Summary of Study ST000237

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 PR000190. The data can be accessed directly via it's Project DOI: 10.21228/M8Q30F This work is supported by NIH grant, U2C- DK119886.

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Study IDST000237
Study TitleQuick Comparison of Serum Metabolites in SD Rats of Different Sex by Untargeted UPLC-TOFMS and In-house Software Platform
Study TypeBiomarker Discovery
Study SummaryMale (n=8) and female (n=8) SD rats weighing between 220 and 250g were used. On the morning of sample collection day, each rat was deprived of food and put in metabolic cage for 24h urine collection. Then a blood sample (3-5ml) was collected from the aorta of the rat under anesthesia and centrifuged to obtain serum. All urine and serum samples were frozen at -80°C prior to analysis.
Institute
Beijing Institute of Radiation Medicine
DepartmentDepartment of Pharmacology and Toxicology
Last NameLiang
First NameQiande
Address27 Taiping Road, Beijing, P.R.China
Emailliangqiande@yeah.net
Submit Date2015-08-09
Num Groups2
Total Subjects16
Raw Data File Type(s)raw(Waters)
Analysis Type DetailLC-MS
Release Date2015-09-09
Release Version1
Qiande Liang Qiande Liang
https://dx.doi.org/10.21228/M8Q30F
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000190
Project DOI:doi: 10.21228/M8Q30F
Project Title:Quick Comparison of Metabolites in Human and Rats of Different Sex by Untargeted UPLC-TOFMS and In-house Software Platform_2
Project Type:Biomarker Discovery
Project Summary:Metabolite difference between sexes has rarely been observed in global manner. In this study, untargeted UPLC-TOFMS and an in-house software platform were used for quick comparison of sex difference of urinary metabolites in human, and of urinary and serum metabolites in SD rats. In addition, as a convenient opportunity, the species difference of urinary metabolites between human and SD rats were also observed. Human urine samples were collected before breakfast from 14 male and 13 female Chinese post-graduate students, age from 23 to 29, on the morning of sample collection day. Male (n=8) and female (n=8) SD rats weighing between 220 and 250g were used. On the morning of sample collection day, each rat was deprived of food and put in metabolic cage for 24h urine collection. Then a blood sample (3-5ml) was collected from the aorta of the rat under anesthesia and centrifuged to obtain serum. All urine and serum samples were frozen at -80°C prior to analysis. The study of sex differences is important for finding the best course of treatment of disease as well as for developing novel targets of therapy. A more complete understanding of the metabolic differences across sex-based subgroups is helpful to improve the mechanistic understanding of sex differences.
Institute:Beijing Institute of Radiation Medicine
Department:Department of Pharmacology and Toxicology
Last Name:Liang
First Name:Qiande
Address:27 Taiping Road, Beijing, P.R.China
Email:liangqiande@yeah.net

Subject:

Subject ID:SU000257
Subject Type:Animal
Subject Species:Rattus norvegicus
Taxonomy ID:10116
Genotype Strain:Sprague-Dawley rat
Weight Or Weight Range:220-250g
Gender:Male/Female
Animal Housing:pathogen-free animal facility
Animal Light Cycle:12h light/dark cycle
Animal Feed:free access to standard food
Animal Water:free access to water
Species Group:Mammal

Factors:

Subject type: Animal; Subject species: Rattus norvegicus (Factor headings shown in green)

mb_sample_id local_sample_id Gender
SA011073FemaleRat4Female
SA011074FemaleRat3Female
SA011075FemaleRat2Female
SA011076FemaleRat5Female
SA011077FemaleRat6Female
SA011078FemaleRat8Female
SA011079FemaleRat7Female
SA011080FemaleRat1Female
SA011081MaleRat8Male
SA011082MaleRat3Male
SA011083MaleRat2Male
SA011084MaleRat4Male
SA011085MaleRat5Male
SA011086MaleRat7Male
SA011087MaleRat6Male
SA011088MaleRat1Male
Showing results 1 to 16 of 16

Collection:

Collection ID:CO000247
Collection Summary:Blood sample (3-5ml) was collected from the aorta of the rat under anesthesia and centrifuged to obtain serum
Collection Protocol Filename:1_COL_PROT.pdf
Sample Type:Serum
Collection Method:Blood sample (3-5ml) was collected from the aorta of the rat under anesthesia and centrifuged to obtain serum
Collection Location:Lab
Collection Frequency:Once
Collection Duration:About 10~60 seconds
Volumeoramount Collected:3-5ml
Storage Conditions:-80°C
Collection Vials:15ml Polypropylene tube
Storage Vials:1.5ml Eppendorf vial
Collection Tube Temp:Room tempreture
Blood Serum Or Plasma:Serum

Treatment:

