{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST000178","ANALYSIS_ID":"AN000275","VERSION":"1","CREATED_ON":"01-15-2019"},

"PROJECT":{"PROJECT_TITLE":"Graft-Versus-Host Disease","PROJECT_SUMMARY":"T cell metabolism during graft-versus-host disease","INSTITUTE":"University of Michigan","DEPARTMENT":"Pediatrics","LABORATORY":"Ferrara lab","LAST_NAME":"Byersdorfer","FIRST_NAME":"Craig","ADDRESS":"Ann Arbor, MI","EMAIL":"craigbye@med.umich.edu","PHONE":"734-000-0000","DOI":"http://dx.doi.org/10.21228/M8B01C"},

"STUDY":{"STUDY_TITLE":"T cell metabolism during graft-versus-host disease (CAB 307)-PART I","STUDY_TYPE":"Glycolysis/TCA/Nucleotide analysis (tissue/cells)","STUDY_SUMMARY":"T cells were injected into mice to model graft-versus-host disease.  On day 7 after bone marrow transplantation (BMT), cells were recovered and CD8 T cells were purified to > 90% purity over magnetic columns.  Naïve T cells were used as control. Cells were then plated at 5x10^6 cells/ml onto plates coated with anti-CD3/CD28 antibodies in the presence of 300µM 13C-palmitate conjugated to BSA (in PBS).  Cells were incubated at 37oC for 60min, after which time they were removed from the plates, counted, and an equal number (2.5x10^6) were placed into a 1.7 ml micro-centrifuge tubes and spun down.  Cells were washed once with ammonium chloride, residual volume was removed by a second brief spin, cell pellets were flash frozen in liquid nitrogen and stored at -80oC until analysis. Several mice lines were used in this study.","INSTITUTE":"University of Michigan","DEPARTMENT":"Biomedical Research Core Facilities","LABORATORY":"Metabolomics core","LAST_NAME":"Kachman","FIRST_NAME":"Maureen","ADDRESS":"6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714","EMAIL":"mkachman@umich.edu","PHONE":"-"},

"SUBJECT":{"SUBJECT_TYPE":"Animal","SUBJECT_SPECIES":"Mus musculus","TAXONOMY_ID":"10090","SPECIES_GROUP":"Mammal"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"SU0004282",
"Sample ID":"S00015097",
"Factors":{"Treatment":"Control"}
},
{
"Subject ID":"SU0004282",
"Sample ID":"S00015098",
"Factors":{"Treatment":"Control"}
},
{
"Subject ID":"SU0004282",
"Sample ID":"S00015099",
"Factors":{"Treatment":"Control"}
},
{
"Subject ID":"SU0004282",
"Sample ID":"S00015100",
"Factors":{"Treatment":"Control"}
},
{
"Subject ID":"SU0004281",
"Sample ID":"S00015094",
"Factors":{"Treatment":"GVHD"}
},
{
"Subject ID":"SU0004281",
"Sample ID":"S00015095",
"Factors":{"Treatment":"GVHD"}
},
{
"Subject ID":"SU0004281",
"Sample ID":"S00015096",
"Factors":{"Treatment":"GVHD"}
}
],
"COLLECTION":{"SAMPLE_TYPE":"Cells","COLLECTION_SUMMARY":"-"},

"TREATMENT":{"TREATMENT_SUMMARY":"-"},

"SAMPLEPREP":{"SAMPLEPREP_PROTOCOL_FILENAME":"Gly-TCA-nucleotides_analysis_protocol-2015-03-09.docx","SAMPLEPREP_SUMMARY":"-"},

"CHROMATOGRAPHY":{"METHODS_ID":"AQM011","METHODS_FILENAME":"ALPHA_KETO_ACIDS-FULL.M.zip","INSTRUMENT_NAME":"Agilent 7890A","COLUMN_NAME":"Agilent DB5-MS (30m × 0.25mm, 0.25um)","CHROMATOGRAPHY_TYPE":"GC"},

