Summary of Study ST001776

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 PR001130. The data can be accessed directly via it's Project DOI: 10.21228/M8N706 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001776
Study TitleMetabolic Response of HEK 293 Cells Exposed to Methylmercury
Study SummaryHEK 293 cells were treated with 7.5 μM methylmercury (HgMe) for 48 h. Metabolites were extracted and subjected to LC-HRMS based metabolomics. LC-HRMS data were processed by SIEVE2.2 software. Metabolites associated with HgMe toxicity were screened and identified.
Institute
University of Macau
Last NameZhang
First Namepw
AddressTaipa, Macau SAR, China
Emailyb47620@um.edu.mo
Phone8613924251358
Submit Date2021-04-27
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2022-01-02
Release Version1
pw Zhang pw Zhang
https://dx.doi.org/10.21228/M8N706
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001130
Project DOI:doi: 10.21228/M8N706
Project Title:Study on the Metabolic Response of HEK 293 Cells Exposed to Methylmercury
Project Summary:HEK 293 cells were treated with 7.5 μM methylmercury (HgMe) for 48 h. Metabolites were extracted and subjected to LC-HRMS based metabolomics. LC-HRMS data were processed by SIEVE2.2 software. Metabolites associated with HgMe toxicity were screened and identified.
Institute:University of Macau
Last Name:Zhang
First Name:pw
Address:Taipa, Macau SAR, China
Email:yb47620@connect.um.edu.mo
Phone:8613924251358

Subject:

Subject ID:SU001853
Subject Type:Cultured cells
Subject Species:Homo sapiens
Taxonomy ID:9606
Gender:Female
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Treatment
SA164942S5R3Control
SA164943S5R1Control
SA164944S4R3Control
SA164945S6R1Control
SA164946S6R2Control
SA164947S1R1Control
SA164948S6R3Control
SA164949S4R2Control
SA164950S5R2Control
SA164951S2R2Control
SA164952S2R1Control
SA164953S4R1Control
SA164954S1R2Control
SA164955S2R3Control
SA164956S1R3Control
SA164957S3R1Control
SA164958S3R2Control
SA164959S3R3Control
SA164960S11R2HgMe
SA164961S10R3HgMe
SA164962S11R1HgMe
SA164963S11R3HgMe
SA164964S12R2HgMe
SA164965S10R2HgMe
SA164966S12R3HgMe
SA164967S12R1HgMe
SA164968S7R1HgMe
SA164969S8R1HgMe
SA164970S7R3HgMe
SA164971S7R2HgMe
SA164972S8R2HgMe
SA164973S8R3HgMe
SA164974S9R3HgMe
SA164975S9R2HgMe
SA164976S9R1HgMe
SA164977S10R1HgMe
Showing results 1 to 36 of 36

Collection:

Collection ID:CO001846
Collection Summary:At the endpoint of the experiment, cells were washed gently with 150 mM ammonium acetate buffer and scraped quickly with a rubber-tipped cell scraper. Subsequently, 500 uL chilled 80% methanol was added and the scraped cells were sonicated using a bioruptor (Diagenode, Philadelphia, PA, USA) in 4 °C water bath during 10 cycles (30s on and 30s off). After that, the sample was placed at -20 °C for 3 h, followed by 10 min of centrifugation at 14000 g at 4 °C. The supernatant containing the metabolite was collected, dried, and stored at -80 °C until LC-HRMS analysis.
Sample Type:HEK cells

Treatment:

Treatment ID:TR001866
Treatment Summary:About 1 million cells were seeded in a 25 cm2 flask. When cells reached about 50% confluence, the experimental group was changed with medium containing 7.5 uM methylmercury and the control group was changed with fresh culture medium. After 48 h treatment, cells were harvested.
Cell Growth Container:25 cm2 flask
Cell Media:DMEM
Cell Harvesting:90% confluence

Sample Preparation:

Sampleprep ID:SP001859
Sampleprep Summary:cells were washed gently with 150 mM ammonium acetate buffer and scraped quickly with a rubber-tipped cell scraper. Subsequently, 500 uL chilled 80% methanol was added and the scraped cells were sonicated using a bioruptor (Diagenode, Philadelphia, PA, USA) in 4 °C water bath during 10 cycles (30s on and 30s off). After that, the sample was placed at -20 °C for 3 h, followed by 10 min of centrifugation at 14000 g at 4 °C. The supernatant containing the metabolite was dried by speedvac and stored at -80 °C until LC-HRMS analysis.The residual protein pellet was dissolved in protein extraction buffer and quantified for normalization.
Processing Storage Conditions:4℃
Extract Storage:-80℃
Sample Resuspension:Sampe were reconstituted in 50% ACN. The volume was adjusted by the protein concentration.

Chromatography:

Chromatography ID:CH002138
Chromatography Summary:The UHPLC system was equipped with a binary pump, an autosampler and a column thermostat. The autosampler was set at 8 °C. The column oven temperature was 30 °C. Mobile phase A was 98% acetonitrile, 2% water and 0.1% formic acid while mobile phase B was 98% water, 2% acetonitrile, 30 mM ammonium formate and 0.1% formic acid. The mobile phase was freshly prepared before use. The optimized stepwise linear gradient (10% B in the first 2 min, 10% - 30% B in the next 5 min, followed by 30% - 60% in 3 min, and finally 60% - 90% in 5 min.
Instrument Name:Thermo Dionex Ultimate 3000 RS
Column Name:Thermo Accucore HILIC (100 x 2.1mm,2.6um)
Column Temperature:25
Solvent A:98% acetonitrile/2% water; 0.1% formic acid
Solvent B:98% water/2% acetonitrile; 0.1% formic acid; 30 mM ammonium formate
Sample Loop Size:10
Chromatography Type:HILIC

Analysis:

Analysis ID:AN002883
Analysis Type:MS
Chromatography ID:CH002138
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST001776_AN002883_Results.txt
Units:arbitray unit
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