{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST001796","ANALYSIS_ID":"AN002917","VERSION":"1","CREATED_ON":"May 20, 2021, 1:19 pm"},

"PROJECT":{"PROJECT_TITLE":"Changes in mesenteric lymph lipid profile of mice upon high-fat diet with and without Celecoxib","PROJECT_TYPE":"Untargeted lipidomics","PROJECT_SUMMARY":"Untargeted lipidomic profiling of mice mesenteric lymph upon HFD diet and HFD supplemented with COX-2 inhibitor drug Celecoxib. It is proposed that Celecoxib can rescue from negative morphological changes induced by obesity/HFD diet in lymphatic system.","INSTITUTE":"Monash Institute of Pharmaceutical Sciences","DEPARTMENT":"Drug Delivery, Disposition and Dynamics","LABORATORY":"Trevaskis Lab, Creek Lab","LAST_NAME":"Anderson","FIRST_NAME":"Dovile","ADDRESS":"399 Royal Pd","EMAIL":"dovile.anderson@monash.edu","PHONE":"+61448671141","FUNDING_SOURCE":"Department of Health | National Health and Medical Research Council (NHMRC) - 1100036 [Trevaskis]","PROJECT_COMMENTS":"This lipidomics project is part of a larger obesity/lymph research as described in the manuscript","PUBLICATIONS":"Manuscript NATMETAB-A20022406A Mesenteric lymphatic dysfunction promotes insulin resistance and represents a potential novel treatment target in obesity","CONTRIBUTORS":"Dr Enyuan Cao , Matthew Watt , Cameron Nowell , Dr Tim Quach , Jamie Simpson , Ms Violena Ferreira , Sonya Argawal , Hannah Chu , Anubhav Srivastava , Dr Dovile Anderson , Gracia Gracia , Alina Lam , Gabriela Segal , Jiwon Hong , Dr Luojuan Hu , Kian Lium Phang , Alistair Escott , Professor John Windsor , Anthony Phillips , Darren Creek , Professor Natasha Harvey , Professor Christopher Porter"},

"STUDY":{"STUDY_TITLE":"Changes in mesenteric lymph lipid profile of mice upon high-fat diet with and without Celecoxib","STUDY_TYPE":"Untargeted lipidomics analysis","STUDY_SUMMARY":"Untargeted lipid profiling of mesenteric mice lymph from mice fed with CHOW, HFD and HFD supplemented with COx-2 inhibitor drug Celecoxib. It is proposed that Celecoxib can protect from deleterious morphological changes in lymphatic system caused by obesity due to HFD.","INSTITUTE":"Monash Institute of Pharmaceutical Sciences","DEPARTMENT":"Drug Delivery, Disposition and Dynamics","LABORATORY":"Trevaskis Lab, Creek Lab","LAST_NAME":"Anderson","FIRST_NAME":"Dovile","ADDRESS":"6 Anderson","EMAIL":"dovile.anderson@gmail.com","PHONE":"8671141","NUM_GROUPS":"4","TOTAL_SUBJECTS":"20","NUM_MALES":"20","PUBLICATIONS":"Manuscript NATMETAB-A20022406A Mesenteric lymphatic dysfunction promotes insulin resistance and represents a potential novel treatment target in obesity"},

