Summary of Study ST001806

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 PR001137. The data can be accessed directly via it's Project DOI: 10.21228/M8R102 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 IDST001806
Study TitleEffect of external low-dose rate radiation on mouse biofluid metabolomic signatures (part V)
Study SummaryAn important component of ionizing radiation (IR) exposure after a radiological incident may include low-dose rate (LDR) exposures either externally or internally, such as from 137Cs deposition. LDR exposures can have different effects compared to acute high-dose rate exposures from a health and biodosimetry perspective. In this study, a novel irradiation system, VAriable Dose-rate External 137Cs irradiatoR (VADER), was used to expose male and female mice to a variable LDR over a 30-day time span to cumulative doses of 1 (only in males), 2, 2.8, 4.1, 8.8 (only in males), or 9.7 Gy to simulate fall-out type exposures. Urine and serum from mice exposed to an acute dose (~0.8 Gy/min) of x-rays were collected in parallel. Radiation markers were identified by global mass spectrometry based metabolomics and the machine learning algorithm Random Forests.
Institute
Georgetown University
Last NamePannkuk
First NameEvan
Address3970 Reservoir Rd, NW New Research Building E504
Emailelp44@georgetown.edu
Phone2026875650
Submit Date2021-05-18
Raw Data AvailableYes
Raw Data File Type(s)raw(Waters)
Analysis Type DetailLC-MS
Release Date2021-12-15
Release Version1
Evan Pannkuk Evan Pannkuk
https://dx.doi.org/10.21228/M8R102
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001137
Project DOI:doi: 10.21228/M8R102
Project Title:Effect of external low-dose rate (LDR) radiation on mouse biofluid metabolomic
Project Summary:An important component of ionizing radiation (IR) exposure after a radiological incident may include low-dose rate (LDR) exposures either externally or internally, such as from 137Cs deposition. LDR exposures can have different effects compared to acute high-dose rate exposures from a health and biodosimetry perspective. In this study, a novel irradiation system, VAriable Dose-rate External 137Cs irradiatoR (VADER), was used to expose male and female mice to a variable LDR over a 30-day time span to cumulative doses of 1 (only in males), 2, 2.8, 4.1, 8.8 (only in males), or 9.7 Gy to simulate fall-out type exposures. Urine and serum from mice exposed to an acute dose (~0.8 Gy/min) of x-rays were collected in parallel. Radiation markers were identified by global mass spectrometry based metabolomics and the machine learning algorithm Random Forests.
Institute:Georgetown University
Last Name:Pannkuk
First Name:Evan
Address:3970 Reservoir Rd, NW New Research Building E504
Email:elp44@georgetown.edu
Phone:2026875650

Subject:

Subject ID:SU001883
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Gender:Male

Factors:

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

mb_sample_id local_sample_id Factor Factor
SA16762584AControl D1
SA16762682AControl D1
SA16762785AControl D1
SA16762833VControl D1
SA16762981AControl D1
SA16763035VControl D1
SA16763132VControl D1
SA16763234VControl D1
SA16763383AControl D1
SA167634178VControl D2
SA16763588AControl D2
SA167636177VControl D2
SA16763787AControl D2
SA16763889AControl D2
SA167639179VControl D2
SA167640176VControl D2
SA167641180VControl D2
SA16764286AControl D2
SA16764390AControl D2
SA167644152VControl D20
SA167645154VControl D20
SA167646155VControl D20
SA167647151VControl D20
SA167648153VControl D20
SA167649186VControl D3
SA16765092AControl D3
SA167651188VControl D3
SA167652190VControl D3
SA167653187VControl D3
SA16765494AControl D3
SA16765591AControl D3
SA16765695AControl D3
SA16765793AControl D3
SA167658189VControl D3
SA167659160VControl D30
SA167660157VControl D30
SA167661159VControl D30
SA167662156VControl D30
SA167663158VControl D30
SA167664144VControl D5
SA167665142VControl D5
SA16766699AControl D5
SA167667141VControl D5
SA167668145VControl D5
SA16766996AControl D5
SA167670100AControl D5
SA16767197AControl D5
SA16767298AControl D5
SA167673143VControl D5
SA16767463AHDR D1
SA16767564AHDR D1
SA16767662AHDR D1
SA16767765AHDR D1
SA16767861AHDR D1
SA16767969AHDR D2
SA16768070AHDR D2
SA16768167AHDR D2
SA16768268AHDR D2
SA16768366AHDR D2
SA16768473AHDR D3
SA16768572AHDR D3
SA16768671AHDR D3
SA16768774AHDR D3
SA16768875AHDR D3
SA16768976AHDR D5
SA16769079AHDR D5
SA16769180AHDR D5
SA16769278AHDR D5
SA16769377AHDR D5
SA1676941VLDR D1
SA1676954VLDR D1
SA1676962VLDR D1
SA1676973VLDR D1
SA1676985VLDR D1
SA167699175VLDR D2
SA167700172VLDR D2
SA167701173VLDR D2
SA167702171VLDR D2
SA167703174VLDR D2
SA167704123VLDR D20
SA167705122VLDR D20
SA167706124VLDR D20
SA167707121VLDR D20
SA167708125VLDR D20
SA167709183VLDR D3
SA167710184VLDR D3
SA167711185VLDR D3
SA167712181VLDR D3
SA167713182VLDR D3
SA167714127VLDR D30
SA167715130VLDR D30
SA167716128VLDR D30
SA167717126VLDR D30
SA167718129VLDR D30
SA167719115VLDR D5
SA167720112VLDR D5
SA167721111VLDR D5
SA167722114VLDR D5
SA167723113VLDR D5
Showing results 1 to 99 of 99

