#METABOLOMICS WORKBENCH amitch_20160114_9407421_mwtab.txt DATATRACK_ID:481 kenanazam_20160121_111839 STUDY_ID:ST000337 ANALYSIS_ID:AN000546 PROJECT_ID:PR000269
VERSION             	1
CREATED_ON             	January 21, 2016, 11:48 am
#PROJECT
PR:PROJECT_TITLE                 	Metabolomics approach to allograft assessment in liver transplantation
PR:PROJECT_TYPE                  	Retrospective analysis of biobank samples
PR:PROJECT_SUMMARY               	Organ shortage is the primary limiting factor in liver transplantation and has
PR:PROJECT_SUMMARY               	led to expanded utilization of livers from marginal donors. Assessment of liver
PR:PROJECT_SUMMARY               	allograft quality is currently based on clinical factors such as donor age,
PR:PROJECT_SUMMARY               	cause of death, liver function, routine clinical laboratory values and extent of
PR:PROJECT_SUMMARY               	graft steatosis (fat content). Expanded utilization necessitates a more detailed
PR:PROJECT_SUMMARY               	assessment of liver allograft quality to guide decisions regarding suitability
PR:PROJECT_SUMMARY               	for transplantation. Using a metabolomics approach, we plan to capture molecular
PR:PROJECT_SUMMARY               	snapshots of the physiologic state of the graft and to elucidate biomarkers of
PR:PROJECT_SUMMARY               	allograft quality and graft function post-transplant.
PR:INSTITUTE                     	Ochsner Multi-Organ Transplant Institute / SECIM
PR:DEPARTMENT                    	Abdominal Organ Transplantation
PR:LABORATORY                    	-
PR:LAST_NAME                     	Seal
PR:FIRST_NAME                    	John
PR:ADDRESS                       	1514 Jefferson Highway, New Orleans, LA 70121
PR:EMAIL                         	John.Seal@ochsner.org
PR:PHONE                         	504-232-4253
PR:FUNDING_SOURCE                	SECIM Pilot and Feasibility Award
#STUDY
ST:STUDY_TITLE                   	Metabolomics Approach to Allograft Assessment in Liver Transplantation
ST:STUDY_TYPE                    	Retrospective analysis of biobanked liver tissue from organ donors
ST:STUDY_SUMMARY                 	This pilot study is designed to apply several types of metabolomic analysis for
ST:STUDY_SUMMARY                 	liver allograft assessment with the aim of identifying candidate biomarkers for
ST:STUDY_SUMMARY                 	allograft function and to develop a methodology that could be applied to larger
ST:STUDY_SUMMARY                 	scale studies. The three main categories of metabolomic analysis are reflected
ST:STUDY_SUMMARY                 	in each of the specific aims, including a targeted profiling of central carbon
ST:STUDY_SUMMARY                 	metabolism, open lipidomic and metabolomic profiling for hypothesis generation
ST:STUDY_SUMMARY                 	and MALDI-IMS for tissue-based spatial analysis. Each of these approaches offers
ST:STUDY_SUMMARY                 	potential benefits that could be optimized in a protocol for larger scale
ST:STUDY_SUMMARY                 	studies depending the results of the pilot investigations.
ST:INSTITUTE                     	Ochsner Multi-Organ Transplant Institute
ST:DEPARTMENT                    	SECIM
ST:LABORATORY                    	Abdominal Organ Transplantation
ST:LAST_NAME                     	Seal
ST:FIRST_NAME                    	John
ST:ADDRESS                       	1514 Jefferson Highway, New Orleans, LA 70121
ST:EMAIL                         	John.Seal@ochsner.org
ST:PHONE                         	504-232-4253
ST:NUM_GROUPS                    	3
ST:TOTAL_SUBJECTS                	Targeted analysis and open profiling: Control group - standard criteria donor
ST:TOTAL_SUBJECTS                	(N=15); Experimental group - donation-after-cardiac-death donors (N=10).
