Summary of Study ST001793

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 IDST001793
Study TitleEffect of external low-dose rate radiation on mouse biofluid metabolomic signatures (part IV)
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 Date2021-05-12
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:SU001870
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Gender:Female

Factors:

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

mb_sample_id local_sample_id Factor Factor
SA16703868D2 Control
SA16703912D2 Control
SA16704014D2 Control
SA16704116D2 Control
SA16704280D2 Control
SA1670438D2 Control
SA16704438D2 Control
SA16704548D2 Control
SA1670461D2 Control
SA16704742D2 Control
SA16704856D2 Control
SA16704939D2 Control
SA16705026D2 HDR
SA16705161D2 HDR
SA16705227D2 HDR
SA16705379D2 HDR
SA16705462D2 HDR
SA16705522D2 HDR
SA16705618D2 HDR
SA16705781D2 HDR
SA16705883D2 HDR
SA16705910D2 LDR
SA16706036D2 LDR
SA16706111D2 LDR
SA16706270D2 LDR
SA16706358D30 Control
SA16706447D30 Control
SA16706549D30 Control
SA16706643D30 Control
SA16706733D30 Control
SA16706873D30 Control
SA16706913D30 Control
SA16707015D30 LDR
SA16707188D30 LDR
SA1670722D30 LDR
SA16707386D30 LDR
SA16707475D30 LDR
SA16707530D30 LDR
SA16707620D30 LDR
SA16707772D3 Control
SA16707863D3 Control
SA16707969D3 Control
SA16708084D3 Control
SA16708145D3 Control
SA16708229D3 Control
SA16708323D3 Control
SA1670845D3 Control
SA1670853D3 Control
SA16708635D3 Control
SA16708728D3 Control
SA16708821D3 HDR
SA16708978D3 HDR
SA1670909D3 HDR
SA1670914D3 HDR
SA16709251D3 HDR
SA16709324D3 HDR
SA16709454D3 HDR
SA16709553D3 LDR
SA16709655D3 LDR
SA16709782D3 LDR
SA16709846D3 LDR
SA16709971D3 LDR
SA16710041D3 LDR
SA16710176D5 Control
SA16710260D5 Control
SA16710377D5 Control
SA16710440D5 Control
SA1671056D5 Control
SA16710666D5 Control
SA16710731D5 Control
SA16710887D5 Control
SA16710959D5 Control
SA16711067D5 Control
SA16711125D5 Control
SA16711252D5 Control
SA16711364D5 Control
SA16711444D5 Control
SA16711585D5 HDR
SA1671167D5 HDR
SA16711750D5 HDR
SA16711865D5 HDR
SA16711974D5 HDR
SA16712089D5 LDR
SA16712137D5 LDR
SA16712232D5 LDR
SA16712319D5 LDR
SA16712417D5 LDR
Showing results 1 to 87 of 87

Collection:

Collection ID:CO001863
Collection Summary:Serum was collected after irradiation
Sample Type:Blood (serum)

Treatment:

Treatment ID:TR001883
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:SP001876
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 AN002909 AN002910
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Waters Acquity Waters Acquity
Column Waters Acquity BEH C18 (50 x 2.1mm,1.7um) Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name Waters Synapt G2 S QTOF Waters Synapt G2 S QTOF
Ion Mode POSITIVE NEGATIVE
Units peak area peak area

Chromatography:

Chromatography ID:CH002156
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:MS002701
Analysis ID:AN002909
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:POSITIVE
  
MS ID:MS002702
Analysis ID:AN002910
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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