Summary of Study ST000460
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 PR000354. The data can be accessed directly via it's Project DOI: 10.21228/M8930Q This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
Study ID | ST000460 |
Study Title | Effect of ATG7 reconstitution in AGY571 cells |
Study Type | Cells are treated with vehicle or Doxycycline - to induce expression of GFP or ATG7 |
Study Summary | AGY571 cells engineered to express Dox-inducible GFP or ATG7 were treated with 500 ng/mL or 1 ug/mL Doxycycline for 48 hours. Assessing the effects of ATG7 reexpression in B cell lymphoma. |
Institute | University of Florida |
Department | SECIM |
Laboratory | John Cleveland |
Last Name | Fernandez |
First Name | Mario |
Address | 12902 Magnolia Drive, MRC 4-West |
mario.fernandez@moffitt.org | |
Phone | 813-745-5140 |
Submit Date | 2016-09-08 |
Num Groups | 5 |
Total Subjects | 15 |
Study Comments | Groups collected in triplicate per time point, either treated or untreated with Doxycycline. |
Analysis Type Detail | LC-MS |
Release Date | 2020-07-08 |
Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
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 |
Email: | mario.fernandez@moffitt.org |
Phone: | 813-745-5140 |
Funding Source: | 5R01CA154739 |
Subject:
Subject ID: | SU000481 |
Subject Type: | Cells |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Cell Strain Details: | AGY571 |
Subject Comments: | See study design section for cell number per sample for cell counts |
Cell Primary Immortalized: | Immortalized |
Species Group: | Mammal |
Factors:
Subject type: Cells; Subject species: Mus musculus (Factor headings shown in green)
mb_sample_id | local_sample_id | Treatment | Dox Concentration | Ectopic Gene Expression |
---|---|---|---|---|
SA023241 | AGY571_009 | Doxycycline | 1 ug/mL | ATG7 |
SA023242 | AGY571_007 | Doxycycline | 1 ug/mL | ATG7 |
SA023243 | AGY571_008 | Doxycycline | 1 ug/mL | ATG7 |
SA023244 | AGY571_003 | Doxycycline | 1 ug/mL | GFP (ATG7-/-) |
SA023245 | AGY571_001 | Doxycycline | 1 ug/mL | GFP (ATG7-/-) |
SA023246 | AGY571_002 | Doxycycline | 1 ug/mL | GFP (ATG7-/-) |
SA023247 | AGY571_013 | Doxycycline | 500 ng/mL | ATG7 |
SA023248 | AGY571_014 | Doxycycline | 500 ng/mL | ATG7 |
SA023249 | AGY571_015 | Doxycycline | 500 ng/mL | ATG7 |
SA023250 | AGY571_012 | Doxycycline | 500 ng/mL | GFP (ATG7-/-) |
SA023251 | AGY571_010 | Doxycycline | 500 ng/mL | GFP (ATG7-/-) |
SA023252 | AGY571_011 | Doxycycline | 500 ng/mL | GFP (ATG7-/-) |
SA023253 | AGY571_006 | Vehicle | 0 ug/mL | None (ATG7-/- backgound) |
SA023254 | AGY571_005 | Vehicle | 0 ug/mL | None (ATG7-/- backgound) |
SA023255 | AGY571_004 | Vehicle | 0 ug/mL | None (ATG7-/- backgound) |
Showing results 1 to 15 of 15 |
Collection:
Collection ID: | CO000475 |
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: | 48 hours after Dox treatment |
Storage Conditions: | Pellet at -80C |
Storage Vials: | 1.5 mL microfuge tube |
Tissue Cell Identification: | AGY571 cells |
Treatment:
Treatment ID: | TR000495 |
Treatment Summary: | Cells were treated with vehicle (dH2O) or 500 ng/mL doxycycline. |
Treatment Compound: | Doxycycline |
Treatment Dose: | 0.5-1.0 ug/mL |
Treatment Dosevolume: | 5 mL |
Treatment Doseduration: | 48 hours |
Treatment Vehicle: | dH2O |
Cell Growth Container: | 6-well plate |
Sample Preparation:
Sampleprep ID: | SP000488 |
Sampleprep Summary: | Amino acid |
Sampleprep Protocol Filename: | SB_AA_Assay.pdf |
Combined analysis:
Analysis ID | AN000721 |
---|---|
Analysis type | MS |
Chromatography type | Reversed phase |
Chromatography system | Agilent 1290 Infinity |
Column | Waters AccQ Tag (100 x 2mm,1.7um) |
MS Type | ESI |
MS instrument type | Triple quadrupole |
MS instrument name | Agilent 6490 QQQ |
Ion Mode | POSITIVE |
Units | nmol/mg protein |
Chromatography:
Chromatography ID: | CH000518 |
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:
MS ID: | MS000641 |
Analysis ID: | AN000721 |
Instrument Name: | Agilent 6490 QQQ |
Instrument Type: | Triple quadrupole |
MS Type: | ESI |
MS Comments: | Amino Acids |
Ion Mode: | POSITIVE |