ST:TOTAL_SUBJECTS                	MALDI-IMS - standard criteria donor (N=10)
#SUBJECT
SU:SUBJECT_TYPE                  	Human tissue (Decendent)
SU:SUBJECT_SPECIES               	Homo sapiens
SU:TAXONOMY_ID                   	9606
SU:GENOTYPE_STRAIN               	Not applicable
SU:AGE_OR_AGE_RANGE              	Variable
SU:WEIGHT_OR_WEIGHT_RANGE        	Variable
SU:HEIGHT_OR_HEIGHT_RANGE        	Variable
SU:GENDER                        	Variable
SU:HUMAN_RACE                    	Variable
SU:HUMAN_ETHNICITY               	Variable
SU:HUMAN_TRIAL_TYPE              	Not applicable
SU:HUMAN_LIFESTYLE_FACTORS       	Not applicable
SU:HUMAN_MEDICATIONS             	Not applicable
SU:HUMAN_PRESCRIPTION_OTC        	Not applicable
SU:HUMAN_SMOKING_STATUS          	Not applicable
SU:HUMAN_ALCOHOL_DRUG_USE        	Not applicable
SU:HUMAN_NUTRITION               	Not applicable
SU:HUMAN_INCLUSION_CRITERIA      	Deceased organ donor with consent for use of tissue for research
SU:HUMAN_EXCLUSION_CRITERIA      	None
SU:ANIMAL_ANIMAL_SUPPLIER        	in house/in house
SU:SUBJECT_COMMENTS              	Liver biopsy is routinely performed on livers used for solid organ
SU:SUBJECT_COMMENTS              	transplantation. The tissue is from decedent subjects. Consent for use of tissue
SU:SUBJECT_COMMENTS              	is obtained at the time of organ donation by the local organ procurement
SU:SUBJECT_COMMENTS              	organization.
#SUBJECT_SAMPLE_FACTORS:         	SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Additional sample data
SUBJECT_SAMPLE_FACTORS           	-	114291	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=1/20/2015; OPO=AROR; ABO=A; AGE (years)=46; RACE=CAU; SEX=F; DONOR HEIGHT (cm)=163; DONOR WEIGHT (kg)=74.4; Hep C Positive Donor=NO; Cold Ischemia (min)=327; Cold Ischemia (Hrs)=5.45; DCD DONOR=YES; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	116707	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=2/7/2015; OPO=LAOP; ABO=A; AGE (years)=52; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=175.26; DONOR WEIGHT (kg)=96.79; Hep C Positive Donor=NO; Cold Ischemia (min)=278; Cold Ischemia (Hrs)=4.63; DCD DONOR=YES; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	115165	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=4/1/2015; OPO=TXSB; ABO=O; AGE (years)=59; RACE=CAU; SEX=F; DONOR HEIGHT (cm)=165; DONOR WEIGHT (kg)=63; Hep C Positive Donor=NO; Cold Ischemia (min)=323; Cold Ischemia (Hrs)=5.38; DCD DONOR=YES; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	115333	DONOR CAUSE OF DEATH:Cerebrovascular/Stroke	RECOVERY DATE=4/10/2015; OPO=PADV; ABO=B; AGE (years)=44; RACE=BLK; SEX=M; DONOR HEIGHT (cm)=180.34; DONOR WEIGHT (kg)=59; Hep C Positive Donor=NO; Cold Ischemia (min)=454; Cold Ischemia (Hrs)=7.57; DCD DONOR=YES; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	115342	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=4/10/2015; OPO=LAOP; ABO=B; AGE (years)=46; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=180.34; DONOR WEIGHT (kg)=103.78; Hep C Positive Donor=NO; Cold Ischemia (min)=216; Cold Ischemia (Hrs)=3.60; DCD DONOR=YES; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	117751	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=6/25/2015; OPO=LAOP; ABO=O; AGE (years)=48; RACE=BLK; SEX=M; DONOR HEIGHT (cm)=182.9; DONOR WEIGHT (kg)=105.9; Hep C Positive Donor=NO; Cold Ischemia (min)=228; Cold Ischemia (Hrs)=3.80; DCD DONOR=YES; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121063	DONOR CAUSE OF DEATH:Cerebrovascular/Stroke	RECOVERY DATE=8/26/2015; OPO=LAOP; ABO=B; AGE (years)=48; RACE=BLK; SEX=F; DONOR HEIGHT (cm)=154.94; DONOR WEIGHT (kg)=119.15; Hep C Positive Donor=NO; Cold Ischemia (min)=207; Cold Ischemia (Hrs)=3.45; DCD DONOR=YES; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	120237	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=8/5/2015; OPO=LAOP; ABO=O; AGE (years)=40; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=177.8; DONOR WEIGHT (kg)=82.8; Hep C Positive Donor=NO; Cold Ischemia (min)=320; Cold Ischemia (Hrs)=5.33; DCD DONOR=YES; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	120240	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=8/6/2015; OPO=TNDS; ABO=AB; AGE (years)=27; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=183; DONOR WEIGHT (kg)=93.3; Hep C Positive Donor=NO; Cold Ischemia (min)=293; Cold Ischemia (Hrs)=4.88; DCD DONOR=YES; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	120257	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=8/15/2015; OPO=ALOB; ABO=O; AGE (years)=28; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=183; DONOR WEIGHT (kg)=78; Hep C Positive Donor=YES; Cold Ischemia (min)=226; Cold Ischemia (Hrs)=3.77; DCD DONOR=YES; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121095	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=9/22/2015; OPO=LAOP; ABO=O; AGE (years)=23; RACE=BLK; SEX=F; DONOR HEIGHT (cm)=170.18; DONOR WEIGHT (kg)=61.37; Hep C Positive Donor=NO; Cold Ischemia (min)=171; Cold Ischemia (Hrs)=2.85; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	114300	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=1/31/2015; OPO=LAOP; ABO=A; AGE (years)=25; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=182.88; DONOR WEIGHT (kg)=66.22; Hep C Positive Donor=NO; Cold Ischemia (min)=377; Cold Ischemia (Hrs)=6.28; DCD DONOR=NO; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	116736	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=4/11/2015; OPO=LAOP; ABO=B; AGE (years)=25; RACE=BLK; SEX=F; DONOR HEIGHT (cm)=139.7; DONOR WEIGHT (kg)=84.14; Hep C Positive Donor=NO; Cold Ischemia (min)=281; Cold Ischemia (Hrs)=4.68; DCD DONOR=NO; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121087	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=9/18/2015; OPO=LAOP; ABO=O; AGE (years)=26; RACE=BLK; SEX=M; DONOR HEIGHT (cm)=175.26; DONOR WEIGHT (kg)=74.84; Hep C Positive Donor=NO; Cold Ischemia (min)=366; Cold Ischemia (Hrs)=6.10; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	117323	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=6/8/2015; OPO=LAOP; ABO=O; AGE (years)=27; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=177.8; DONOR WEIGHT (kg)=67.8; Hep C Positive Donor=NO; Cold Ischemia (min)=262; Cold Ischemia (Hrs)=4.37; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121091	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=9/20/2015; OPO=LAOP; ABO=O; AGE (years)=31; RACE=CAU; SEX=F; DONOR HEIGHT (cm)=172.72; DONOR WEIGHT (kg)=77.65; Hep C Positive Donor=NO; Cold Ischemia (min)=414; Cold Ischemia (Hrs)=6.90; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121089	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=9/19/2015; OPO=LAOP; ABO=O; AGE (years)=34; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=182.88; DONOR WEIGHT (kg)=95; Hep C Positive Donor=NO; Cold Ischemia (min)=46; Cold Ischemia (Hrs)=0.77; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	116709	DONOR CAUSE OF DEATH:Trauma	RECOVERY DATE=2/17/2015; OPO=LAOP; ABO=O; AGE (years)=35; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=182.88; DONOR WEIGHT (kg)=72.57; Hep C Positive Donor=NO; Cold Ischemia (min)=367; Cold Ischemia (Hrs)=6.12; DCD DONOR=NO; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	114647	DONOR CAUSE OF DEATH:Cerebrovascular/Stroke	RECOVERY DATE=2/12/2015; OPO=LAOP; ABO=O; AGE (years)=39; RACE=BLK; SEX=F; DONOR HEIGHT (cm)=170.18; DONOR WEIGHT (kg)=80.83; Hep C Positive Donor=NO; Cold Ischemia (min)=156; Cold Ischemia (Hrs)=2.60; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	118601	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=7/19/2015; OPO=LAOP; ABO=A1; AGE (years)=39; RACE=CAU; SEX=F; DONOR HEIGHT (cm)=154.9; DONOR WEIGHT (kg)=62.5; Hep C Positive Donor=NO; Cold Ischemia (min)=236; Cold Ischemia (Hrs)=3.93; DCD DONOR=NO; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121079	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=9/8/2015; OPO=LAOP; ABO=O; AGE (years)=40; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=160; DONOR WEIGHT (kg)=67.2; Hep C Positive Donor=NO; Cold Ischemia (min)=338; Cold Ischemia (Hrs)=5.63; DCD DONOR=NO; PHS Increased Risk Donor=YES; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121364	DONOR CAUSE OF DEATH:CVA	RECOVERY DATE=10/7/2015; OPO=LAOP; ABO=O; AGE (years)=43; RACE=CAU; SEX=M; DONOR HEIGHT (cm)=172.72; DONOR WEIGHT (kg)=82.9; Hep C Positive Donor=NO; Cold Ischemia (min)=54; Cold Ischemia (Hrs)=0.90; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121358	DONOR CAUSE OF DEATH:CVA	RECOVERY DATE=10/4/2015; OPO=LAOP; ABO=O; AGE (years)=44; RACE=BLK; SEX=F; DONOR HEIGHT (cm)=162.6; DONOR WEIGHT (kg)=53.9; Hep C Positive Donor=NO; Cold Ischemia (min)=246; Cold Ischemia (Hrs)=4.10; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	121356	DONOR CAUSE OF DEATH:CVA	RECOVERY DATE=10/3/2015; OPO=LAOP; ABO=O; AGE (years)=49; RACE=BLK; SEX=M; DONOR HEIGHT (cm)=167.6; DONOR WEIGHT (kg)=52.4; Hep C Positive Donor=NO; Cold Ischemia (min)=336; Cold Ischemia (Hrs)=5.60; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
SUBJECT_SAMPLE_FACTORS           	-	115347	DONOR CAUSE OF DEATH:Anoxia	RECOVERY DATE=4/23/2015; OPO=LAOP; ABO=B; AGE (years)=49; RACE=BLK; SEX=F; DONOR HEIGHT (cm)=162.56; DONOR WEIGHT (kg)=73.84; Hep C Positive Donor=NO; Cold Ischemia (min)=280; Cold Ischemia (Hrs)=4.67; DCD DONOR=NO; PHS Increased Risk Donor=NO; Hepatits B Core Ab +=NO
#COLLECTION
CO:COLLECTION_SUMMARY            	A wedge biopsy of the right lobe of the liver is routinely obtained prior to
CO:COLLECTION_SUMMARY            	transplantation. The sample is immediately flash frozen in the operating room
CO:COLLECTION_SUMMARY            	and subsequently transferred to Ochsner Biobank for sample storage.
