Summary of Study ST000381

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000299. The data can be accessed directly via it's Project DOI: 10.21228/M8D60P This work is supported by NIH grant, U2C- DK119886.

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Study IDST000381
Study TitleUrinary Metabolites in IC/PBS Diagnosis (part I)
Study SummaryThis West Coast Metabolomics Center sponsored pilot grant goal is to identify and validate interstitial cystitis/painful bladder syndrome (IC/PBS)-associated urinary metabolites. Our central hypothesis is that IC/PBS-associated metabolites in the urine of IC/PBS patients can segregate patients from control subjects, and that their levels are correlated with clinical symptoms. To test this hypothesis, we will identify IC/PBS-associated metabolites in urine using two independent platforms, GC-MS and quadrupole time-of-flight (Q-TOF) mass spectrometry under the collaboration with UC Davis WCMC scientists. We believe that this study will provide a significant potential clinical impact because results may lead to clinical methods to increase diagnostic accuracy and an improved understanding of the molecular basis of IC/PBS and its relationship to urologic conditions with overlapping symptoms.
Institute
University of California, Davis
DepartmentGenome and Biomedical Sciences Facility
LaboratoryWCMC Metabolomics Core
Last NameFiehn
First NameOliver
Address1315 Genome and Biomedical Sciences Facility, 451 Health Sciences Drive, Davis, CA 95616
Emailofiehn@ucdavis.edu
Phone(530) 754-8258
Submit Date2016-04-15
Num Groups4
Total Subjects92
Raw Data AvailableYes
Raw Data File Type(s)peg
Analysis Type DetailGC-MS
Release Date2016-04-25
Release Version1
Oliver Fiehn Oliver Fiehn
https://dx.doi.org/10.21228/M8D60P
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000299
Project DOI:doi: 10.21228/M8D60P
Project Title:Urinary Metabolites in IC/PBS Diagnosis
Project Summary:This West Coast Metabolomics Center sponsored pilot grant goal is to identify and validate interstitial cystitis/painful bladder syndrome (IC/PBS)-associated urinary metabolites. Our central hypothesis is that IC/PBS-associated metabolites in the urine of IC/PBS patients can segregate patients from control subjects, and that their levels are correlated with clinical symptoms. To test this hypothesis, we will identify IC/PBS-associated metabolites in urine using two independent platforms, GC-MS and quadrupole time-of-flight (Q-TOF) mass spectrometry under the collaboration with UC Davis WCMC scientists. We believe that this study will provide a significant potential clinical impact because results may lead to clinical methods to increase diagnostic accuracy and an improved understanding of the molecular basis of IC/PBS and its relationship to urologic conditions with overlapping symptoms.
Institute:University of California, Davis
Last Name:Fiehn
First Name:Oliver
Address:1315 Genome and Biomedical Sciences Facility, 451 Health Sciences Drive, Davis, CA 95616
Email:ofiehn@ucdavis.edu
Phone:(530) 754-8258
Funding Source:NIH U24DK097154

Subject:

