-Phosphoglycerate/3-Phosphoglycerate 724 6-phosphogluconic acid 91493 Acetyl-CoA 444493 Adenosine diphosphate 6022 Adenosine monophosphate 6083 Adenosine triphosphate 5957 Citrate/iso-citrate 311 Fructose-6-Phosphate/glucose-6-phosphate 5958 Flavin adenine dinucleotide 46906035 Fructose 1,6 Bisphosphate 21125049 Malate 525 Nicotinamide adenine dinucleotide_1 15938971 Nicotinamide adenine dinucleotide, reduced 439153 Nicotinamide adenine dinucleotide phosphate 15938972 Nicotinamide adenine dinucleotide phosphate, reduced 22833512 Phosphoenolpyruvate 1005 D-ribulose-5-phosphate/D-xylulose-5-phosphate 77982 Sedoheptulose-7P 165007 Succinate 1110 Nicotinic acid 938 Nicotinamide adenine dinucleotide_2 439153 Nicotinamide 936 Nicotinic acid mononucleotide 941 Nicotinamide mononucleotide 14180 Quinolinic acid 1066 METABOLITES_END #END