Summary of Study ST001847

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 PR001164. The data can be accessed directly via it's Project DOI: 10.21228/M87T3G This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

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.

Study ID	ST001847
Study Title	Standardized gnotobiotic mouse model for NMR based phenotyping
Study Summary	Germ-free mice were inoculated with 15 representative bacterial strains selected from specific pathogen-free mice. All three microbiota mouse models were generated in two different facility sites and collected plasma sample phenotyped by NMR. 58 mice from Facility 1 (32 males and 26 females) and 59 mice from Facility 2 (29 males and 30 females) were used for analysis.
Institute	Bioaster
Department	OMICS Hub
Laboratory	Metabolomics
Last Name	Andrei
First Name	B
Address	40 avenue Tony Garnier
Email	andrei.bunescu@bioaster.org
Phone	+33481110650
Submit Date	2021-06-17
Num Groups	3
Total Subjects	117
Num Males	61
Num Females	56
Publications	https://doi.org/10.1101/2019.12.30.890954
Raw Data Available	Yes
Raw Data File Type(s)	fid
Analysis Type Detail	NMR
Release Date	2021-08-02
Release Version	1

Select appropriate tab below to view additional metadata details:

Project:

Project ID:	PR001164
Project DOI:	doi: 10.21228/M87T3G
Project Title:	NMR phenotyping of mouse plasma samples
Project Type:	Mouse plasma NMR profiling
Project Summary:	Multi-center NMR based phenotyping of mice harboring defined microbiota
Institute:	Bioaster
Department:	OMICS Hub
Laboratory:	Metabolomics
Last Name:	Andrei
First Name:	Bunescu
Address:	40 avenue Tony Garnier
Email:	andrei.bunescu@bioaster.org
Phone:	+33481110650
Publications:	https://doi.org/10.1101/2019.12.30.890954

Subject:

Subject ID:	SU001924
Subject Type:	Mammal
Subject Species:	Mus musculus
Taxonomy ID:	10090

Factors:

Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id	local_sample_id	Facility	Group	Sex	Analysis
SA171734	GM142-L	Facility1	GF	F	Lipids
SA171735	GM138-L	Facility1	GF	F	Lipids
SA171736	GM144-L	Facility1	GF	F	Lipids
SA171737	GM146-L	Facility1	GF	F	Lipids
SA171738	GM76-L	Facility1	GF	F	Lipids
SA171739	GM149-L	Facility1	GF	F	Lipids
SA171740	GM77-L	Facility1	GF	F	Lipids
SA171741	GM149	Facility1	GF	F	Polar
SA171742	GM142	Facility1	GF	F	Polar
SA171743	GM146	Facility1	GF	F	Polar
SA171744	GM138	Facility1	GF	F	Polar
SA171745	GM76	Facility1	GF	F	Polar
SA171746	GM144	Facility1	GF	F	Polar
SA171747	GM77	Facility1	GF	F	Polar
SA171748	GM140-L	Facility1	GF	M	Lipids
SA171749	GM141-L	Facility1	GF	M	Lipids
SA171750	GM143-L	Facility1	GF	M	Lipids
SA171751	GM145-L	Facility1	GF	M	Lipids
SA171752	GM148-L	Facility1	GF	M	Lipids
SA171753	GM151-L	Facility1	GF	M	Lipids
SA171754	GM147-L	Facility1	GF	M	Lipids
SA171755	GM78-L	Facility1	GF	M	Lipids
SA171756	GM139-L	Facility1	GF	M	Lipids
SA171757	GM79-L	Facility1	GF	M	Lipids
SA171758	GM141	Facility1	GF	M	Polar
SA171759	GM148	Facility1	GF	M	Polar
SA171760	GM151	Facility1	GF	M	Polar
SA171761	GM78	Facility1	GF	M	Polar
SA171762	GM79	Facility1	GF	M	Polar
SA171763	GM139	Facility1	GF	M	Polar
SA171764	GM147	Facility1	GF	M	Polar
SA171765	GM145	Facility1	GF	M	Polar
SA171766	GM143	Facility1	GF	M	Polar
SA171767	GM140	Facility1	GF	M	Polar
SA171768	GM69-L	Facility1	GM15	F	Lipids
SA171769	GM66-L	Facility1	GM15	F	Lipids
SA171770	GM70-L	Facility1	GM15	F	Lipids
SA171771	GM68-L	Facility1	GM15	F	Lipids
SA171772	GM124-L	Facility1	GM15	F	Lipids
SA171773	GM122-L	Facility1	GM15	F	Lipids
SA171774	GM60-L	Facility1	GM15	F	Lipids
SA171775	GM127-L	Facility1	GM15	F	Lipids
SA171776	GM123-L	Facility1	GM15	F	Lipids
SA171777	GM69	Facility1	GM15	F	Polar
SA171778	GM60	Facility1	GM15	F	Polar
SA171779	GM127	Facility1	GM15	F	Polar
SA171780	GM66	Facility1	GM15	F	Polar
SA171781	GM68	Facility1	GM15	F	Polar
SA171782	GM123	Facility1	GM15	F	Polar
SA171783	GM122	Facility1	GM15	F	Polar
SA171784	GM124	Facility1	GM15	F	Polar
SA171785	GM70	Facility1	GM15	F	Polar
SA171786	GM129-L	Facility1	GM15	M	Lipids
SA171787	GM130-L	Facility1	GM15	M	Lipids
SA171788	GM128-L	Facility1	GM15	M	Lipids
SA171789	GM63-L	Facility1	GM15	M	Lipids
SA171790	GM125-L	Facility1	GM15	M	Lipids
SA171791	GM126-L	Facility1	GM15	M	Lipids
SA171792	GM131-L	Facility1	GM15	M	Lipids
SA171793	GM61-L	Facility1	GM15	M	Lipids
SA171794	GM132-L	Facility1	GM15	M	Lipids
SA171795	GM62-L	Facility1	GM15	M	Lipids
SA171796	GM73-L	Facility1	GM15	M	Lipids
SA171797	GM71-L	Facility1	GM15	M	Lipids
SA171798	GM132	Facility1	GM15	M	Polar
SA171799	GM61	Facility1	GM15	M	Polar
SA171800	GM73	Facility1	GM15	M	Polar
SA171801	GM125	Facility1	GM15	M	Polar
SA171802	GM129	Facility1	GM15	M	Polar
SA171803	GM62	Facility1	GM15	M	Polar
SA171804	GM128	Facility1	GM15	M	Polar
SA171805	GM130	Facility1	GM15	M	Polar
SA171806	GM63	Facility1	GM15	M	Polar
SA171807	GM131	Facility1	GM15	M	Polar
SA171808	GM126	Facility1	GM15	M	Polar
SA171809	GM71	Facility1	GM15	M	Polar
SA171810	GM101-L	Facility1	SOPF	F	Lipids
SA171811	GM106-L	Facility1	SOPF	F	Lipids
SA171812	GM119-L	Facility1	SOPF	F	Lipids
SA171813	GM118-L	Facility1	SOPF	F	Lipids
SA171814	GM105-L	Facility1	SOPF	F	Lipids
SA171815	GM104-L	Facility1	SOPF	F	Lipids
SA171816	GM98-L	Facility1	SOPF	F	Lipids
SA171817	GM99-L	Facility1	SOPF	F	Lipids
SA171818	GM100-L	Facility1	SOPF	F	Lipids
SA171819	GM102-L	Facility1	SOPF	F	Lipids
SA171820	GM100	Facility1	SOPF	F	Polar
SA171821	GM106	Facility1	SOPF	F	Polar
SA171822	GM119	Facility1	SOPF	F	Polar
SA171823	GM118	Facility1	SOPF	F	Polar
SA171824	GM99	Facility1	SOPF	F	Polar
SA171825	GM101	Facility1	SOPF	F	Polar
SA171826	GM98	Facility1	SOPF	F	Polar
SA171827	GM104	Facility1	SOPF	F	Polar
SA171828	GM105	Facility1	SOPF	F	Polar
SA171829	GM102	Facility1	SOPF	F	Polar
SA171830	GM93-L	Facility1	SOPF	M	Lipids
SA171831	GM110-L	Facility1	SOPF	M	Lipids
SA171832	GM109-L	Facility1	SOPF	M	Lipids
SA171833	GM108-L	Facility1	SOPF	M	Lipids

