Summary of Study ST002165

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 PR001378. The data can be accessed directly via it's Project DOI: 10.21228/M8M12K 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.

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Study IDST002165
Study TitleUntargeted metabolomics profiling of mice urine after 5 Gy and 7.5 Gy total body radiation exposure at 24 hours - LCMS Study.
Study TypeUntargeted LCMS
Study SummaryUntargeted metabolomics profiling of mice urine after 5 Gy and 7.5 Gy total body radiation exposure at 24 hours. Metabolic profiling of urine samples were performed by TripleTOF 5600+ (AB Sciex) in both ionization mode
Institute
Institute of Nuclear Medicine and Allied Sciences, Defence Research and Development Organisation, INDIA
DepartmentInstitute of Nuclear Medicine and Allied Sciences
LaboratoryMetabolomics facility
Last NameRana
First NamePoonam
AddressDRDO, Lucknow Road, Timarpur
Emailpoonamrana27@gmail.com
Phone+911123905319
Submit Date2021-11-24
Num Groups3
Total Subjects21
Num Males21
Analysis Type DetailLC-MS
Release Date2022-05-31
Release Version1
Poonam Rana Poonam Rana
https://dx.doi.org/10.21228/M8M12K
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001378
Project DOI:doi: 10.21228/M8M12K
Project Title:Untargeted metabolomics following radiation exposure
Project Type:Untargeted metabolic profiling
Project Summary:Comprehensive metabolomics profiling of mice urine after 5 Gy and 7.5 Gy total body radiation exposure at 24 hours using LC-MS and NMR.
Institute:Institute of Nuclear Medicine and Allied Sciences
Department:Metabolomics facility
Laboratory:Metabolomics facility
Last Name:Rana
First Name:Poonam
Address:DRDO, Lucknow Road, Timarpur, Delhi, Delhi, 110054, India
Email:poonam@inmas.drdo.in
Phone:+911123905319
Funding Source:INM 313, UGC-JRF

Subject:

Subject ID:SU002251
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL6
Age Or Age Range:8-10 weeks
Gender:Male
Species Group:3

Factors:

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

mb_sample_id local_sample_id Treatment
SA207569R_5 Gy 55 Gy Irradiated
SA207570R_5 Gy 65 Gy Irradiated
SA207571R_5 Gy 45 Gy Irradiated
SA207572R_5 Gy 25 Gy Irradiated
SA207573R_5 Gy 15 Gy Irradiated
SA207574R_5 Gy 75 Gy Irradiated
SA207575R_5 Gy 35 Gy Irradiated
SA207576R_7.5 Gy 17.5 Gy Irradiated
SA207577R_7.5 Gy 77.5 Gy Irradiated
SA207578R_7.5 Gy 67.5 Gy Irradiated
SA207579R_7.5 Gy 47.5 Gy Irradiated
SA207580R_7.5 Gy 27.5 Gy Irradiated
SA207581R_7.5 Gy 37.5 Gy Irradiated
SA207582R_Ctrl 7Control
SA207583R_Ctrl 6Control
SA207584R_Ctrl 5Control
SA207585R_Ctrl 2Control
SA207586R_Ctrl 3Control
SA207587R_Ctrl 1Control
SA207588R_Ctrl 4Control
SA207589R_ QC9QC
SA207590R_ QC10QC
SA207591R_ QC8QC
SA207592R_ QC7QC
SA207593R_ QC11QC
SA207594R_ QC6QC
SA207595R_ QC14QC
SA207596R_ QC16QC
SA207597R_ QC15QC
SA207598R_ QC5QC
SA207599R_ QC13QC
SA207600R_ QC12QC
Showing results 1 to 32 of 32

Collection:

Collection ID:CO002244
Collection Summary:Animals were acclimatized for 48 hrs in polypropylene cages. Urine samples were collected at 24 hrs post radiation exposure.
Sample Type:Urine
Storage Conditions:-80℃
Collection Tube Temp:4℃

Treatment:

Treatment ID:TR002263
Treatment Summary:Random categorization was done into three groups: control, 5 Gy (sub-lethal) and 7.5 Gy (lethal) irradiated (seven animals in each group). Mice were kept for 12 hrs light and dark cycle with room temperature (19–23°C) and humidity (45–65%) conditions properly maintained. Mice were exposed to total-body gamma radiation (field size; 35x35 cm) of 5 Gy and 7.5 Gy through Tele 60Co unit γ- irradiation facility (Bhabhatron II, Panacea Medical, Bangalore, India) with dose rate of 1 Gy/min. Control mice were sham irradiated.
Treatment:Radiation exposure
Treatment Dose:5 Gy and 7.5 Gy Gamma-60Cobalt irradiation

Sample Preparation:

Sampleprep ID:SP002257
Sampleprep Summary:Urine samples (50 uL) were added to 200ul of water containing internal standards (caffeine, nitrobenzoic acid and acetaminophen) and were filtered through 3 kDa filter.
Processing Storage Conditions:On ice
Extract Storage:On ice

Combined analysis:

Analysis ID AN003547 AN003548
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system ExionLC ExionLC
Column Kinetex EVO C18 column (Phenomenex, Torrance, CA, USA) having dimensions 100 mm x 2.1 mm, 1.7 um Kinetex EVO C18 column (Phenomenex, Torrance, CA, USA) having dimensions 100 mm x 2.1 mm, 1.7 um
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name ABI Sciex 5600 TripleTOF ABI Sciex 5600 TripleTOF
Ion Mode POSITIVE NEGATIVE
Units Intensity Intensity

Chromatography:

Chromatography ID:CH002621
Instrument Name:ExionLC
Column Name:Kinetex EVO C18 column (Phenomenex, Torrance, CA, USA) having dimensions 100 mm x 2.1 mm, 1.7 um
Chromatography Type:Reversed phase

MS:

MS ID:MS003305
Analysis ID:AN003547
Instrument Name:ABI Sciex 5600 TripleTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Samples were ionized using Electron Spray Ionization(ESI) in both the modes. The various MS parameters used for the present study are as discussed. The gas flow, GS1 and GS2 were kept at 50 psi, curtain gas flow (CUR) at 30 psi and capillary voltage(ISVF) at 5500 V for positive and - 4500 V for negative ionization mode with source temperature 400 0C for both ionization modes. The MS calibration was performed through CDS (calibrant delivery system). For MS/MS fragmentation of metabolites, collision energy was set at 35 eV with a collision energy spread of ± 15 eV and declustering potential of 60 eV. Mass range was set at 100- 1200m/z. Metabolites were identified by matching with, company provided library and Metlin public database (https://metlin.scripps.edu).
Ion Mode:POSITIVE
Acquisition Parameters File:MS_Parameter.pdf
  
MS ID:MS003306
Analysis ID:AN003548
Instrument Name:ABI Sciex 5600 TripleTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Samples were ionized using Electron Spray Ionization(ESI) in both the modes. The various MS parameters used for the present study are as discussed. The gas flow, GS1 and GS2 were kept at 50 psi, curtain gas flow (CUR) at 30 psi and capillary voltage(ISVF) at 5500 V for positive and - 4500 V for negative ionization mode with source temperature 400 0C for both ionization modes. The MS calibration was performed through CDS (calibrant delivery system). For MS/MS fragmentation of metabolites, collision energy was set at 35 eV with a collision energy spread of ± 15 eV and declustering potential of 60 eV. Mass range was set at 100- 1200m/z. Metabolites were identified by matching with, company provided library and Metlin public database (https://metlin.scripps.edu).
Ion Mode:NEGATIVE
Acquisition Parameters File:MS_Parameter.pdf
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