Summary of Study ST003836

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 PR002396. The data can be accessed directly via it's Project DOI: 10.21228/M8XK04 This work is supported by NIH grant, U2C- DK119886.

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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 IDST003836
Study Title13C taurine tracing in K562 human leukemia cells
Study SummaryWe traced 13C taurine in K562 human leukemia cells. Briefly K562 cells were cultured in serum free RPMI-1640 supplemented with 200uM taurine (1,2 13C2, 98%) or no taurine for 24 h. Untargeted metabolomic analysis was carried out to determine direct incorporation of taurine into any cellular metabolite.
Institute
University of Rochester Medical Center
Last NameSmith
First NameBradley
Address575 Elmwood Ave, Rochester, NY, 14620
Emailbradley_smith@urmc.rochester.edu
Phone5852756645
Submit Date2025-03-27
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2025-04-04
Release Version1
Bradley Smith Bradley Smith
https://dx.doi.org/10.21228/M8XK04
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR002396
Project DOI:doi: 10.21228/M8XK04
Project Title:13C taurine tracing in K562 human leukemia cells
Project Summary:We traced 13C taurine in K562 human leukemia cells. Briefly K562 cells were cultured in serum free RPMI-1640 supplemented with 200uM taurine (1,2 13C2, 98%) or no taurine for 24 h. Untargeted metabolomic analysis was carried out to determine direct incorporation of taurine into any cellular metabolite.
Institute:University of Rochester Medical Center
Last Name:Smith
First Name:Bradley
Address:575 Elmwood Ave, Rochester, NY, 14620
Email:bradley_smith@urmc.rochester.edu
Phone:5852756645

Subject:

Subject ID:SU003970
Subject Type:Cultured cells
Subject Species:Homo sapiens
Taxonomy ID:9606

Factors:

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

mb_sample_id local_sample_id Treatment
SA419438K562_C13_Taurine_6C13 Taurine
SA419439K562_C13_Taurine_7C13 Taurine
SA419440K562_C13_Taurine_8C13 Taurine
SA419441K562_C13_Taurine_9C13 Taurine
SA419442K562_C13_Taurine_10C13 Taurine
SA419443K562_unlabeled_1unlabeled
SA419444K562_unlabeled_2unlabeled
SA419445K562_unlabeled_3unlabeled
SA419446K562_unlabeled_4unlabeled
SA419447K562_unlabeled_5unlabeled
Showing results 1 to 10 of 10

Collection:

Collection ID:CO003963
Collection Summary:K562 cells were cultured in serum free RPMI-1640 media in 6 well plates for 48 h. The cells were then cultured in serum free RPMI-1640 supplemented with 200 mM taurine (1,2 13C2, 98%; Cambridge Isotope Labs) or no additional taurine for 24 h. The cells were washed with PBS containing 5mM glucose and centrifuged at 3000g, and snap frozen.
Sample Type:Leukemia cells

Treatment:

Treatment ID:TR003979
Treatment Summary:K562 cells were cultured in serum free RPMI-1640 media in 6 well plates for 48 h. The cells were then cultured in serum free RPMI-1640 supplemented with 200 mM taurine (1,2 13C2, 98%; Cambridge Isotope Labs) or no additional taurine for 24 h.

Sample Preparation:

Sampleprep ID:SP003976
Sampleprep Summary:Frozen cell pellets were resuspended at 2 million cells per 1 mL of 80% MeOH via vortexing, transferred to -80°C for 30min and then regular ice for 30 minutes with vortexing every 10 minutes. Next, samples were centrifuged at 17,000 x g for 10 minutes and 90% of supernatant was dried down in a vacuum evaporator (Thermo). Samples were reconstituted in 50% acetonitrile (A955, Fisher Scientific), at a volume equal to 10% of dried down volume, and transferred to glass vials for LC/MS analysis.

Chromatography:

Chromatography ID:CH004781
Instrument Name:Thermo Vanquish
Column Name:Waters XBridge XP BEH Amide (150 mm x 2.1 mm, 2.5 µm)
Column Temperature:25°C
Flow Gradient:0 minutes, 100% B; 2 minutes, 100% B; 3 minutes, 90% B; 5 minutes, 90% B; 6 minutes, 85% B; 7 minutes, 85% B; 8 minutes, 75% B; 9 minutes, 75% B; 10 minutes, 55% B; 12 minutes, 55% B; 13 minutes, 35%, 20 minutes, 35% B; 20.1 minutes, 35% B; 20.6 minutes, 100% B; 22.2 minutes, 100% B
Flow Rate:150 μL/min for first 22.7 minutes, then 150 μL/min for 22.7 to 28 minutes
Solvent A:100% water; 10 mM ammonium acetate; 0.1% ammonium hydroxide; 0.1% medronic acid
Solvent B:90% acetonitrile/10% water; 10 mM ammonium acetate; 0.1% ammonium hydroxide; 0.1% medronic acid
Chromatography Type:HILIC
  
Chromatography ID:CH004782
Instrument Name:Thermo Vanquish
Column Name:Waters XBridge XP BEH Amide (150 mm x 2.1 mm, 2.5 µm)
Column Temperature:25°C
Flow Gradient:0 minutes, 100% B; 2 minutes, 100% B; 3 minutes, 90% B; 5 minutes, 90% B; 6 minutes, 85% B; 7 minutes, 85% B; 8 minutes, 75% B; 9 minutes, 75% B; 10 minutes, 55% B; 12 minutes, 55% B; 13 minutes, 35%, 20 minutes, 35% B; 20.1 minutes, 35% B; 20.6 minutes, 100% B; 22.2 minutes, 100% B
Flow Rate:150 μL/min for first 22.7 minutes, then 150 μL/min for 22.7 to 28 minutes
Solvent A:100% water; 10 mM ammonium formate; 0.125% formic acid
Solvent B:90% acetonitrile/10% water; 10 mM ammonium formate; 0.125% formic acid
Chromatography Type:HILIC

Analysis:

Analysis ID:AN006299
Analysis Type:MS
Chromatography ID:CH004781
Num Factors:2
Num Metabolites:132
Units:area
  
Analysis ID:AN006300
Analysis Type:MS
Chromatography ID:CH004782
Num Factors:2
Num Metabolites:117
Units:area
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