Summary of Study ST000307

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000247. The data can be accessed directly via it's Project DOI: 10.21228/M8VG6R This work is supported by NIH grant, U2C- DK119886.


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Study IDST000307
Study TitleTargeting CRBN to alter CD8 T cell metabolism
Study TypeT cell activation
Study SummaryThe purpose of this study was to evaluate the metabolic profile of different treatments of T-Cells among two separate mouse genotypes.
University of Florida
LaboratoryMoffitt Cancer Center - Immunology
Last NameSwearingen
First NameRebecca
Submit Date2015-12-22
Num Groups12
Total Subjects60
Raw Data AvailableYes
Raw Data File Type(s)mzXML, raw(Thermo)
Analysis Type DetailLC-MS
Release Date2016-12-22
Release Version1
Rebecca Swearingen Rebecca Swearingen application/zip

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Project ID:PR000247
Project DOI:doi: 10.21228/M8VG6R
Project Title:CRBN's role in T cell activation
Project Summary:Targeting CRBN to alter CD8 T cell metabolism
Institute:Moffitt Cancer Center
Last Name:Burnette
First Name:Pearlie


Subject ID:SU000327
Subject Type:Animal
Subject Species:Mus musculus
Taxonomy ID:10090
Animal Animal Supplier:WT (CRBN +/+) mice are from Jackson labs and CRBN -/- mice have been bred at Moffitt Cancer Center
Animal Housing:Standard bedding + cotton pads, hepa filtered air
Animal Light Cycle:Dark 6pm-6am
Animal Feed:Feed from Harlan, not sterile
Animal Water:autoclaved H2O
Animal Inclusion Criteria:Animals used in this experiment were sex-matched and age matched. The ages were 8-12 weeks old in both sets of experiments
Species Group:Mammal


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

mb_sample_id local_sample_id Strain Treatment
SA013987CD3 + CD28 KO5CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013988CD3 + CD28 KO4CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013989CD3 + CD28 KO1CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013990CD3 + CD28 KO5 042215CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013991CD3 + CD28 KO3 042215CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013992CD3 + CD28 KO2CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013993CD3 + CD28 KO1 042215CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013994CD3 + CD28 KO3CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013995CD3 + CD28 KO2 042215CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013996CD3 + CD28 KO4 042215CRBN -/- anti-CD3 & anti-CD28 stimulation
SA013957CD3 + CD28 WT1 042215CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013958CD3 + CD28 WT3CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013959CD3 + CD28 WT4CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013960CD3 + CD28 WT3 042215CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013961CD3 + CD28 WT5 042215CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013962CD3 + CD28 WT1CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013963CD3 + CD28 WT2CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013964CD3 + CD28 WT5CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013965CD3 + CD28 WT4 042215CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013966CD3 + CD28 WT2 042215CRBN +/+ anti-CD3 & anti-CD28 stimulation
SA013997CD3 KO1CRBN -/- anti-CD3 stimulation
SA013998CD3 KO2 042215CRBN -/- anti-CD3 stimulation
SA013999CD3 KO3 042215CRBN -/- anti-CD3 stimulation
SA014000CD3 KO4 042215CRBN -/- anti-CD3 stimulation
SA014001CD3 KO2CRBN -/- anti-CD3 stimulation
SA014002CD3 KO3CRBN -/- anti-CD3 stimulation
SA014003CD3 KO5 042215CRBN -/- anti-CD3 stimulation
SA014004CD3 KO4CRBN -/- anti-CD3 stimulation
SA014005CD3 KO1 042215CRBN -/- anti-CD3 stimulation
SA014006CD3 KO5CRBN -/- anti-CD3 stimulation
SA013967CD3 WT1CRBN +/+ anti-CD3 stimulation
SA013968CD3 WT3 042215CRBN +/+ anti-CD3 stimulation
SA013969CD3 WT4 042215CRBN +/+ anti-CD3 stimulation
SA013970CD3 WT5 042215CRBN +/+ anti-CD3 stimulation
SA013971CD3 WT1 042215CRBN +/+ anti-CD3 stimulation
SA013972CD3 WT2 042215CRBN +/+ anti-CD3 stimulation
SA013973CD3 WT4CRBN +/+ anti-CD3 stimulation
SA013974CD3 WT3CRBN +/+ anti-CD3 stimulation
SA013975CD3 WT5CRBN +/+ anti-CD3 stimulation
SA013976CD3 WT2CRBN +/+ anti-CD3 stimulation
SA014007Naive KO5 042215CRBN -/- unstimulated
SA014008Naive KO3CRBN -/- unstimulated
SA014009Naive KO2CRBN -/- unstimulated
SA014010Naive KO1CRBN -/- unstimulated
SA014011Naive KO4CRBN -/- unstimulated
SA014012Naive KO5CRBN -/- unstimulated
SA014013Naive KO2 042215CRBN -/- unstimulated
SA014014Naive KO3 042215CRBN -/- unstimulated
SA014015Naive KO4 042215CRBN -/- unstimulated
SA014016Naive KO1 042215CRBN -/- unstimulated
SA013977Naive WT 4 042215CRBN +/+ unstimulated
SA013978Naive WT 5 042215CRBN +/+ unstimulated
SA013979Naive WT 4CRBN +/+ unstimulated
SA013980Naive WT 5CRBN +/+ unstimulated
SA013981Naive WT 3 042215CRBN +/+ unstimulated
SA013982Naive WT 2 042215CRBN +/+ unstimulated
SA013983Naive WT 3CRBN +/+ unstimulated
SA013984Naive WT 2CRBN +/+ unstimulated
SA013985Naive WT 1CRBN +/+ unstimulated
SA013986Naive WT 1 042215CRBN +/+ unstimulated
Showing results 1 to 60 of 60