"SUBJECT":{"SUBJECT_TYPE":"Mammal","SUBJECT_SPECIES":"Mus musculus","TAXONOMY_ID":"10090","GENOTYPE_STRAIN":"C57BL6/J","AGE_OR_AGE_RANGE":"6-7 weeks","GENDER":"Male","ANIMAL_HOUSING":"temperature-controlled room under specific-pathogen free (SPF) or standard animal housing conditions with free access to food and water","ANIMAL_FEED":"semi-purified normal chow diet (control fat diet (CFD), 7% w/w fat and 16% total energy from fat; AIN93G, Specialty Feeds Pty Ltd, Australia) or high fat diet (HFD, 36% w/w fat and 59% total energy from fat; SF03-002, Specialty Feeds Pty Ltd, Australia)","ANIMAL_WATER":"ad libitum"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"cele_HFD_1",
"Factors":{"Treatment":"cele_HFD"},
"Additional sample data":{"RAW_FILE_NAME":"cele_HFD_1"}
},
{
"Subject ID":"-",
"Sample ID":"cele_HFD_2",
"Factors":{"Treatment":"cele_HFD"},
"Additional sample data":{"RAW_FILE_NAME":"cele_HFD_2"}
},
{
"Subject ID":"-",
"Sample ID":"cele_HFD_3",
"Factors":{"Treatment":"cele_HFD"},
"Additional sample data":{"RAW_FILE_NAME":"cele_HFD_3"}
},
{
"Subject ID":"-",
"Sample ID":"cele_HFD_4",
"Factors":{"Treatment":"cele_HFD"},
"Additional sample data":{"RAW_FILE_NAME":"cele_HFD_4"}
},
{
"Subject ID":"-",
"Sample ID":"cele_HFD_5",
"Factors":{"Treatment":"cele_HFD"},
"Additional sample data":{"RAW_FILE_NAME":"cele_HFD_5"}
},
{
"Subject ID":"-",
"Sample ID":"Cele_pro_HFD_2",
"Factors":{"Treatment":"Cele_pro"},
"Additional sample data":{"RAW_FILE_NAME":"Cele_pro_HFD_2"}
},
{
"Subject ID":"-",
"Sample ID":"Cele_pro_HFD_3",
"Factors":{"Treatment":"Cele_pro"},
"Additional sample data":{"RAW_FILE_NAME":"Cele_pro_HFD_3"}
},
{
"Subject ID":"-",
"Sample ID":"Cele_pro_HFD_4",
"Factors":{"Treatment":"Cele_pro"},
"Additional sample data":{"RAW_FILE_NAME":"Cele_pro_HFD_4"}
},
{
"Subject ID":"-",
"Sample ID":"CFD_1",
"Factors":{"Treatment":"CFD"},
"Additional sample data":{"RAW_FILE_NAME":"CFD_1"}
},
{
"Subject ID":"-",
"Sample ID":"CFD_2",
"Factors":{"Treatment":"CFD"},
"Additional sample data":{"RAW_FILE_NAME":"CFD_2"}
},
{
"Subject ID":"-",
"Sample ID":"CFD_3",
"Factors":{"Treatment":"CFD"},
"Additional sample data":{"RAW_FILE_NAME":"CFD_3"}
},
{
"Subject ID":"-",
"Sample ID":"CFD_4",
"Factors":{"Treatment":"CFD"},
"Additional sample data":{"RAW_FILE_NAME":"CFD_4"}
},
{
"Subject ID":"-",
"Sample ID":"HFD_1",
"Factors":{"Treatment":"HFD"},
"Additional sample data":{"RAW_FILE_NAME":"HFD_1"}
},
{
"Subject ID":"-",
"Sample ID":"HFD_2",
"Factors":{"Treatment":"HFD"},
"Additional sample data":{"RAW_FILE_NAME":"HFD_2"}
},
{
"Subject ID":"-",
"Sample ID":"HFD_3",
"Factors":{"Treatment":"HFD"},
"Additional sample data":{"RAW_FILE_NAME":"HFD_3"}
},
{
"Subject ID":"-",
"Sample ID":"HFD_4",
"Factors":{"Treatment":"HFD"},
"Additional sample data":{"RAW_FILE_NAME":"HFD_4"}
},
{
"Subject ID":"-",
"Sample ID":"HFD_5",
"Factors":{"Treatment":"HFD"},
"Additional sample data":{"RAW_FILE_NAME":"HFD_5"}
},
{
"Subject ID":"-",
"Sample ID":"HFD_6",
"Factors":{"Treatment":"HFD"},
"Additional sample data":{"RAW_FILE_NAME":"HFD_6"}
},
{
"Subject ID":"-",
"Sample ID":"HFD_7",
"Factors":{"Treatment":"HFD"},
"Additional sample data":{"RAW_FILE_NAME":"HFD_7"}
}
],
"COLLECTION":{"COLLECTION_SUMMARY":"The efferent mesenteric lymphatic duct was cannulated in isoflurane anaesthetised non-fasted mice or rats and lymph fluid was collected for up to 4 h. For the lymphatic drug transport study, lymph was collected in mice that were fasted for 3-4 h. The mesenteric lymph duct cannulation was performed as described previously in rats4 and mice5 and mesenteric lymph fluid was collected continuously for up to 6 h.","SAMPLE_TYPE":"Mesenteric lymph","STORAGE_CONDITIONS":"-80?"},