Showing page 1 of 3 Results: 1 2 3 Next Showing results 1 to 100 of 234

Collection:

Collection ID:	CO001917
Collection Summary:	Mice were killed by cervical dislocation and biocollections were performed aseptically. Plasma was collected by centrifugation from lithium heparin blood.
Sample Type:	Blood (plasma)

Treatment:

Treatment ID:	TR001936
Treatment Summary:	SOPF (C57BL/6J ) mice were obtained from Charles River Lab GF (C57BL/6J ) mice were produced in-house by aseptic hysterectomy of a SOPF (C57BL/6J) female GM15 founders were 8-week-old GF (C57BL/6J) mice colonized by oral inoculations of the GM15 bacterial community: Bacteroides acidifaciens MD185 Bacteroides caecimuris MD237 Parabacteroides goldsteinii MD072 Clostridium cocleatum I50 Enterocloster clostridioformis YL32 Clostridium sp. MD294 Clostridium sp. MD300 Subtilibacillum caecimuris MD335 Longibacillum caecimuris MD329 Irregularicoccus caecimuris MD308 Lactobacillus johnsonii MD006 Ligilactobacillus murinus MD040 Limosilactobacillus reuteri MD207 Anaerotruncus colihominis JM4-15 Escherichia coli Mt1B1

Treatment ID:

TR001936

Treatment Summary:

SOPF (C57BL/6J ) mice were obtained from Charles River Lab GF (C57BL/6J ) mice were produced in-house by aseptic hysterectomy of a SOPF (C57BL/6J) female GM15 founders were 8-week-old GF (C57BL/6J) mice colonized by oral inoculations of the GM15 bacterial community: Bacteroides acidifaciens MD185 Bacteroides caecimuris MD237 Parabacteroides goldsteinii MD072 Clostridium cocleatum I50 Enterocloster clostridioformis YL32 Clostridium sp. MD294 Clostridium sp. MD300 Subtilibacillum caecimuris MD335 Longibacillum caecimuris MD329 Irregularicoccus caecimuris MD308 Lactobacillus johnsonii MD006 Ligilactobacillus murinus MD040 Limosilactobacillus reuteri MD207 Anaerotruncus colihominis JM4-15 Escherichia coli Mt1B1

Sample Preparation:

Sampleprep ID:	SP001930
Sampleprep Summary:	Plasma was deproteinized by acid ultrafiltration using 10kDA filter tubes. The lipids were extracted from the same sample after ultrafiltration.

Analysis:

Analysis ID:	AN002991
Laboratory Name:	Bioaster
Analysis Type:	NMR
Software Version:	Topspin 3.6.2
Operator Name:	Andrei Bunescu
Data Format:	FID
Num Factors:	24
Num Metabolites:	62
Units:	mM

NMR:

NMR ID:	NM000207
Analysis ID:	AN002991
Instrument Name:	Ascend HD III 600MHz Bruker
Instrument Type:	FT-NMR
NMR Experiment Type:	1D-1H
Spectrometer Frequency:	600MHz
NMR Probe:	5mm QCI 1H, 13C, 15N, 31P
NMR Solvent:	H2O:D2O
NMR Tube Size:	3mm
Shimming Method:	topshim
Pulse Sequence:	noesygppr1d and for lipids zg30