Summary of Study ST001170

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 PR000782. The data can be accessed directly via it's Project DOI: 10.21228/M8M10T This work is supported by NIH grant, U2C- DK119886.

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Study IDST001170
Study TitleTimecourse on MCF-7 cells treated with different concentration of doxorubicin
Study SummaryMCF-7 cells treated with 10μM doxorubicin for 4h followed by subsequent withdrawl of the drug and cultured up to 48h.Doxurubicin-treated cells and control cells were collected at 0,12,24,36,and 48h. Meanwhile,MCF-7 cells continuously exposed to a low dosage of doxorubicin at 0.1μM for 96h. Doxorubicin-treated cells and control cells were collected at 0,24,48,72 and 96h.
Institute
China Pharmaceutical University
Last NameShao
First NameChang
AddressTongjiaxiang #24, Nanjing, Jiangsu, 210000, China
Emailcici_shao@126.com
Phone13951628679
Submit Date2019-04-11
Raw Data AvailableYes
Raw Data File Type(s)qgd
Analysis Type DetailLC-MS
Release Date2020-12-01
Release Version1
Chang Shao Chang Shao
https://dx.doi.org/10.21228/M8M10T
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000782
Project DOI:doi: 10.21228/M8M10T
Project Title:Carbohydrates, amino acid and nucleotide studies
Project Summary:Comparision of carbohydrates,amino acid and nucleotide between MCF-7 cells treated with different concentration of doxorubicin
Institute:China Pharmaceutical University
Last Name:Shao
First Name:Chang
Address:Tongjiaxiang #24, Nanjing, Jiangsu, 210000, China
Email:cici_shao@126.com
Phone:13951628679

Subject:

Subject ID:SU001235
Subject Type:Cultured cells
Subject Species:Homo sapiens
Taxonomy ID:9606
Gender:Not applicable

Factors:

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

mb_sample_id local_sample_id hours Doxorubicin dosage(μM)
SA08086810_NC_12h_312 -
SA08086910_NC_12h_412 -
SA08087010_NC_12h_512 -
SA08087110_NC_12h_212 -
SA08087210_NC_12h_112 -
SA08087310_12h_412 10
SA08087410_12h_212 10
SA08087510_12h_112 10
SA08087610_12h_512 10
SA08087710_12h_312 10
SA08087810_NC_24h_424 -
SA08087910_NC_24h_324 -
SA08088010_NC_24h_124 -
SA08088110_NC_24h_524 -
SA0808820.1_NC_24h_224 -
SA0808830.1_NC_24h_524 -
SA0808840.1_NC_24h_324 -
SA0808850.1_NC_24h_124 -
SA0808860.1_NC_24h_424 -
SA08088710_NC_24h_224 -
SA0808880.1_24h_324 0.1
SA0808890.1_24h_224 0.1
SA0808900.1_24h_124 0.1
SA0808910.1_24h_524 0.1
SA0808920.1_24h_424 0.1
SA08089310_24h_424 10
SA08089410_24h_124 10
SA08089510_24h_224 10
SA08089610_24h_524 10
SA08089710_24h_324 10
SA08089810_NC_36h_236 -
SA08089910_NC_36h_336 -
SA08090010_NC_36h_436 -
SA08090110_NC_36h_536 -
SA08090210_NC_36h_136 -
SA08090310_36h_136 10
SA08090410_36h_236 10
SA08090510_36h_436 10
SA08090610_36h_336 10
SA08090710_36h_536 10
SA08090810_NC_48h_548 -
SA08090910_NC_48h_448 -
SA08091010_NC_48h_348 -
SA08091110_NC_48h_248 -
SA08091210_NC_48h_148 -
SA0809130.1_NC_48h_448 -
SA0809140.1_NC_48h_248 -
SA0809150.1_NC_48h_148 -
SA0809160.1_NC_48h_348 -
SA0809170.1_NC_48h_548 -
SA0809180.1_48h_448 0.1
SA0809190.1_48h_348 0.1
SA0809200.1_48h_248 0.1
SA0809210.1_48h_148 0.1
SA0809220.1_48h_548 0.1
SA08092310_48h_348 10
SA08092410_48h_248 10
SA08092510_48h_148 10
SA08092610_48h_448 10
SA08092710_48h_548 10
SA0809280.1_NC_72h_372 -
SA0809290.1_NC_72h_472 -
SA0809300.1_NC_72h_572 -
SA0809310.1_NC_72h_272 -
SA0809320.1_NC_72h_172 -
SA0809330.1_72h_172 0.1
SA0809340.1_72h_372 0.1
SA0809350.1_72h_572 0.1
SA0809360.1_72h_272 0.1
SA0809370.1_72h_472 0.1
SA0809380.1_NC_96h_196 -
SA0809390.1_NC_96h_596 -
SA0809400.1_NC_96h_296 -
SA0809410.1_NC_96h_496 -
SA0809420.1_NC_96h_396 -
SA0809430.1_96h_196 0.1
SA0809440.1_96h_396 0.1
SA0809450.1_96h_296 0.1
SA0809460.1_96h_596 0.1
SA0809470.1_96h_496 0.1
SA08085810_NC_0h_2- -
SA08085910_NC_0h_3- -
SA08086010_NC_0h_5- -
SA0808610.1_NC_0h_1- -
SA08086210_NC_0h_4- -
SA08086310_NC_0h_1- -
SA0808640.1_NC_0h_3- -
SA0808650.1_NC_0h_2- -
SA0808660.1_NC_0h_5- -
SA0808670.1_NC_0h_4- -
Showing results 1 to 90 of 90

