Summary of Study ST001376

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 PR000916. The data can be accessed directly via it's Project DOI: 10.21228/M8912S 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	ST001376
Study Title	2,3,7,8 -Tetrachlorodibenzo-p-dioxin Mediated Effects on Hepatic Coenzyme A (CoA) and Acetyl-CoA Levels (part-I)
Study Type	Dioxin
Study Summary	Experiment to study TCDD-elicited effects on hepatic Coenzyme A (CoA) and Acetyl-CoA levels in liver of male mice treated with sesame oil vehicle or 0.01-30 ug/kg TCDD every 4 days for 28 days.
Institute	Michigan State University
Department	Biochemistry and Molecular Biology
Laboratory	Zacharewski Lab
Last Name	Fling
First Name	Russell
Address	1129 Farm Ln, East Lansing, MI, USA
Email	flingrus@msu.edu
Phone	(517) 884-2054
Submit Date	2020-04-03
Num Groups	9
Total Subjects	80
Num Males	29
Study Comments	Fax: (517) 353-9334; ORCID: 0000-0002-6822-4962; ROLE: Graduate Student; Pubmed ID: -;Publication DOI: -;
Publications	-
Raw Data Available	Yes
Raw Data File Type(s)	raw(Waters)
Analysis Type Detail	LC-MS
Release Date	2021-08-02
Release Version	1

Select appropriate tab below to view additional metadata details:

Project:

Project ID:	PR000916
Project DOI:	doi: 10.21228/M8912S
Project Title:	TCDD-elicited effects on metabolite levels in liver of male mice treated with sesame oil
Project Type:	Untargetd Metabolomics
Project Summary:	Experiment to study TCDD-elicited effects on metabolite levels in liver of male mice treated with sesame oil vehicle or 0.01-30 ug/kg TCDD every 4 days for 28 days.
Institute:	Michigan State University
Department:	Biochemistry and Molecular Biology
Last Name:	Fling
First Name:	Russell
Address:	1129 Farm Ln, East Lansing, MI,USA
Email:	flingrus@msu.edu
Phone:	(517) 884-2054
Publications:	-

Subject:

Subject ID:	SU001450
Subject Type:	Mammalian Subjects
Subject Species:	Mus musculus
Taxonomy ID:	10090
Genotype Strain:	C57BL/6
Age Or Age Range:	postnatal day 56
Gender:	Male

Factors:

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

mb_sample_id	local_sample_id	Collection Time	TCDD treatment(ug/kg)
SA100501	8	Afternoon	-
SA100502	9	Afternoon	-
SA100503	9_1uM_Coa_added	Afternoon	-
SA100504	7	Afternoon	-
SA100505	10	Afternoon	-
SA100506	10_1uM_Coa_added	Afternoon	-
SA100507	6	Afternoon	-
SA100508	7_1uM_Coa_added	Afternoon	-
SA100509	6_1uM_Coa_added	Afternoon	-
SA100510	8_1uM_Coa_added	Afternoon	-
SA100511	20	Afternoon	0.01
SA100512	18_1uM_Coa_added	Afternoon	0.01
SA100513	19_1uM_Coa_added	Afternoon	0.01
SA100514	20_1uM_Coa_added	Afternoon	0.01
SA100515	19	Afternoon	0.01
SA100516	18	Afternoon	0.01
SA100517	17_1uM_Coa_added	Afternoon	0.01
SA100518	17	Afternoon	0.01
SA100519	27_1uM_Coa_added	Afternoon	0.03
SA100520	28_1uM_Coa_added	Afternoon	0.03
SA100521	30	Afternoon	0.03
SA100522	30_1uM_Coa_added	Afternoon	0.03
SA100523	29_1uM_Coa_added	Afternoon	0.03
SA100524	26_1uM_Coa_added	Afternoon	0.03
SA100525	29	Afternoon	0.03
SA100526	27	Afternoon	0.03
SA100527	26	Afternoon	0.03
SA100528	28	Afternoon	0.03
SA100529	37_1uM_Coa_added	Afternoon	0.1
SA100530	38_1uM_Coa_added	Afternoon	0.1
SA100531	39_1uM_Coa_added	Afternoon	0.1
SA100532	39	Afternoon	0.1
SA100533	37	Afternoon	0.1
SA100534	38	Afternoon	0.1
SA100535	36_1uM_Coa_added	Afternoon	0.1
SA100536	36	Afternoon	0.1
SA100537	49	Afternoon	0.3
SA100538	47_1uM_Coa_added	Afternoon	0.3
SA100539	48	Afternoon	0.3
SA100540	46_1uM_Coa_added	Afternoon	0.3
SA100541	47	Afternoon	0.3
SA100542	48_1uM_Coa_added	Afternoon	0.3
SA100543	49_1uM_Coa_added	Afternoon	0.3
SA100544	46	Afternoon	0.3
SA100545	58	Afternoon	1
SA100546	59	Afternoon	1
SA100547	60_1uM_Coa_added	Afternoon	1
SA100548	56	Afternoon	1
SA100549	60	Afternoon	1
SA100550	59_1uM_Coa_added	Afternoon	1
SA100551	56_1uM_Coa_added	Afternoon	1
SA100552	58_1uM_Coa_added	Afternoon	1
SA100553	76	Afternoon	10
SA100554	79_1uM_Coa_added	Afternoon	10
SA100555	78_1uM_Coa_added	Afternoon	10
SA100556	77	Afternoon	10
SA100557	77_1uM_Coa_added	Afternoon	10
SA100558	79	Afternoon	10
SA100559	76_1uM_Coa_added	Afternoon	10
SA100560	80_1uM_Coa_added	Afternoon	10
SA100561	80	Afternoon	10
SA100562	78	Afternoon	10
SA100563	70	Afternoon	3
SA100564	69_1uM_Coa_added	Afternoon	3
SA100565	68_1uM_Coa_added	Afternoon	3
SA100566	67_1uM_Coa_added	Afternoon	3
SA100567	70_1uM_Coa_added	Afternoon	3
SA100568	66	Afternoon	3
SA100569	66_1uM_Coa_added	Afternoon	3
SA100570	67	Afternoon	3
SA100571	69	Afternoon	3
SA100572	68	Afternoon	3
SA100573	90	Afternoon	30
SA100574	90_1uM_Coa_added	Afternoon	30
SA100575	89	Afternoon	30
SA100576	89_1uM_Coa_added	Afternoon	30
SA100577	86	Afternoon	30
SA100578	87	Afternoon	30
SA100579	86_1uM_Coa_added	Afternoon	30
SA100580	87_1uM_Coa_added	Afternoon	30
SA100581	5_1uM_Coa_added	Morning	-
SA100582	4_1uM_Coa_added	Morning	-
SA100583	1_1uM_Coa_added	Morning	-
SA100584	3_1uM_Coa_added	Morning	-
SA100585	5	Morning	-
SA100586	4	Morning	-
SA100587	3	Morning	-
SA100588	1	Morning	-
SA100589	2_1uM_Coa_added	Morning	-
SA100590	2	Morning	-
SA100591	13	Morning	0.01
SA100592	15	Morning	0.01
SA100593	11	Morning	0.01
SA100594	13_1uM_Coa_added	Morning	0.01
SA100595	15_1uM_Coa_added	Morning	0.01
SA100596	11_1uM_Coa_added	Morning	0.01
SA100597	22	Morning	0.03
SA100598	24	Morning	0.03
SA100599	23	Morning	0.03
SA100600	21	Morning	0.03

