#METABOLOMICS WORKBENCH RobinRoychaudhuri_20230429_082920 DATATRACK_ID:3947 STUDY_ID:ST002705 ANALYSIS_ID:AN004386 PROJECT_ID:PR001676 VERSION 1 CREATED_ON May 16, 2023, 2:23 pm #PROJECT PR:PROJECT_TITLE Lipidomic Analysis of subventricular zone in conditional deletion of serine PR:PROJECT_TITLE racemase in adult mice. PR:PROJECT_SUMMARY Lipid metabolism plays an important role in neurogenesis. The present study was PR:PROJECT_SUMMARY performed to investigate the role of serine racemase in lipid metabolism and PR:PROJECT_SUMMARY adult neurogenesis. Conditional deletion of serine racemase in nestin precursor PR:PROJECT_SUMMARY cells (nestin cre+) showed significant alterations in the different lipid PR:PROJECT_SUMMARY classes in the subventricular zone of adult nestin-cre+ mice based on a PR:PROJECT_SUMMARY lipidomics study. The raw data for the lipidomics study are presented. PR:INSTITUTE Johns Hopkins University School of Medicine PR:DEPARTMENT Neuroscience PR:LABORATORY Solomon H Snyder PR:LAST_NAME Roychaudhuri PR:FIRST_NAME Robin PR:ADDRESS 655 West Baltimore Street, Baltimore, Maryland, 21201, USA PR:EMAIL robinroychaudhuri@gmail.com PR:PHONE 310-848-4336 #STUDY ST:STUDY_TITLE Lipidomic Analysis of subventricular zone in adult mice. ST:STUDY_SUMMARY Lipid metabolism plays an important role in neurogenesis. The present study was ST:STUDY_SUMMARY performed to investigate the role of serine racemase in lipid metabolism and ST:STUDY_SUMMARY adult neurogenesis. Conditional deletion of serine racemase in nestin precursor ST:STUDY_SUMMARY cells (nestin cre+) showed significant alterations in the different lipid ST:STUDY_SUMMARY classes in the subventricular zone of adult nestin-cre+ mice based on a ST:STUDY_SUMMARY lipidomics study. The raw data for the lipidomics study are presented. ST:INSTITUTE Johns Hopkins University School of Medicine ST:LAST_NAME Roychaudhuri ST:FIRST_NAME Robin ST:ADDRESS 655 West Baltimore Street ST:EMAIL robinroychaudhuri@gmail.com ST:PHONE 3108484336 #SUBJECT SU:SUBJECT_TYPE Mammal SU:SUBJECT_SPECIES Mus musculus SU:TAXONOMY_ID 10090 #FACTORS #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Raw file names and additional sample data SUBJECT_SAMPLE_FACTORS - SR FloxP 1-1 Genotype:Wild type RAW_FILE_NAME=2021030P_SRFlex_1-1_R-A6_1_12172.mzML SUBJECT_SAMPLE_FACTORS - SR FloxP 1-2 Genotype:Wild type RAW_FILE_NAME=2021030P_SRFlex_1-2_R-A6_1_12110.mzML SUBJECT_SAMPLE_FACTORS - SR FloxP 1-3 Genotype:Wild type RAW_FILE_NAME=2021030P_SRFlex_1-3_R-A6_1_12117.mzML SUBJECT_SAMPLE_FACTORS - SR FloxP 2-1 Genotype:Wild type RAW_FILE_NAME=2021030P_SRFlex_2-1_R-A7_1_12173.mzML SUBJECT_SAMPLE_FACTORS - SR FloxP 2-2 Genotype:Wild type RAW_FILE_NAME=2021030P_SRFlex_2-2_R-A7_1_12173.mzML SUBJECT_SAMPLE_FACTORS - SR FloxP 2-3 Genotype:Wild type RAW_FILE_NAME=2021030P_SRFlex_2-3_R-A7_1_12118.mzML SUBJECT_SAMPLE_FACTORS - Nestin CreP 1-1 Genotype:Nes-Cre+ RAW_FILE_NAME=2021030P_NesCze_1-1_R-A8_1_12174.mzML SUBJECT_SAMPLE_FACTORS - Nestin CreP 1-2 Genotype:Nes-Cre+ RAW_FILE_NAME=2021030P_NesCze_1-2_R-A8_1_12112.mzML SUBJECT_SAMPLE_FACTORS - Nestin CreP 1-3 Genotype:Nes-Cre+ RAW_FILE_NAME=2021030P_NesCze_1-3_R-A8_1_12119.mzML