Subject ID:SU000402
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Human

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Cohort Treatment SubCondition
SA017233140814amssa12_1CSMC ICPBS Urine-IC12 SEVERE
SA017234140814amssa09_1CSMC ICPBS Urine-IC14 SEVERE
SA017235140813amssa02_1CSMC ICPBS Urine-IC19 SEVERE
SA017236140813amssa18_1CSMC ICPBS Urine-IC20 SEVERE
SA017237140814amssa31_1CSMC ICPBS Urine-IC21 SEVERE
SA017238140813amssa39_1CSMC ICPBS Urine-IC22 SEVERE
SA017239140814amssa38_1CSMC ICPBS Urine-IC30 SEVERE
SA017240140814amssa01_1CSMC ICPBS Urine-IC31 SEVERE
SA017241140813amssa23_1CSMC ICPBS Urine-IC32 SEVERE
SA017242140813amssa15_1CSMC ICPBS Urine-IC48 SEVERE
SA017243140814amssa02_1CSMC ICPBS Urine-IC52 SEVERE
SA017244140813amssa31_1CSMC ICPBS Urine-IC53 SEVERE
SA017245140813amssa29_1CSMC ICPBS Urine-IC5 SEVERE
SA017246140814amssa16_1CSMC ICPBS Urine-IC9 SEVERE
SA017247140813amssa25_1CSMC Matched control-C10 n/a
SA017248140814amssa37_1CSMC Matched control-C13 n/a
SA017249140814amssa14_1CSMC Matched control-C15 n/a
SA017250140814amssa35_1CSMC Matched control-C16 n/a
SA017251140813amssa35_1CSMC Matched control-C17 n/a
SA017252140813amssa13_1CSMC Matched control-C18 n/a
SA017253140813amssa42_1CSMC Matched control-C26 n/a
SA017254140814amssa24_1CSMC Matched control-C27 n/a
SA017255140813amssa38_1CSMC Matched control-C28 n/a
SA017256140813amssa47_1CSMC Matched control-C33 n/a
SA017257140813amssa03_1CSMC Matched control-C40 n/a
SA017258140814amssa50_1CSMC Matched control-C45 n/a
SA017259140813amssa19_1CSMC Matched control-C49 n/a
SA017260140814amssa07_1CSMC Matched control-C50 n/a
SA017261140813amssa11_1CSMC Matched control-C51 n/a
SA017262140813amssa48_1INHA ICPBS Urine-IC 10 SEVERE
SA017263140814amssa41_1INHA ICPBS Urine-IC 11 MODEST
SA017264140814amssa17_1INHA ICPBS Urine-IC 12 MODEST
SA017265140814amssa20_1INHA ICPBS Urine-IC 13 MODEST
SA017266140813amssa33_1INHA ICPBS Urine-IC 14 SEVERE
SA017267140814amssa47_1INHA ICPBS Urine-IC 15 SEVERE
SA017268140813amssa21_1INHA ICPBS Urine-IC 16 SEVERE
SA017269140813amssa44_1INHA ICPBS Urine-IC 17 MODEST
SA017270140813amssa28_1INHA ICPBS Urine-IC 18 MODEST
SA017271140813amssa22_1INHA ICPBS Urine-IC 19 SEVERE
SA017272140814amssa15_1INHA ICPBS Urine-IC 1 SEVERE
SA017273140814amssa32_1INHA ICPBS Urine-IC 20 SEVERE
SA017274140814amssa45_1INHA ICPBS Urine-IC 21 MODEST
SA017275140814amssa30_1INHA ICPBS Urine-IC 22 INTERMEDIATE
SA017276140814amssa33_1INHA ICPBS Urine-IC 24 MODEST
SA017277140814amssa03_1INHA ICPBS Urine-IC 25 MODEST
SA017278140813amssa24_1INHA ICPBS Urine-IC 26 MODEST
SA017279140813amssa27_1INHA ICPBS Urine-IC 27 INTERMEDIATE
SA017280140814amssa28_1INHA ICPBS Urine-IC 28 MODEST
SA017281140814amssa34_1INHA ICPBS Urine-IC 29 SEVERE
SA017282140813amssa41_1INHA ICPBS Urine-IC 2 SEVERE
SA017283140813amssa26_1INHA ICPBS Urine-IC 30 INTERMEDIATE
SA017284140813amssa12_1INHA ICPBS Urine-IC 31 SEVERE
SA017285140814amssa13_1INHA ICPBS Urine-IC 32 MODEST
SA017286140813amssa20_1INHA ICPBS Urine-IC 33 MODEST
SA017287140814amssa06_1INHA ICPBS Urine-IC 34 SEVERE
SA017288140813amssa08_1INHA ICPBS Urine-IC 35 SEVERE
SA017289140813amssa45_1INHA ICPBS Urine-IC 36 SEVERE
SA017290140813amssa50_1INHA ICPBS Urine-IC 37 MODEST
SA017291140814amssa29_1INHA ICPBS Urine-IC 38 INTERMEDIATE
SA017292140814amssa44_1INHA ICPBS Urine-IC 39 SEVERE
SA017293140813amssa17_1INHA ICPBS Urine-IC 3 SEVERE
SA017294140814amssa46_1INHA ICPBS Urine-IC 40 INTERMEDIATE
SA017295140813amssa32_1INHA ICPBS Urine-IC 41 MODEST
SA017296140813amssa04_1INHA ICPBS Urine-IC 42 INTERMEDIATE
SA017297140814amssa48_1INHA ICPBS Urine-IC 43 INTERMEDIATE
SA017298140813amssa43_1INHA ICPBS Urine-IC 4 INTERMEDIATE
SA017299140813amssa14_1INHA ICPBS Urine-IC 5 MODEST
SA017300140814amssa42_1INHA ICPBS Urine-IC 6 SEVERE
SA017301140813amssa36_1INHA ICPBS Urine-IC 7 MODEST
SA017302140814amssa25_1INHA ICPBS Urine-IC 8 INTERMEDIATE
SA017303140814amssa26_1INHA ICPBS Urine-IC 9 MODEST
SA017304140813amssa46_1INHA Matched control-C 10 n/a
SA017305140814amssa19_1INHA Matched control-C 11 n/a
SA017306140813amssa40_1INHA Matched control-C 12 n/a
SA017307140814amssa08_1INHA Matched control-C 13 n/a
SA017308140813amssa05_1INHA Matched control-C 14 n/a
SA017309140813amssa37_1INHA Matched control-C 15 n/a
SA017310140814amssa05_1INHA Matched control-C 16 n/a
SA017311140814amssa21_1INHA Matched control-C 17 n/a
SA017312140814amssa10_1INHA Matched control-C 18 n/a
SA017313140813amssa07_1INHA Matched control-C 19 n/a
SA017314140813amssa49_1INHA Matched control-C 1 n/a
SA017315140813amssa09_1INHA Matched control-C 20 n/a
SA017316140814amssa22_1INHA Matched control-C 21 n/a
SA017317140814amssa39_1INHA Matched control-C 2 n/a
SA017318140814amssa23_1INHA Matched control-C 3 n/a
SA017319140813amssa16_1INHA Matched control-C 4 n/a
SA017320140814amssa27_1INHA Matched control-C 5 n/a
SA017321140813amssa10_1INHA Matched control-C 6 n/a
SA017322140814amssa11_1INHA Matched control-C 7 n/a
SA017323140813amssa01_1INHA Matched control-C 8 n/a
SA017324140814amssa49_1INHA Matched control-C 9 n/a
Showing results 1 to 92 of 92

