Summary of Study ST001099

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 PR000735. The data can be accessed directly via it's Project DOI: 10.21228/M8P40G 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 IDST001099
Study TitleUntargeted LC-MS to compare blood collection tube and processing time – HILIC & C18
Study SummaryBlood was collected from three healthy volunteers in 3 blood collection tubes: serum separator tube SST (serum), EDTA (plasma), and P100 (plasma) and stored at 4 degrees for 0, 0.5, 1, 2, 4, and 24 hours prior to centrifugation. Compounds were extracted using liquid-liquid extraction to obtain a hydrophilic and a hydrophobic fraction and analyzed using liquid chromatography mass spectrometry. Differences among the blood collection tubes and sample processing time were evaluated (ANOVA with Bonferroni FWER ≤ 0.05 and ANOVA with Benjamini Hochberg FDR ≤ 0.1, respectively).
Institute
University of Colorado Denver
DepartmentAnschutz Medical Campus
Last NameReisdorph
First NameNichole
Address12850 East Montview Blvd
Emailnichole.reisdorph@ucdenver.edu
Phone3037249234
Submit Date2018-02-26
Num Groups17
Total Subjects3
Num Males2
Num Females1
PublicationsImpact of Blood Collection Tubes and Sample Handling Time on Serum and Plasma Metabolome and Lipidome Charmion Cruickshank-Quinn, Laura K. Zheng, Kevin Quinn, Russell Bowler, Richard Reisdorph, Nichole Reisdorph 10.3390/metabo8040088
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2019-05-15
Release Version1
Nichole Reisdorph Nichole Reisdorph
https://dx.doi.org/10.21228/M8P40G
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000735
Project DOI:doi: 10.21228/M8P40G
Project Title:Untargeted LC-MS to compare blood collection tube and processing time
Project Summary:Blood was collected from three healthy volunteers in 3 blood collection tubes: serum separator tube SST (serum), EDTA (plasma), and P100 (plasma) and stored at 4 degrees for 0, 0.5, 1, 2, 4, and 24 hours prior to centrifugation. Compounds were extracted using liquid-liquid extraction to obtain a hydrophilic and a hydrophobic fraction and analyzed using liquid chromatography mass spectrometry. Differences among the blood collection tubes and sample processing time were evaluated (ANOVA with Bonferroni FWER ≤ 0.05 and ANOVA with Benjamini Hochberg FDR ≤ 0.1, respectively).
Institute:University of Colorado Denver
Department:Pharmaceutical Sciences, Anschutz Medical Campus
Last Name:Reisdorph
First Name:Nichole
Address:12850 East Montview Blvd
Email:nichole.reisdorph@ucdenver.edu
Phone:303-724-9234

Subject:

Subject ID:SU001148
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:45-50
Gender:Male and female
Human Ethnicity:Non-Hispanic white
Human Smoking Status:Non-smoking
Species Group:Mammals

