Summary of Study ST000307
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 PR000247. The data can be accessed directly via it's Project DOI: 10.21228/M8VG6R This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
Study ID | ST000307 |
Study Title | Targeting CRBN to alter CD8 T cell metabolism |
Study Type | T cell activation |
Study Summary | The purpose of this study was to evaluate the metabolic profile of different treatments of T-Cells among two separate mouse genotypes. |
Institute | University of Florida |
Department | SECIM |
Laboratory | Moffitt Cancer Center - Immunology |
Last Name | Swearingen |
First Name | Rebecca |
Address | - |
rebecca.swearingen@moffitt.org | |
Phone | - |
Submit Date | 2015-12-22 |
Num Groups | 12 |
Total Subjects | 60 |
Raw Data Available | Yes |
Raw Data File Type(s) | mzXML, raw(Thermo) |
Analysis Type Detail | LC-MS |
Release Date | 2016-12-22 |
Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
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 |
Department: | Immunology |
Last Name: | Burnette |
First Name: | Pearlie |
Address: | - |
Email: | pearlie.burnette@moffitt.org |
Phone: | - |
Subject:
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: | Mammals |
Factors:
Subject type: Animal; Subject species: Mus musculus (Factor headings shown in green)
mb_sample_id | local_sample_id | Strain | Treatment |
---|---|---|---|
SA013957 | CD3 + CD28 WT1 042215 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013958 | CD3 + CD28 WT3 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013959 | CD3 + CD28 WT4 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013960 | CD3 + CD28 WT3 042215 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013961 | CD3 + CD28 WT5 042215 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013962 | CD3 + CD28 WT1 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013963 | CD3 + CD28 WT2 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013964 | CD3 + CD28 WT5 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013965 | CD3 + CD28 WT4 042215 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013966 | CD3 + CD28 WT2 042215 | CRBN +/+ | anti-CD3 & anti-CD28 stimulation |
SA013987 | CD3 + CD28 KO5 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013988 | CD3 + CD28 KO4 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013989 | CD3 + CD28 KO1 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013990 | CD3 + CD28 KO5 042215 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013991 | CD3 + CD28 KO3 042215 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013992 | CD3 + CD28 KO2 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013993 | CD3 + CD28 KO1 042215 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013994 | CD3 + CD28 KO3 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013995 | CD3 + CD28 KO2 042215 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013996 | CD3 + CD28 KO4 042215 | CRBN -/- | anti-CD3 & anti-CD28 stimulation |
SA013967 | CD3 WT1 | CRBN +/+ | anti-CD3 stimulation |
SA013968 | CD3 WT3 042215 | CRBN +/+ | anti-CD3 stimulation |
SA013969 | CD3 WT4 042215 | CRBN +/+ | anti-CD3 stimulation |
SA013970 | CD3 WT5 042215 | CRBN +/+ | anti-CD3 stimulation |
SA013971 | CD3 WT1 042215 | CRBN +/+ | anti-CD3 stimulation |
SA013972 | CD3 WT2 042215 | CRBN +/+ | anti-CD3 stimulation |
SA013973 | CD3 WT4 | CRBN +/+ | anti-CD3 stimulation |
SA013974 | CD3 WT3 | CRBN +/+ | anti-CD3 stimulation |
SA013975 | CD3 WT5 | CRBN +/+ | anti-CD3 stimulation |
SA013976 | CD3 WT2 | CRBN +/+ | anti-CD3 stimulation |
SA013997 | CD3 KO1 | CRBN -/- | anti-CD3 stimulation |
SA013998 | CD3 KO2 042215 | CRBN -/- | anti-CD3 stimulation |
SA013999 | CD3 KO3 042215 | CRBN -/- | anti-CD3 stimulation |
SA014000 | CD3 KO4 042215 | CRBN -/- | anti-CD3 stimulation |
SA014001 | CD3 KO2 | CRBN -/- | anti-CD3 stimulation |
SA014002 | CD3 KO3 | CRBN -/- | anti-CD3 stimulation |
SA014003 | CD3 KO5 042215 | CRBN -/- | anti-CD3 stimulation |
SA014004 | CD3 KO4 | CRBN -/- | anti-CD3 stimulation |
SA014005 | CD3 KO1 042215 | CRBN -/- | anti-CD3 stimulation |
SA014006 | CD3 KO5 | CRBN -/- | anti-CD3 stimulation |
SA013977 | Naive WT 4 042215 | CRBN +/+ | unstimulated |
SA013978 | Naive WT 5 042215 | CRBN +/+ | unstimulated |
SA013979 | Naive WT 4 | CRBN +/+ | unstimulated |
SA013980 | Naive WT 5 | CRBN +/+ | unstimulated |
SA013981 | Naive WT 3 042215 | CRBN +/+ | unstimulated |
SA013982 | Naive WT 2 042215 | CRBN +/+ | unstimulated |
SA013983 | Naive WT 3 | CRBN +/+ | unstimulated |
SA013984 | Naive WT 2 | CRBN +/+ | unstimulated |
SA013985 | Naive WT 1 | CRBN +/+ | unstimulated |
SA013986 | Naive WT 1 042215 | CRBN +/+ | unstimulated |
SA014007 | Naive KO5 042215 | CRBN -/- | unstimulated |
SA014008 | Naive KO3 | CRBN -/- | unstimulated |
SA014009 | Naive KO2 | CRBN -/- | unstimulated |
SA014010 | Naive KO1 | CRBN -/- | unstimulated |
SA014011 | Naive KO4 | CRBN -/- | unstimulated |
SA014012 | Naive KO5 | CRBN -/- | unstimulated |
SA014013 | Naive KO2 042215 | CRBN -/- | unstimulated |
SA014014 | Naive KO3 042215 | CRBN -/- | unstimulated |
SA014015 | Naive KO4 042215 | CRBN -/- | unstimulated |
SA014016 | Naive KO1 042215 | CRBN -/- | unstimulated |
Showing results 1 to 60 of 60 |
Collection:
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:
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 Type | ESI | ESI |
MS instrument type | Orbitrap | Orbitrap |
MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
Ion Mode | POSITIVE | NEGATIVE |
Units | Peak area | Peak area |
Chromatography:
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:
MS ID: | MS000424 |
Analysis ID: | AN000486 |
Instrument Name: | Thermo Q Exactive Orbitrap |
Instrument Type: | Orbitrap |
MS Type: | ESI |
Ion Mode: | POSITIVE |
Analysis Protocol File: | Metabolomics_LCMSProtocol.pdf |
MS ID: | MS000425 |
Analysis ID: | AN000487 |
Instrument Name: | Thermo Q Exactive Orbitrap |
Instrument Type: | Orbitrap |
MS Type: | ESI |
Ion Mode: | NEGATIVE |
Analysis Protocol File: | Metabolomics_LCMSProtocol.pdf |