Collection:

Collection ID:CO000396
Collection Summary:All urine specimens were collected in the morning by clean catch methods. Samples were centrifuged at 4◦C to remove cell debris, and supernatants were aliquots of 1ml/tube, before storage at −80◦C until further analysis.
Sample Type:Urine

Treatment:

Treatment ID:TR000416
Treatment Summary:Matched control urine vs. IC/PBS Urine

Sample Preparation:

Sampleprep ID:SP000409
Sampleprep Summary:1. Extraction with cold Methanol; extracts generated using protocols for GC profiling (“GC backups” re-analyzed by LC-MS). 2. Samples are taken to dryness and stored at -20 degree C until analysis.
Sampleprep Protocol Filename:SP_RP18_Protocol_KimUrine_IG102814.docx

Combined analysis:

Analysis ID AN000615
Analysis type MS
Chromatography type GC
Chromatography system Agilent 6890N
Column Restek Corporation Rtx-5Sil MS
MS Type EI
MS instrument type GC-TOF
MS instrument name Leco Pegasus III GC TOF
Ion Mode POSITIVE
Units counts

Chromatography:

Chromatography ID:CH000441
Methods Filename:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_10-15-2013_general.pdf
Instrument Name:Agilent 6890N
Column Name:Restek Corporation Rtx-5Sil MS
Column Pressure:7.7 PSI
Column Temperature:50-330C
Flow Rate:1 ml/min
Injection Temperature:50 C ramped to 250 C by 12 C/s
Sample Injection:0.5 uL
Oven Temperature:50°C for 1 min, then ramped at 20°C/min to 330°C, held constant for 5 min
Transferline Temperature:230C
Washing Buffer:Ethyl Acetate
Sample Loop Size:30 m length x 0.25 mm internal diameter
Randomization Order:Excel generated
Chromatography Type:GC

MS:

MS ID:MS000548
Analysis ID:AN000615
Instrument Name:Leco Pegasus III GC TOF
Instrument Type:GC-TOF
MS Type:EI
Ion Mode:POSITIVE
Ion Source Temperature:250 C
Ionization Energy:70 eV
Mass Accuracy:Nominal
Source Temperature:250 C
Scan Range Moverz:85-500 Da
Scanning Cycle:17 Hz
Scanning Range:85-500 Da
Skimmer Voltage:1850 V
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