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Tube Time
SA075131sbj3_30min_EDTAEDTA 0.5
SA075132sbj2_30min_EDTAEDTA 0.5
SA075133sbj1_30min_EDTAEDTA 0.5
SA075134sbj2_1hr_EDTAEDTA 1
SA075135sbj1_1hr_EDTAEDTA 1
SA075136sbj3_1hr_EDTAEDTA 1
SA075137sbj3_2hr_EDTAEDTA 2
SA075138sbj1_2hr_EDTAEDTA 2
SA075139sbj2_2hr_EDTAEDTA 2
SA075140sbj2_24hr_EDTAEDTA 24
SA075141sbj3_24hr_EDTAEDTA 24
SA075142sbj1_24hr_EDTAEDTA 24
SA075143sbj1_4hr_EDTAEDTA 4
SA075144sbj3_4hr_EDTAEDTA 4
SA075145sbj2_4hr_EDTAEDTA 4
SA075146sbj3_0min_EDTAEDTA Control_0
SA075147sbj1_0min_EDTAEDTA Control_0
SA075148sbj2_0min_EDTAEDTA Control_0
SA075149sbj1_30min_P100P100 0.5
SA075150sbj3_30min_P100P100 0.5
SA075151sbj2_30min_P100P100 0.5
SA075152sbj1_1hr_P100P100 1
SA075153sbj2_1hr_P100P100 1
SA075154sbj3_1hr_P100P100 1
SA075155sbj2_2hr_P100P100 2
SA075156sbj1_2hr_P100P100 2
SA075157sbj3_2hr_P100P100 2
SA075158sbj3_24hr_P100P100 24
SA075159sbj2_24hr_P100P100 24
SA075160sbj1_24hr_P100P100 24
SA075161sbj1_4hr_P100P100 4
SA075162sbj2_4hr_P100P100 4
SA075163sbj3_4hr_P100P100 4
SA075164sbj2_0min_P100P100 Control_0
SA075165sbj1_0min_P100P100 Control_0
SA075166sbj3_0min_P100P100 Control_0
SA075167sbj2_30min_TigerSST 0.5
SA075168sbj1_30min_TigerSST 0.5
SA075169sbj3_30min_TigerSST 0.5
SA075170sbj3_1-5hr_TigerSST 1.5
SA075171sbj2_1-5hr_TigerSST 1.5
SA075172sbj1_1-5hr_TigerSST 1.5
SA075173sbj1_23-5hr_TigerSST 23.5
SA075174sbj3_23-5hr_TigerSST 23.5
SA075175sbj2_23-5hr_TigerSST 23.5
SA075176sbj3_3-5hr_TigerSST 3.5
SA075177sbj2_3-5hr_TigerSST 3.5
SA075178sbj1_3-5hr_TigerSST 3.5
SA075179sbj3_0min_TigerTiger Control_0
SA075180sbj2_0min_TigerTiger Control_0
SA075181sbj1_0min_TigerTiger Control_0
Showing results 1 to 51 of 51

Collection:

Collection ID:CO001142
Collection Summary:Blood from 3 healthy volunteers (40-50 years old) was collected in 3 types of vacutainers: Tiger vacutainer containing clot activator and gel to obtain serum, ethylenediaminetetraacetic acid (EDTA) vacutainer to obtain plasma, and P100(TM) vacutainer containing EDTA with protein stabilizers to obtain plasma. The Tiger top serum separator tubes required 30 minutes at room temperature prior to centrifugation to allow clot formation. Blood samples in the plasma tubes were left on ice for 0, 0.5, 1, 2, 4, or 24 hours. Blood samples in the serum tubes were left on ice for 0, 0.5, 1.5, 3.5, or 23.5 hours. Samples were then centrifuged at 10,000 x g at 4°C. The resulting serum or plasma was aliquoted into pre-chilled microcentrifuge tubes and stored at -80°C.
Sample Type:Blood (plasma)
Storage Conditions:Described in summary

Treatment:

Treatment ID:TR001162
Treatment Summary:N/A

Sample Preparation:

