Summary of Study ST001192

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000804. The data can be accessed directly via it's Project DOI: 10.21228/M8RM32 This work is supported by NIH grant, U2C- DK119886.


This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001192
Study TitleA library of human gut bacterial isolates paired with longitudinal multiomics data enables mechanistic microbiome research
Study TypeStool metabolite profiling
Study SummaryFecal microbiota transplantation (FMT) is used in the treatment of microbiome-associated diseases such as Clostridium difficile infections. In order to develop synthetic therapeutics and customized disease treatments we will need to understand the bacterial communities in the stool samples used in such treatments. For this purpose, a microbiome library was generated using human stool obtained from healthy human FMT recruited by OpenBiome, a non-profit organization that provides fecal microbiome therapeutics. In addition to characterizing the bacterial populations and obtaining bacterial isolates from FMT samples, we conducted metabolite profiling with the goal of: (1) generating a library of metabolites in FMT samples, (2) Identifying metabolites associated with defined bacterial populations, and (3) identifying microbial metabolites with immunoregulatory functions. We conducted metabolite profiling on a subset consisting of 180 stool samples from 84 donors using four nontargeted liquid chromatography mass spectrometry (LC-MS) methods. Generated data were processed, isotopes removed, and adducts and fragments clustered. The identity of known metabolites was determined based on matching retention times of neat standards run in parallel with the study.
Broad Institute of MIT and Harvard
Last NameAvila-Pacheco
First NameJulian
Address415 Main Street
Submit Date2019-06-10
Total Subjects84
Raw Data AvailableYes
Analysis Type DetailLC-MS
Release Date2019-07-17
Release Version1
Julian Avila-Pacheco Julian Avila-Pacheco application/zip

Select appropriate tab below to view additional metadata details:

Combined analysis:

Analysis ID AN001984 AN001985 AN001986 AN001987
Analysis type MS MS MS MS
Chromatography type HILIC HILIC Reversed phase Reversed phase
Chromatography system Shimadzu Nexera X2 Waters Acquity Shimadzu Nexera X2 Shimadzu Nexera X2
Column Waters Atlantis HILIC (150 x 2mm) Phenomenex Luna NH2 (150 x 2mm,3um,100A) Waters Acquity BEH C18 (150 x 2mm,1.7um) Waters Acquity BEH C8 (100 x 2.1mm,1.7um)
MS instrument type Orbitrap Orbitrap Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Plus Orbitrap Thermo Q Exactive Plus Orbitrap Thermo Q Exactive Orbitrap Thermo Q Exactive Plus Orbitrap
Units abundance abundance Abundance Abundance