Summary of study ST001280

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 PR000865. The data can be accessed directly via it's Project DOI: 10.21228/M8W40B This work is supported by NIH grant, U2C- DK119886.

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Study IDST001280
Study TitleMacrophage-Mediated Clofazimine Sequestration is Accompanied by a Shift in Host Energy Metabolism
Study Type4 timepoints for urine collection, whole blood collected at sacrifice (8 weeks)
Study SummaryExamined the effects of long-term dosing with CFZ of mice, metabolic data on CFZ and sham mice was collected at 0, 2, 4, and 8 weeks, at 8 weeks mice were sacrificed and WB was collected from 6 CFZ treated mice and 7 sham mice
Institute
University of Michigan
DepartmentClinical Pharmacy
LaboratoryNMR Metabolomics Laboratory, University of Michigan
Last NameStringer
First NameKathleen
AddressCollege of Pharmacy, 428 Church St, Ann Arbor, MI, 48109
EmailNMRmetabolomics@umich.edu
Phone734-647-4775
Submit Date2019-11-05
Num Groups2
Total Subjects13, 48 urine Samples, 13 WB Samples
Num Males13
Publications10.1016/j.xphs.2016.12.009
Analysis Type DetailNMR
Release Date2020-01-13
Release Version1
Kathleen Stringer Kathleen Stringer
https://dx.doi.org/10.21228/M8W40B
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000865
Project DOI:doi: 10.21228/M8W40B
Project Title:Macrophage-Mediated Clofazamine Sequestration is Accompanied by a Shift in Host Energy Metabolism
Project Summary:Examined the effects of long-term dosing with CFZ of mice, metabolic data on CFZ and sham mice was collected at 0, 2, 4, and 8 weeks, at 8 weeks mice were sacrificed and WB was collected from 6 CFZ treated mice and 7 sham mice
Institute:University of Michigan
Department:Clinical Pharmacy, Center for Bioinformatics and Computational Medicine
Laboratory:NMR Metabolomics Laboratory, University of Michigan
Last Name:Stringer
First Name:Kathleen
Address:College of Pharmacy, 428 Church St, Ann Arbor, MI, 48109
Email:NMRmetabolomics@umich.edu
Phone:734- 647-4775
Funding Source:NIGMS

Subject:

Subject ID:SU001352
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57Bl6
Age Or Age Range:5wks-13wks
Gender:Male
Animal Animal Supplier:Jackson Laboratory (Bar Harbor, ME)
Animal Light Cycle:12hr light 12hr dark
Animal Feed:LabDiet 5001 (PMI International, Inc, St. Louis, MO) ad libitum
Animal Water:ad libitum

Factors:

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

mb_sample_id local_sample_id Condition Timepoint (weeks)
SA093442Cage9_Wk0CFZ -
SA093443Cage7_Wk0CFZ -
SA093444Cage10_Wk0CFZ -
SA093445Cage11_Wk0CFZ -
SA093446Cage12_Wk0CFZ -
SA093447Cage8_Wk0CFZ -
SA093448Cage9_Wk2CFZ 2
SA093449Cage12_Wk2CFZ 2
SA093450Cage11_Wk2CFZ 2
SA093451Cage10_Wk2CFZ 2
SA093452Cage8_Wk2CFZ 2
SA093453Cage7_Wk2CFZ 2
SA093454Cage8_Wk4CFZ 4
SA093455Cage7_Wk4CFZ 4
SA093456Cage9_Wk4CFZ 4
SA093457Cage10_Wk4CFZ 4
SA093458Cage12_Wk4CFZ 4
SA093459Cage11_Wk4CFZ 4
SA093460Cage11_Wk8CFZ 8
SA093461Cage10_Wk8CFZ 8
SA093462Cage9_Wk8CFZ 8
SA093463Cage7_Wk8CFZ 8
SA093464Cage8_Wk8CFZ 8
SA093465Cage12_Wk8CFZ 8
SA093466Cage1_Wk0Placebo -
SA093467Cage5_Wk0Placebo -
SA093468Cage2_Wk0Placebo -
SA093469Cage4_Wk0Placebo -
SA093470Cage6_Wk0Placebo -
SA093471Cage3_Wk0Placebo -
SA093472Cage4_Wk2placebo 2
SA093473Cage3_Wk2placebo 2
SA093474Cage5_Wk2placebo 2
SA093475Cage6_Wk2placebo 2
SA093476Cage2_Wk2placebo 2
SA093477Cage1_Wk2placebo 2
SA093478Cage1_Wk4placebo 4
SA093479Cage5_Wk4placebo 4
SA093480Cage4_Wk4placebo 4
SA093481Cage3_Wk4placebo 4
SA093482Cage2_Wk4placebo 4
SA093483Cage6_Wk4placebo 4
SA093484Cage1_Wk8placebo 8
SA093485Cage4_Wk8placebo 8
SA093486Cage5_Wk8placebo 8
SA093487Cage6_Wk8placebo 8
SA093488Cage2_Wk8placebo 8
SA093489Cage3_Wk8placebo 8
Showing results 1 to 48 of 48