Collection ID:CO000321
Collection Summary:-
Sample Type:cell
Collection Method:centrifuged in ficoll-gradient to remove debris, then washed in PBS
Collection Time:0 or 24 hours after stimulation
Storage Conditions:-80°C
Collection Vials:15mL conical tubes
Storage Vials:microfuge tubes


Treatment ID:TR000341
Treatment Summary:-
Animal Anesthesia:CO2 asphyxiation
Animal Acclimation Duration:Mice from Jackson are subjected to a week-long acclimation period in our facility prior to experimental use.
Animal Endp Tissue Coll List:Spleen into cell culture media
Cell Growth Container:96-well round-bottom plate that was coated with anti-CD3 antibody
Cell Growth Rate:Murine T cells generally divide after 48-72 hours of stimulation.
Cell Media:RPMI 1640 with 10% FBS, pen/strep, gentamycin, NEAA, Sodium pyruvate, fungizone (Amphotericin B), 2-mercaptoethanol
Cell Envir Cond:37°C, normoxic conditions

Sample Preparation:

Sampleprep ID:SP000335
Sampleprep Summary:-
Sampleprep Protocol Filename:Consolidated Cellular Metabolomics with DNA quant.pdf
Sample Spiking:Appendix A - Internal Standard Prep GLCMS.pdf

Combined analysis:

Analysis ID AN000486 AN000487
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Scientific-Dionex Ultimate 3000 Thermo Scientific-Dionex Ultimate 3000
Column ACE Excel 2 C18-PFP (100 x 2.1mm, 2um) ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Units Peak area Peak area


Chromatography ID:CH000347
Methods Filename:Metabolomics_LCMSProtocol.pdf
Instrument Name:Thermo Scientific-Dionex Ultimate 3000
Column Name:ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
Flow Rate:0.350mL/min-0.600mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile
Chromatography Type:Reversed phase


MS ID:MS000424
Analysis ID:AN000486
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
Analysis Protocol File:Metabolomics_LCMSProtocol.pdf
MS ID:MS000425
Analysis ID:AN000487
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
Analysis Protocol File:Metabolomics_LCMSProtocol.pdf