Summary of Study ST000459

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 PR000354. The data can be accessed directly via it's Project DOI: 10.21228/M8930Q This work is supported by NIH grant, U2C- DK119886.


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Study IDST000459
Study TitleEffect of Odc knockout on amino acid steady state levels of Eμ-Myc lymphomas
Study TypeCells are treated with vehicle or Doxycycline - to promote deletion of Odc gene
Study SummaryCells were collected 48 hours after treatment with Dox.
University of Florida
LaboratoryJohn Cleveland
Last NameFernandez
First NameMario
Address12902 Magnolia Drive, MRC 4-West
Submit Date2016-09-08
Num Groups4
Total Subjects12
Study CommentsGroups collected in triplicate per time point, either treated or untreated with Doxycycline.
Analysis Type DetailLC-MS
Release Date2020-07-08
Release Version1
Mario Fernandez Mario Fernandez application/zip

Select appropriate tab below to view additional metadata details:


Project ID:PR000354
Project DOI:doi: 10.21228/M8930Q
Project Title:The effect of BCAT1 knockdown on amino acid homeostasis
Project Type:Amino acid steady-state level analysis
Project Summary:Raji cells, a Burkitt lymphoma, expressing a Dox-inducible short hairpin targeting BCAT1 were collected in triplicate at 0, 48, 96, and 144 hours.
Institute:H. Lee Moffitt Cancer Center
Department:Tumor Biology
Laboratory:John Cleveland
Last Name:Fernandez
First Name:Mario
Address:12902 Magnolia Drive, MRC 4-West
Funding Source:5R01CA154739


Subject ID:SU000480
Subject Type:Cells
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:Eμ-Myc;rtTA;Odc fl/fl - C57BL/6
Cell Strain Details:YA95
Cell Primary Immortalized:Immortalized
Cell Passage Number:5
Cell Counts:6e6 to 20e6/sample
Species Group:Mammal


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

mb_sample_id local_sample_id Treatment Genotype
SA023229YA95_11Doxycycline Odc -/-
SA023230YA95_10Doxycycline Odc -/-
SA023231YA95_12Doxycycline Odc -/-
SA023232YA95_6Doxycycline Odc WT
SA023233YA95_4Doxycycline Odc WT
SA023234YA95_5Doxycycline Odc WT
SA023235YA95_9Vehicle Odc WT
SA023236YA95_7Vehicle Odc WT
SA023237YA95_2Vehicle Odc WT
SA023238YA95_3Vehicle Odc WT
SA023239YA95_1Vehicle Odc WT
SA023240YA95_8Vehicle Odc WT
Showing results 1 to 12 of 12


Collection ID:CO000474
Collection Summary:Cells were counted, cells were collected via centrifugation, washed twice with cold 1x PBS, PBS removed and flash frozen. Pellets were saved at -80 C.
Sample Type:Cell
Collection Method:Pellet
Collection Location:Lab
Collection Frequency:Once at 48 hours post-treatment
Volumeoramount Collected:Depends on sample. Collected as many cells as available. Total cell number range between samples is 6e6 to 20e6 cells per pellet
Storage Conditions:Pellet
Storage Vials:1.5 mL microfuge tube
Tissue Cell Identification:YA95


Treatment ID:TR000494
Treatment Summary:Cells were treated with vehicle (dH2O) or 500 ng/mL doxycycline.
Treatment Compound:Doxycycline
Treatment Dose:500 ng/mL
Treatment Dosevolume:4 mL
Treatment Doseduration:48 hours
Treatment Vehicle:dH2O
Cell Growth Container:6-well plate

Sample Preparation:

Sampleprep ID:SP000487
Sampleprep Summary:Amino acid
Sampleprep Protocol Filename:SB_AA_Assay.pdf

Combined analysis:

Analysis ID AN000720
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 1290 Infinity
Column Waters AccQ Tag (100 x 2mm,1.7um)
MS instrument type Triple quadrupole
MS instrument name Agilent 6490 QQQ
Units nmol/mg protein


Chromatography ID:CH000517
Chromatography Summary:Amino Acid
Methods Filename:SB_AA_Assay.pdf
Instrument Name:Agilent 1290 Infinity
Column Name:Waters AccQ Tag (100 x 2mm,1.7um)
Column Temperature:55
Flow Rate:0.7 mL/min
Solvent A:AccQ·Tag Eluent A
Solvent B:accQ·Tag Eluent B
Chromatography Type:Reversed phase


MS ID:MS000640
Analysis ID:AN000720
Instrument Name:Agilent 6490 QQQ
Instrument Type:Triple quadrupole