Sampleprep ID:SP001155
Sampleprep Summary:Plasma and serum samples were thawed and briefly vortexed. 100μL of each sample were transferred to a 1.5 mL microcentrifuge tube and kept at 0°C. 10μL of hydrophobic and hydrophilic standards and spikes at room temperature were added and the samples vortexed for 10 seconds. 400μL of ice-cold methanol was added. Tubes were vortexed for 10 seconds and then centrifuged for 15 minutes at 0°C at 18,000 rpm. Supernatant was transferred to a clean glass culture tube using a plastic pipette. Samples were dried in glass culture tubes placed under N2 at 35°C for approximately 1 hour. Using a glass pipette, 3 mL of methyl tert-butyl ether (MTBE) was added to dried methanol residue in each glass culture tube. Tubes were vortexed for 30 seconds. 750 μL of water was added, and tubes were vortexed for 10 seconds. Tubes were centrifuged for 10 minutes at room temperature at 1,000 rpm. 2.5 mL of the resulting MTBE layer (hydrophobic fraction) was transferred to a new glass culture tube; the remaining layer was the hydrophilic fraction. 3.0 mL of MTBE was added to the remaining hydrophilic fraction, and tubes were vortexed for 10 seconds. These tubes were again centrifuged for 10 minutes at room temperature at 1,000 rpm. 3.0 mL of MTBE was aspirated and combined with the first MTBE layer. The MTBE fractions were dried under N2 at 35°C and immediately re-suspended in 200 μL of methanol. Each tube was vortexed for 5 seconds, transferred to a glass auto-sampler vial with a glass insert using a Pasteur pipette. Samples were stored at -80°C. The hydrophilic fractions were dried under N2 at 35°C. 100 μL of water and 400 μL of ice-cold methanol were added to the dried hydrophilic fraction. Tubes were vortexed for 10 seconds and spun immediately at medium speed for 1 minute. Supernatants from each tube were transferred to a 1.5 mL microcentrifuge tube using a Pasteur pipette. These tubes were then stored at -80°C for 25 minutes then spun for 15 minutes at 0°C and 18,000 rpm. The supernatant was transferred to a new 1.5 mL microcentrifuge tube using a plastic pipette. These tubes were dried in a speed vacuum at 45°C and re-suspended in 100 μL of 95:5 water: acetonitrile. Each tube was vortexed for 30 seconds and transferred to a glass auto-sampler vial with a glass insert using a plastic pipette tip. Samples were stored at -80°C.
Processing Storage Conditions:Described in summary
Extract Storage:Described in summary

Combined analysis:

Analysis ID AN001794 AN001795
Analysis type MS MS
Chromatography type Reversed phase HILIC
Chromatography system Agilent 6220 Agilent 6520
Column Agilent Zorbax RRHD SB-C18 (100 x 2.1mm,1.8um) Phenomenex Luna NH2 (250 x 2.0mm,5um)
MS Type ESI ESI
MS instrument type TOF QTOF
MS instrument name Agilent 6220 TOF Agilent 6520 QTOF
Ion Mode POSITIVE POSITIVE
Units Intensity (Log2 scale) Intensity (Log2 scale)

Chromatography:

Chromatography ID:CH001266
Instrument Name:Agilent 6220
Column Name:Agilent Zorbax RRHD SB-C18 (100 x 2.1mm,1.8um)
Column Temperature:60
Flow Rate:0.7ml/min
Sample Injection:4uL
Solvent A:100% water; 0.1% formic acid
Solvent B:60% isopropanol/36% acetonitrile/4% water; 0.1% formic acid
Capillary Voltage:4000
Chromatography Type:Reversed phase
  
Chromatography ID:CH001267
Instrument Name:Agilent 6520
Column Name:Phenomenex Luna NH2 (250 x 2.0mm,5um)
Column Temperature:20
Flow Rate:0.5ml/min
Sample Injection:2uL
Solvent A:50% acetonitrile/50% water; 20 mM ammonium acetate, pH 9.45
Solvent B:100% acetonitrile
Capillary Voltage:4000
Chromatography Type:HILIC

MS:

MS ID:MS001655
Analysis ID:AN001794
Instrument Name:Agilent 6220 TOF
Instrument Type:TOF
MS Type:ESI
Ion Mode:POSITIVE
Capillary Voltage:4000 V
Dry Gas Flow:12.0 L/min
Dry Gas Temp:300 C
Nebulizer:30 psi
  
MS ID:MS001656
Analysis ID:AN001795
Instrument Name:Agilent 6520 QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:POSITIVE
Capillary Voltage:4000 V
Dry Gas Flow:10.0 L/min
Dry Gas Temp:300 C
Nebulizer:25 psi
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