Collection:

Collection ID:CO001346
Collection Summary:Urine: 18 hour collection from metabolic cages. At the end of each collection urine volume was measured and centrifuged (2000xg, 10 mins, °C). Internal standard was added equivalent to 10% of sample volume, aliquots were transferred into screw-top cryotubes and stored at -80°C. WB: cardiac puncture after anesthesia. Collected by cardiac puncture and transferred to a microcentrifuge tube containing sodium heparin in an ice water bath. Stored @ -80°C within 10 minutes of collection
Collection Protocol Filename:MouseUrineCollection,Processing_MetabolicCages.V1.5.pdf
Collection Protocol Comments:Urine Collected 4 times over 8 weeks, each collection over 18 hours
Sample Type:Urine
Collection Method:From Metabolic cages
Collection Frequency:2 weeks
Collection Duration:18hr
Storage Conditions:-80℃
Collection Vials:Sterile 2mL microcentrifuge tubes
Storage Vials:Sterile 2mL microcentrifuge tubes
Collection Tube Temp:Room temp

Treatment:

Treatment ID:TR001367
Treatment Summary:For treated mice: CFZ dissolved in sesame oil, added to chow, as 0.03% to powdered feed mix, chow provided ad libitum
Treatment Compound:Clofazamine (C8895; Sigma-Aldrich, St. Louis, MO)
Treatment Route:CFZ dissolved in sesame oil, added to chow, chow provided ad libitum
Treatment Dose:0.03% CFZ to powdered feed mix
Treatment Doseduration:8 weeks
Treatment Vehicle:sesame oil (Shirakiku, Japan)
Animal Acclimation Duration:1 week
Animal Endp Euthanasia:exsanguination while deeply anethetied with an intraperitoneal injection of ketamine (100mg/kg) and xlazine (10mg/kg)

Sample Preparation:

Sampleprep ID:SP001360
Sampleprep Summary:Urine: centrifugation (2000xg, 10mins, 4°C) before NMR
Processing Method:centrifugation
Processing Storage Conditions:4℃
Sample Spiking:DSS-IS2 (Chenomx, Inc)

Analysis:

Analysis ID:AN002121
Laboratory Name:NMR Metabolomics Laboratory
Analysis Type:NMR
Acquisition Date:1/29/2014, 5/15/14, 5/19/14, 5/20/14, 5/21/14, 5/22/14, 5/23/14, 10/23/14, 11/11/14, 11/24/14
Operator Name:Larisa Yeomans
Detector Type:1D-1H
Num Factors:8
Num Metabolites:34
Units:µM

NMR:

NMR ID:NM000153
Analysis ID:AN002121
Instrument Name:Varian 500 MHz
Instrument Type:FT-NMR
NMR Experiment Type:1D-1H
NMR Comments:Arrayed for water saturation frequency and 90deg. pulse width for each sample
Spectrometer Frequency:500 MHz
NMR Probe:ONE-Probe
NMR Solvent:D2O
NMR Tube Size:5mm
Shimming Method:Auto shim (gradient shimming), manual when necessary.
Pulse Sequence:1D-NOESY
Water Suppression:saturation at 80 Hz induced field strength
Pulse Width:5.5ms
Offset Frequency:around -178Hz
Chemical Shift Ref Cpd:DSS-d6 IS-2 (Chenomx)
Temperature:25
Number Of Scans:32
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