CO:SAMPLE_TYPE                   	Liver Tissue
CO:COLLECTION_METHOD             	Open biopsy during cold storage preservation of organ for transplant
CO:COLLECTION_LOCATION           	Operating room of liver transplant during
CO:COLLECTION_FREQUENCY          	Single sample prior to transplant
CO:COLLECTION_DURATION           	Not applicable
CO:COLLECTION_TIME               	Not applicable
CO:VOLUMEORAMOUNT_COLLECTED      	~50mg
CO:STORAGE_CONDITIONS            	-180 degree C, liquid nitrogen vapor phase
CO:COLLECTION_VIALS              	ThermoScientific CryoTube vials, 1.8mL
CO:STORAGE_VIALS                 	ThermoScientific CryoTube vials, 1.8mL
CO:COLLECTION_TUBE_TEMP          	-70 degree liguid nitrogen flash freezing
CO:ADDITIVES                     	None
CO:BLOOD_SERUM_OR_PLASMA         	N/A
CO:TISSUE_CELL_IDENTIFICATION    	N/A
CO:TISSUE_CELL_QUANTITY_TAKEN    	N/A
#TREATMENT
TR:TREATMENT_SUMMARY             	Not Applicable
TR:TREATMENT_PROTOCOL_ID         	Not Applicable
TR:TREATMENT_PROTOCOL_FILENAME   	Not Applicable
TR:TREATMENT_PROTOCOL_COMMENTS   	Not Applicable
TR:TREATMENT                     	Not Applicable
TR:TREATMENT_COMPOUND            	Not Applicable
TR:TREATMENT_ROUTE               	Not Applicable
TR:TREATMENT_DOSE                	Not Applicable
TR:TREATMENT_DOSEVOLUME          	Not Applicable
TR:TREATMENT_DOSEDURATION        	Not Applicable
TR:TREATMENT_VEHICLE             	Not Applicable
#SAMPLEPREP
SP:SAMPLEPREP_SUMMARY            	Amino acid assay|CoA assay|NAD-ATP assay|NADH assay|Organic acid assay
SP:SAMPLEPREP_PROTOCOL_ID        	SB_AA_Assay.pdf;SB_CoA_Assay.pdf;SB_NAD-ATP_Assay_Agilent.pdf;SB_NADH_Assay_Agilent.pdf;SB_OA_Assay.pdf
#CHROMATOGRAPHY
CH:CHROMATOGRAPHY_SUMMARY        	NAD-ATP assay
CH:CHROMATOGRAPHY_TYPE           	Reversed phase
CH:INSTRUMENT_NAME               	Agilent 1290 Infinity
CH:COLUMN_NAME                   	Thermo Hypercarb (50 x 2.1mm, 3um)
CH:METHODS_FILENAME              	SB_NAD-ATP_Assay_Agilent.pdf
#ANALYSIS
AN:ANALYSIS_TYPE                 	MS
#MS
MS:INSTRUMENT_NAME               	Agilent 6490 QQQ
MS:INSTRUMENT_TYPE               	Triple quadrupole
MS:MS_TYPE                       	ESI
MS:ION_MODE                      	POSITIVE
MS:MS_COMMENTS                   	NAD-ATP assay-ESI
#MS_METABOLITE_DATA
MS_METABOLITE_DATA:UNITS         	nmol/mg dry powder
MS_METABOLITE_DATA_START
Samples	114291	116707	115165	115333	115342	117751
Factors	DONOR CAUSE OF DEATH:Anoxia	DONOR CAUSE OF DEATH:Trauma	DONOR CAUSE OF DEATH:Anoxia	DONOR CAUSE OF DEATH:Cerebrovascular/Stroke	DONOR CAUSE OF DEATH:Trauma	DONOR CAUSE OF DEATH:Trauma
AMP	2.29	7.17	0.51	9.06	2.38	5.06
ADP	2.62	2.43	0.33	2.50	1.62	2.57
ATP	0.39	0.81		0.38	0.74	0.72
MS_METABOLITE_DATA_END
#METABOLITES
METABOLITES_START
metabolite_name	retention index	quantified m/z	PubChem ID	KEGG ID
AMP	1.51	348.1	6083
ADP	1.51	428	6022
ATP	1.5	508.1	5957
METABOLITES_END
#END