Summary of Study ST001170

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 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.
China Pharmaceutical University
Last NameShao
First NameChang
AddressTongjiaxiang #24, Nanjing, Jiangsu, 210000, China
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 application/zip

Select appropriate tab below to view additional metadata details:


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


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


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 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 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 instrument type QTOF
MS instrument name ABI Sciex 5600 TripleTOF
Units normalized peak area


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 ID:MS001791
Analysis ID:AN001935
Instrument Name:ABI Sciex 5600 TripleTOF
Instrument Type:QTOF
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.