Collection:

Collection ID:CO001876
Collection Summary:Serum was collected after irradiation
Sample Type:Blood (serum)

Treatment:

Treatment ID:TR001896
Treatment Summary:The VADER was designed to deliver controlled dose rates in the range 0.1 – 1 Gy/day to a cohort of up to 15 mice. The VADER uses ~0.5 Ci of retired 137Cs brachytherapy seeds that are arranged in two platters placed above and below a “mouse hotel”. The platters can be placed ~0.5 – 60 cm above and below the mouse hotel allowing implementation of time-variable dose rates. Offline dosimetry of the VADER was performed annually using a NIST traceable 10x6-6 ionization chamber (Radcal Corp., Monrovia, CA). Dose uniformity across the surface was measured using EBT3 film (Ashland, Covington, KY, USA) and the variation was 15% across the hotel. A lead and high-density concrete brick shield ensured minimal radiation doses to occupationally exposed personnel (operators) inside (< 0.1 mGy/wk) and outside the room (< 0.02 mGy/wk). The mouse hotel consists of an acrylic box (35 x 35 x 12 cm) allowing housing of ≤ 15 mice with bedding material and food/water ad libitum. Temperature (20 – 25°C), humidity (40 – 60%), airflow and lighting were fully controlled to required animal care standards (temperature/humidity sensor, HWg HTemp, TruePath Technologies Victor, NY). Environmental controls and monitoring were integrated into the mouse hotel for easy replacement in case of radiation damage. Mice were monitored in real time using a 180° fisheye ELP USB camera (Amazon).

Sample Preparation:

Sampleprep ID:SP001889
Sampleprep Summary:Samples were prepared and analyzed as previously described.18, 19 Briefly, serum (5 μl) was deproteinized (195 μl 66% cold acetonitrile [ACN]) with internal standards (2 μM debrisoquine [M+H]+ = 176.1188; 30 μM 4-nitrobenzoic acid [M-H]- = 166.0141), vortexed, incubated on ice (10 min), and centrifuged for 10 min (max speed, 4 °C).
Processing Storage Conditions:-80℃

Combined analysis:

Analysis ID AN002928
Analysis type MS
Chromatography type Reversed phase
Chromatography system Waters Acquity
Column Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
MS Type ESI
MS instrument type QTOF
MS instrument name Waters Synapt G2 S QTOF
Ion Mode NEGATIVE
Units peak area

Chromatography:

Chromatography ID:CH002170
Chromatography Summary:Mobile phases consisted of the following: solvent A (water/0.1% formic acid [FA]), solvent B (ACN/0.1% FA), solvent C (isopropanol [IPA]/ACN (90:10)/0.1% FA). The gradient for urine was (solvent A and B) 4.0 min 5% B, 4.0 min 20% B, 5.1 min 95% B, and 1.9 min 5% B at a flow rate of 0.5 ml/min. The gradient for serum was (solvent A, B, and C) 4.0 min 98:2 A:B, 4.0 min 40:60 A:B, 1.5 min 2:98 A:B, 2.0 min 2:98 A:C, 0.5 min 50:50 A:C, and 1.0 min 98:2 A:B at a flow rate of 0.5 ml/min.
Instrument Name:Waters Acquity
Column Name:Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
Flow Gradient:The gradient for urine was (solvent A and B) 4.0 min 5% B, 4.0 min 20% B, 5.1 min 95% B, and 1.9 min 5% B at a flow rate of 0.5 ml/min. The gradient for serum was (solvent A, B, and C) 4.0 min 98:2 A:B, 4.0 min 40:60 A:B, 1.5 min 2:98 A:B, 2.0 min 2:98 A:C, 0.5 min 50:50 A:C, and 1.0 min 98:2 A:B at a flow rate of 0.5 ml/min.
Flow Rate:0.5 ml/min
Solvent A:100% water; 0.1% formic acid
Solvent B:solvent B:100% acetonitrile; 0.1% formic acid solvent C:90% isopropanol/10% acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS002719
Analysis ID:AN002928
Instrument Name:Waters Synapt G2 S QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Negative and positive electrospray ionization (ESI) data-independent modes were used for data acquisition with leucine enkephalin ([M+H]+ = 556.2771, [M-H]- = 554.2615) as Lock-Spray®. Operating conditions for ESI were: capillary voltage 2.75 kV, cone voltage 30 V, desolvation temperature 500°C, desolvation gas flow 1000 L/Hr.
Ion Mode:NEGATIVE
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