"ANALYSIS":{"LABORATORY_NAME":"MRC2 (University of Michigan)","ANALYSIS_TYPE":"MS","ACQUISITION_PARAMETERS_FILE":"ALPHA_KETO_ACIDS-FULL.M.zip","PROCESSING_PARAMETERS_FILE":"EX00317-MassHunterQuant-GlyTCA-DataAnalysis-GCMS-Method.m.zip"},

"MS":{"MS_COMMENTS":"-","INSTRUMENT_NAME":"Agilent 5975C","INSTRUMENT_TYPE":"Single quadrupole","MS_TYPE":"EI","ION_MODE":"POSITIVE"},

"MS_METABOLITE_DATA":{
"Units":"pmol/µg protein",

"Data":[{"Metabolite":"Alanine","S00015097":"","S00015098":"","S00015099":"","S00015100":"","S00015094":"1.1190","S00015095":"0.9812","S00015096":"1.4374"},{"Metabolite":"alpha-Ketoglutarate","S00015097":"0.6082","S00015098":"0.6201","S00015099":"0.6114","S00015100":"0.4602","S00015094":"0.4289","S00015095":"0.3928","S00015096":"0.4765"},{"Metabolite":"Aspartate","S00015097":"11.5010","S00015098":"12.0246","S00015099":"17.0131","S00015100":"8.5928","S00015094":"24.8296","S00015095":"24.0247","S00015096":"27.3494"},{"Metabolite":"fumarate","S00015097":"1.2111","S00015098":"1.2342","S00015099":"1.2184","S00015100":"0.9111","S00015094":"0.9026","S00015095":"0.8082","S00015096":"0.9775"},{"Metabolite":"Glutamate","S00015097":"0.9925","S00015098":"0.9029","S00015099":"0.8984","S00015100":"0.5906","S00015094":"1.8674","S00015095":"1.7041","S00015096":"2.1098"},{"Metabolite":"glutamine","S00015097":"","S00015098":"","S00015099":"","S00015100":"2.2511","S00015094":"1.8603","S00015095":"1.8879","S00015096":"2.0947"},{"Metabolite":"Lactate","S00015097":"","S00015098":"1.8413","S00015099":"1.5102","S00015100":"","S00015094":"1.2362","S00015095":"2.8291","S00015096":"1.2722"},{"Metabolite":"Oxaloacetate","S00015097":"","S00015098":"","S00015099":"","S00015100":"","S00015094":"","S00015095":"","S00015096":""},{"Metabolite":"pyruvate","S00015097":"3.0709","S00015098":"3.1656","S00015099":"3.1729","S00015100":"2.3696","S00015094":"2.4151","S00015095":"2.2261","S00015096":"2.8650"}],

"Metabolites":[{"Metabolite":"Alanine","pubchem_id":"5950","inchi_key":"","kegg_id":"C00041","other_id":"ALA","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"alpha-Ketoglutarate","pubchem_id":"51","inchi_key":"","kegg_id":"C00026","other_id":"AKG","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"Aspartate","pubchem_id":"5960","inchi_key":"","kegg_id":"C00049","other_id":"ASP","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"fumarate","pubchem_id":"444972","inchi_key":"","kegg_id":"C00122","other_id":"FUM","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"Glutamate","pubchem_id":"611","inchi_key":"","kegg_id":"","other_id":"GLU","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"glutamine","pubchem_id":"5961","inchi_key":"","kegg_id":"C00064","other_id":"GLN","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"Lactate","pubchem_id":"107689","inchi_key":"","kegg_id":"C00186","other_id":"LAC","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"Oxaloacetate","pubchem_id":"970","inchi_key":"","kegg_id":"C00036","other_id":"OAA","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""},{"Metabolite":"pyruvate","pubchem_id":"1060","inchi_key":"","kegg_id":"C00022","other_id":"PYR","other_id_type":"UM_Target_ID","ri":"","ri_type":"","moverz_quant":"","":""}]
}

}