"TREATMENT":{"TREATMENT_SUMMARY":"Celecoxib was incorporated into HFD feed at a dose equivalent to ~29 mg/kg/day (based on average food intake). Mice were fed for 15 weeks CFD diet (one group) and HFD diet (three groups). After 15 weeks two of the HFD groups were switched on HFD diet supplemented with Celecoxib and Celecoxib prodrug while other two groups continued unchanged CFD and HFD diets. Analysis at 22-34 weeks."},

"SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"For lipidomics analysis, lipid was extracted from mesenteric lymph by chloroform:methanol (1:3). Samples were vortexed for 1 h at 4°C and then centrifuged at 16,000 g for 10 min. Supernatant was carefully transferred to another tube and stored at -80°C until analysis. Before LC-MS analysis, the extract was dried with nitrogen and reconstituted in 20 µl water and 180 µl butanol-methanol (1:1 v/v). The reconstituted extract was vortexed (Vortex mixer, Ratek) for 200 sec with 20 cycles of 5 sec spin and 20 sec vortex. The extract was sonicated in a water bath for 1 hour which was maintained at <20°C by sonicating the samples on ice. The samples were then centrifuged for 10 min at 16,000 g and the supernatant was transferred to LC-MS vials and stored at 4°C prior to analysis.","PROCESSING_STORAGE_CONDITIONS":"4?","EXTRACT_STORAGE":"-80?"},

"CHROMATOGRAPHY":{"CHROMATOGRAPHY_SUMMARY":"Lipidomics analysis was performed using reversed phase liquid chromatography and high-resolution mass spectrometry. Samples (10 µl) were injected onto a Dionex Ultimate 3000 UHPLC system (Thermo Scientific, Australia) fitted with an analytical C8 column (100 x 2.1 mm; 2.7 µm, Sigma Aldrich, Australia). Chromatography was performed using solvent A (2 mM formic acid, 8 mM ammonium formate, 40% v/v isopropanol) and solvent B (2 mM formic acid, 8 mM ammonium formate, 98% v/v isopropanol) as mobile phases with a 30 min gradient starting at 0% B and increasing to 35% B from 0 to 8 min, then to 50% B from 8-16 min, then to 80% B from 16-19 min, then finally to 100% B by 23 min. 100% B was maintained for a further 3 min before equilibrating to 0% by 28 min and washing for a further 2 min.","CHROMATOGRAPHY_TYPE":"Reversed phase","INSTRUMENT_NAME":"Thermo Dionex Ultimate 3000 RS","COLUMN_NAME":"Sigma Aldrich, Supleco, C8, 100 x 2.1 mm; 2.7 µm","FLOW_GRADIENT":"0 min - 0%B, 8 min - 35%B, 16 min - 50%B, 19 min - 80%B, 23 min 100%B, 26 min - 100%B, 28 min - 0%B","FLOW_RATE":"0.2 ml/min","COLUMN_TEMPERATURE":"40C","SOLVENT_A":"2 mM formic acid, 8 mM ammonium formate, 40% v/v isopropanol","SOLVENT_B":"2 mM formic acid, 8 mM ammonium formate, 98% v/v isopropanol","INJECTION_TEMPERATURE":"4","ANALYTICAL_TIME":"30 min","OVEN_TEMPERATURE":"40C","SAMPLE_LOOP_SIZE":"25 uL","SAMPLE_SYRINGE_SIZE":"25 uL"},

"ANALYSIS":{"ANALYSIS_TYPE":"MS","LABORATORY_NAME":"Creek Lab","DETECTOR_TYPE":"orbitrap","SOFTWARE_VERSION":"XCalibur","DATA_FORMAT":".RAW"},

"MS":{"INSTRUMENT_NAME":"Thermo Q Exactive Orbitrap","INSTRUMENT_TYPE":"Orbitrap","MS_TYPE":"ESI","ION_MODE":"POSITIVE","MS_COMMENTS":"Pos and neg data were acquired during the same chromatographic run using polarity switching. Full scan acquisition mode, resolution 140k, AGC target 3e6, max IT 200 ms, mass range 140-2000 m/z, number of scans 1","MASS_ACCURACY":"3 ppm","AUTOMATIC_GAIN_CONTROL":"3e6","DESOLVATION_GAS_FLOW":"34","INTERFACE_VOLTAGE":"3.5 kV"},

"MS_METABOLITE_DATA":{
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