Collection:

Collection ID:CO001229
Collection Summary:Cells were washed with cold PBS twice and then permeabilized with cold 80% methanol followed by a 20-minute incubation at -80℃. The cell lysates were centrifuges at 14000g for 5 mins and the supernatant were collected and evaporated to dryness.
Sample Type:Cultured cells

Treatment:

Treatment ID:TR001250
Treatment Summary:MCF-7 cells were exposed to 10 μM doxorubicin for 4 hr followed by subsequent withdrawal of the drug. Meanwhile, MCF-7 cells continuously exposed to a low dosage of doxorubicin at 0.1 μM for 96 hr. Doxorubicin-treated cells and control cells were collected at different time.

Sample Preparation:

Sampleprep ID:SP001243
Sampleprep Summary:MCF-7 cells were harvested and permeabilized with cold (80% (v/v) methanol: water solution followed by a 20-min incubation at -80 ℃. A stock solution of 4-Chloro-DL-phenylalanine was pre-spiked into the methanol aqueous buffer to a final concentration of 1.5 μg/mL, which subsequently served as an internal standard (IS). The cell lysates were centrifuged at 14,000g for 5 min at 4 ℃, and the resultant supernatant were collected and evaporated to dryness. The samples were reconstituted in 100 μL of water (LC-MS grade) before analysis on an HPLC−MS/MS, and 20 μL was used for analysis. For each group of samples subjected to metabolomics analysis, five biological replicates were prepared.

Combined analysis:

Analysis ID AN001935
Analysis type MS
Chromatography type HILIC
Chromatography system Shimadzu LC-30A
Column Waters XBridge Amide (100 x 4.6mm,3.5um)
MS Type ESI
MS instrument type QTOF
MS instrument name ABI Sciex 5600 TripleTOF
Ion Mode NEGATIVE
Units normalized peak area

Chromatography:

Chromatography ID:CH001404
Chromatography Summary:The mobile phase consisted of solvent A (5 mM ammonium acetate, pH=9, and 5% acetonitrile) and solvent B (acetonitrile). The gradient was set as follows: 0–3 min, 85% B; 3–6 min, 85–30% B; 6–15 min, 30–2% B; 15–18 min, 2% B; 18–19 min, 2–85% B; 19–26 min, 85% B. The flow rate was set at 0.4 mL/min.
Instrument Name:Shimadzu LC-30A
Column Name:Waters XBridge Amide (100 x 4.6mm,3.5um)
Flow Gradient:0-3 min, 85% B; 3-6 min, 85-30% B; 6-15 min, 30-2% B; 15-18 min, 2% B; 18-19 min, 2-85% B; 19-26 min, 85% B.
Flow Rate:0.4 mL/min
Solvent A:5% acetonitrile/95% water; 5 mM ammonium acetate, pH 9
Solvent B:100% acetonitrile
Chromatography Type:HILIC

MS:

MS ID:MS001791
Analysis ID:AN001935
Instrument Name:ABI Sciex 5600 TripleTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:The MS data was acquired in the negative ion mode using a data-dependent acquisition approach. The electrospray ionization (ESI) source conditions were used as follows: TOF MS scan, m/z 50 – 1000 Da; Product ion scan, m/z 50 – 900 Da; Ion Source Gas 1 (Gas 1), 50 psi; Ion Source Gas 2 (Gas 2), 30 psi; Curtain gas, 30 psi; Source temperature, 500 ℃; Ion Spray Voltage Floating, -4500 V; Declustering potential (DP), -100V; Collision energy (CE), -35 V; CE spread, 10 V. MS data acquisition was controlled by Analyst TF 1.6.1 (AB SCIEX, Framingham, MA, USA). The accurate mass was calibrated by Calibration Delivery System.
Ion Mode:NEGATIVE
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