Showing page 1 of 2 Results: 1 2 Next Showing results 1 to 100 of 160

Collection:

Collection ID:	CO001445
Collection Summary:	Mice were take down with CO2. Livers were excised and immediatley frozen in liquid nitrogen. Collection time (Morning or Afternoon) denoted in sample factors refers to take-down time. Morning cohort samples were collected from when the light turned on (7 am, ZT0) to ZT3.5. Afternoon cohort samples were collected from ZT5-8.5.
Collection Protocol Comments:	Time-point: 28; Time-point Unit: Days;
Sample Type:	Liver
Storage Conditions:	-80℃

Treatment:

Treatment ID:	TR001465
Treatment Summary:	oral gavage every 4 days for 28 days. 7 total exposures oral gavage every 4 days for 28 days. 7 total exposures with vehicle or 0.01-30 ug/kg TCDD.
Treatment Protocol Comments:	Administration Interval: 4; Administration Interval Unit: DAYS; Dose Unit: ug/kg; Number of Administrations: 7; Chemical Soucre: AccuStandard; Chemical Catalog Number: S-70982; Chemical Purity: -; Vehicle Substance: CHEBI 28119
Treatment Compound:	2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD)
Treatment Route:	GAVAGE
Treatment Dose:	0.01,0.03,0.1,0.3,1,3,10,30
Treatment Dosevolume:	0.1 ml
Treatment Doseduration:	28 DAYS;
Treatment Vehicle:	Sesame oil

Sample Preparation:

Sampleprep ID:	SP001458
Sampleprep Summary:	Frozen liver tissue was homegenized in 1000 ul h20:methanol (5:3) mixture5 ml and homegenized, 625 ul chloroform was added,vortexed and spun down at 15,000G. 800 ul of top layer was removed and blown down with nitrogen and reconstituted in 400 l 10mM tetrabutylammonium (TBA)+10mM acetate (pH 5). A further 1:16 dilution was performed for analysis of acetyl-CoA. Coenzyme A (CoA) was measured by standard addition method by diluting with TBA containing CoA standard resulting in 1 uM CoA standard addition. 1 uM CoA standard addition samples are denoted in the subject sample factor section.
Sampleprep Protocol Filename:	SP_190815_Acetyl-CoA_modified_Metabolomics_polarextraction.docx
Processing Method:	Liquid extraction
Processing Storage Conditions:	-80 C

Combined analysis:

Analysis ID	AN002296
Analysis type	MS
Chromatography type	Reversed phase
Chromatography system	Acquity H (Waters)
Column	Ascentis Express C18 2.1x5cm (Waters)
MS Type	ESI
MS instrument type	TOF
MS instrument name	Waters Xevo G2 XS QTof
Ion Mode	NEGATIVE
Units	nmol/mg total protein

Chromatography:

Chromatography ID:	CH001686
Methods Filename:	CH_190829_prj155_28RDDR_LC-MS_expiriment_settings_Xevo_G2-XS_QTof_NEG-mode.txt
Instrument Name:	Acquity H (Waters)
Column Name:	Ascentis Express C18 2.1x5cm (Waters)
Internal Standard:	Acetyl-1,2-13C2 Coenzyme A Sodium Salt (A172214, Toronto Research Chemicals, Toronto, Canada)
Chromatography Type:	Reversed phase

MS:

MS ID:	MS002139
Analysis ID:	AN002296
Instrument Name:	Waters Xevo G2 XS QTof
Instrument Type:	TOF
MS Type:	ESI
MS Comments:	Samples were run in MS^e mode. MassLynx V4.2 was used to measure area under the curve. Accurate mass and retention were used for identification of signal for respective metabolites.
Ion Mode:	NEGATIVE
Analysis Protocol File:	MS_170814_prj140_28RDDR_liver_compound_measurements_QTOF1_NEG.txt