SUBJECT_SAMPLE_FACTORS - Nestin CreP 2-1 Genotype:Nes-Cre+ RAW_FILE_NAME=2021030P_NesCze_2-1_R-A9_1_12175.mzML SUBJECT_SAMPLE_FACTORS - Nestin CreP 2-2 Genotype:Nes-Cre+ RAW_FILE_NAME=2021030P_NesCze_2-2_R-A9_1_12113.mzML SUBJECT_SAMPLE_FACTORS - Nestin CreP 2-3 Genotype:Nes-Cre+ RAW_FILE_NAME=2021030P_NesCze_2-3_R-A9_1_12120.mzML SUBJECT_SAMPLE_FACTORS - SR Flox 1-1N Genotype:Wild type RAW_FILE_NAME=2021030N_SRFlex_1-1_R-A6_1_12139.mzML SUBJECT_SAMPLE_FACTORS - SR Flox 1-2N Genotype:Wild type RAW_FILE_NAME=2021030N_SRFlex_1-2_R-A6_1_12146.mzML SUBJECT_SAMPLE_FACTORS - SR Flox 1-3N Genotype:Wild type RAW_FILE_NAME=2021030N_SRFlex_1-3_R-A6_1_12153.mzML SUBJECT_SAMPLE_FACTORS - SR Flox 2-1N Genotype:Wild type RAW_FILE_NAME=2021030N_SRFlex_2-1_R-A7_1_12140.mzML SUBJECT_SAMPLE_FACTORS - SR Flox 2-2N Genotype:Wild type RAW_FILE_NAME=2021030N_SRFlex_2-2_R-A7_1_12147.mzML SUBJECT_SAMPLE_FACTORS - SR Flox 2-3N Genotype:Wild type RAW_FILE_NAME=2021030N_SRFlex_2-2_R-A7_1_12154.mzML SUBJECT_SAMPLE_FACTORS - Nestin Cre 1-1N Genotype:Nes-Cre+ RAW_FILE_NAME=2021030N_NesCze_1-1_R-A8_1_12141.mzML SUBJECT_SAMPLE_FACTORS - Nestin Cre 1-2N Genotype:Nes-Cre+ RAW_FILE_NAME=2021030N_NesCze_1-2_R-A8_1_12148.mzML SUBJECT_SAMPLE_FACTORS - Nestin Cre 1-3N Genotype:Nes-Cre+ RAW_FILE_NAME=2021030N_NesCze_1-3_R-A8_1_12155.mzML SUBJECT_SAMPLE_FACTORS - Nestin Cre 2-1N Genotype:Nes-Cre+ RAW_FILE_NAME=2021030N_NesCze_2-1_R-A9_1_12142.mzML SUBJECT_SAMPLE_FACTORS - Nestin Cre 2-2N Genotype:Nes-Cre+ RAW_FILE_NAME=2021030N_NesCze_2-2_R-A9_1_12149.mzML SUBJECT_SAMPLE_FACTORS - Nestin Cre 2-3N Genotype:Nes-Cre+ RAW_FILE_NAME=2021030N_NesCze_2-3_R-A9_1_12156.mzML #COLLECTION CO:COLLECTION_SUMMARY Mouse sub ventricular zone tissue was micro dissected and frozen in liquid CO:COLLECTION_SUMMARY nitrogen and stored in -80C till further processing. CO:COLLECTION_PROTOCOL_FILENAME SVZ_Dissection_Protocol-Roychaudhuri_et_al.pdf CO:SAMPLE_TYPE sub ventricular zone tissue #TREATMENT TR:TREATMENT_SUMMARY No treatment was performed. Nestin -cre+ mice used in the study are conditional TR:TREATMENT_SUMMARY knockout for Serine Racemase. TR:TREATMENT_PROTOCOL_FILENAME Treatment_Protocol-Roychaudhuri_et_al.pdf #SAMPLEPREP SP:SAMPLEPREP_SUMMARY SVZ Tissues were micro dissected according to protocol. SP:SAMPLEPREP_PROTOCOL_FILENAME SVZ_Dissection_Protocol-Roychaudhuri_et_al.pdf #CHROMATOGRAPHY CH:CHROMATOGRAPHY_TYPE Reversed phase CH:INSTRUMENT_NAME Thermo Vanquish CH:COLUMN_NAME Waters ACQUITY UPLC CSH C18 (150 x 2.1mm,1.7um) CH:SOLVENT_A Nova MT MixA CH:SOLVENT_B Nova MT MixB CH:FLOW_GRADIENT Nova MT 26 min gradient CH:FLOW_RATE 250 microliter/min CH:COLUMN_TEMPERATURE 42 CH:METHODS_FILENAME MS_Metadata-Roychaudhuri_et_al.pdf #ANALYSIS AN:ANALYSIS_TYPE MS AN:ANALYSIS_PROTOCOL_FILE MS_Metadata-Roychaudhuri_et_al.pdf #MS MS:INSTRUMENT_NAME Bruker micrOTOF-Q II QTOF MS:INSTRUMENT_TYPE QTOF MS:MS_TYPE ESI MS:ION_MODE NEGATIVE MS:MS_COMMENTS m/z 150-1500 range Lipid features were extracted and aligned using NovaMT MS:MS_COMMENTS LipidScreener. MS:MS_RESULTS_FILE ST002705_AN004386_Results.txt UNITS:intensity Has m/z:Yes Has RT:Yes RT units:Minutes #END