Treatment ID:TR000267
Treatment Summary:On the morning of sample collection day, each rat was deprived of food and put in metabolic cage for 24h urine collection. Then a blood sample (3-5ml) was collected from the aorta of the rat under anesthesia and centrifuged to obtain serum. All urine and serum samples were frozen at -80°C prior to analysis.
Treatment:Intervention
Treatment Route:Stay in metabolic cage for 24h urine collection
Animal Anesthesia:Anesthesia using Pentobarbital Sodium
Animal Acclimation Duration:?3 days
Animal Fasting:24h
Animal Endp Euthanasia:Died in anesthesia status
Animal Endp Tissue Coll List:Blood
Animal Endp Tissue Proc Method:Centrifuged to obtain serum
Animal Endp Clinical Signs:Died

Sample Preparation:

Sampleprep ID:SP000261
Sampleprep Summary:Amygdalin was dissolved in acetonitrile-water(1:1) to form 0.1mg/ml solution. Serum samples were unfrozen at room temperature. 500?l of serum sample was mixed with 20?l Amygdalin solution and 100?l 20% Trichloroacetic acid(TCA) solution. After centrifugation at about 14000rpm and -4?, the supernatant was injected into UPLC-TOF MS system.
Sampleprep Protocol Filename:2_PRE_PROT.pdf
Processing Method:Precipitation
Processing Storage Conditions:Precipitation at room tempreture; centrifugation at -4?
Extraction Method:Precipitation by TCA
Extract Concentration Dilution:500?l of serum/620?l
Extract Storage:4? after centrifugation and during analysis
Sample Spiking:20?l Amygdalin solution/620?l

Combined analysis:

Analysis ID AN000363 AN000364
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Waters Acquity Waters Acquity
Column Waters Acquity HSS T3 (100 x 2.1mm, 1.8um) Waters Acquity HSS T3 (100 x 2.1mm, 1.8um)
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name Waters Synapt-HDMS Waters Synapt-HDMS
Ion Mode POSITIVE NEGATIVE
Units Peak Height Peak Height

Chromatography:

Chromatography ID:CH000265
Chromatography Summary:Untargeted UPLC-TOFMS
Methods Filename:3_CHR_PROT.pdf
Instrument Name:Waters Acquity
Column Name:Waters Acquity HSS T3 (100 x 2.1mm, 1.8um)
Column Temperature:24?
Flow Gradient:Isocratic 2% B (01 min), linear gradient from 2% to 5% B (12 min), 5% to 12% B (25 min), 12% to 20% B (510 min), 20% to 30% B (1012 min), 30% to 50% B (1213 min), 50% to 100% B (1315 min), isocratic 100% B for 1min, then back to 2% B in 1 min and isocratic 2% B for 3min before next run
Flow Rate:0.5 ml/min
Injection Temperature:24?
Internal Standard:Amygdalin
Sample Injection:8?L
Sampling Cone:40V
Solvent A:Water containing 0.1% formic acid
Solvent B:Acetonitrile containing 0.1% formic acid
Analytical Time:20min
Capillary Voltage:Positive ion mode:3kV; Negative ion mode: 2.9kV
Chromatography Type:Reversed phase

MS:

MS ID:MS000309
Analysis ID:AN000363
Instrument Name:Waters Synapt-HDMS
Instrument Type:QTOF
MS Type:ESI
Ion Mode:POSITIVE
Capillary Voltage:3kV
Collision Energy:6V (trap)/4V (transfer)
Collision Gas:Ar
Dry Gas Flow:900 L/h
Dry Gas Temp:450?
Ion Source Temperature:100?
Ionization:ESI
Source Temperature:100?
Desolvation Gas Flow:900 L/h
Desolvation Temperature:450?
Acquisition Parameters File:Inlet_Method_File_Name:_20100505
_Positive_MS_Mehod_File_Name:_20120221_pos_50-1500
Processing Parameters File:TR_0-18_50-1500_005_020_YES6_YES.mlm
  
MS ID:MS000310
Analysis ID:AN000364
Instrument Name:Waters Synapt-HDMS
Instrument Type:QTOF
MS Type:ESI
Ion Mode:NEGATIVE
Capillary Voltage:2.9kV
Collision Energy:6V (trap)/4V (transfer)
Collision Gas:Ar
Dry Gas Flow:900 L/h
Dry Gas Temp:450?
Ion Source Temperature:100?
Ionization:ESI
Source Temperature:100?
Desolvation Gas Flow:900 L/h
Desolvation Temperature:450?
Acquisition Parameters File:Negative_MS_Mehod_File_Name:_20120221_neg_50-1500
Processing Parameters File:TR_0-18_50-1500_005_020_YES6_YES.mlm
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