Summary of Study ST001610
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 PR001035. The data can be accessed directly via it's Project DOI: 10.21228/M8X39Q This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST001610 |
| Study Title | Control (DMSO 0.1%; v/v) and 10 µM DRB18 treated A549 lung cancer cells in vitro for 48 hours |
| Study Type | Anticancer compound treatment experiment |
| Study Summary | Control (DMSO 0.1%; v/v) and 10 µM DRB18 were used to treated 5 million A549 lung cancer cells in vitro for 48 hours. The untargeted metabolomics analysis was performed on the cell lysates. The main objective of the study was to determine changes in metabolite abundances in lung cancer after treatment with DRB18, an inhibitor of glucose transporter proteins. |
| Institute | Ohio University |
| Department | Biological Sciences |
| Laboratory | Dr. Xiaozhuo Chen, Edison biotechnology Institute |
| Last Name | Shriwas |
| First Name | Pratik |
| Address | 172 Water Tower, Building 25, The Ridges, Konnekar Research Centerm Athens Ohio - 45701, USA |
| ps774614@ohio.edu | |
| Phone | 740-603-3801 |
| Submit Date | 2020-11-08 |
| Num Groups | 2 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2020-12-09 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001035 |
| Project DOI: | doi: 10.21228/M8X39Q |
| Project Title: | Untargeted metabolomics analysis of A549 cancer cells treated in vitro and in vivo by control (DMSO) or DRB18 |
| Project Type: | Untargeted quantitative metabolomics analysis |
| Project Summary: | DR18, a novel anticancer compound was used to A549 lung cancer cells in vitro and A549 cell line derived xenograft tumors in vivo in nude mice. The untargeted metabolomics data was generated from these studies. |
| Institute: | Ohio University |
| Department: | Biological Sciences |
| Laboratory: | Dr. Xiaozhuo Chen, Edison biotechnology Institute |
| Last Name: | Shriwas |
| First Name: | Pratik |
| Address: | 172 Water Tower, Building 25, The Ridges, Konnekar Research Centerm Athens Ohio - 45701, USA |
| Email: | ps774614@ohio.edu |
| Phone: | 740-603-3801 |
| Contributors: | Campus Chemical Instrument Center, Ohio State University |
Subject:
| Subject ID: | SU001687 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Cell Strain Details: | Human Lung epithelial A549 cancer cells |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment |
|---|---|---|
| SA136748 | Controlinvitro_8 | Control |
| SA136749 | Controlinvitro_9 | Control |
| SA136750 | Controlinvitro_1 | Control |
| SA136751 | Controlinvitro_6 | Control |
| SA136752 | Controlinvitro_7 | Control |
| SA136753 | Controlinvitro_2 | Control |
| SA136754 | Controlinvitro_4 | Control |
| SA136755 | Controlinvitro_3 | Control |
| SA136756 | Controlinvitro_5 | Control |
| SA136757 | DRB18invitro_7 | DRB18 |
| SA136758 | DRB18invitro_8 | DRB18 |
| SA136759 | DRB18invitro_9 | DRB18 |
| SA136760 | DRB18invitro_6 | DRB18 |
| SA136761 | DRB18invitro_1 | DRB18 |
| SA136762 | DRB18invitro_2 | DRB18 |
| SA136763 | DRB18invitro_3 | DRB18 |
| SA136764 | DRB18invitro_4 | DRB18 |
| SA136765 | DRB18invitro_5 | DRB18 |
| Showing results 1 to 18 of 18 |
Collection:
| Collection ID: | CO001680 |
| Collection Summary: | A549 lung cancer cells were treated with control or DRB18 and then collected according to sample preparation protocol. |
| Sample Type: | Lung |
| Collection Method: | Ice cold methanol (80%) using cell scrappers |
| Collection Location: | 150mm dish |
| Collection Frequency: | Once |
| Collection Duration: | 1-2 sec |
| Volumeoramount Collected: | 1 ml |
| Storage Conditions: | -80℃ |
| Collection Vials: | Polypropylene 1.5 ml tubes |
| Storage Vials: | Polypropylene 1.5 ml |
| Tissue Cell Quantity Taken: | 5 million |
Treatment:
| Treatment ID: | TR001700 |
| Treatment Summary: | 5 million A549 cells were treated with or without DRB18 (n=3) for 48 hours. |
| Treatment: | Anticancer compound in vitro |
| Treatment Compound: | Control (DMSO; 0.1% v/v) and DRB18 |
| Treatment Dosevolume: | 10 ml DMEM media containing appropriate compounds |
| Treatment Vehicle: | DMSO |
| Cell Storage: | 37C; 5% CO2 incubator |
| Cell Growth Container: | 150 mm Dish tissue culture treated |
| Cell Media: | DMEM (10% FBS; 1% Pen/Strep) |
| Cell Harvesting: | after 48 hours |
| Cell Pct Confluence: | 80% |
| Cell Media Lastchanged: | NA |
Sample Preparation:
| Sampleprep ID: | SP001693 |
| Sampleprep Summary: | 5 × 106 A549 cells were treated with or without DRB18 for 48 hours. After treatment, cells were washed twice with deionized water and polar metabolites were then extracted with cryogenically cold 80% methanol/water mixture. LC-MS grade water, methanol, and acetonitrile (Fischer Scientific, PA, USA) were used. Methanol-extracted samples were then sonicated in cycles of sonication phase and rest phase for 10 minutes (5 second sonication phase and 10 seconds halt). The samples were then centrifuged at 13,000 rpm for 10 minutes and supernatant was then collected. Supernatants collected from in vitro and in vivo extraction were then lyophilized. Briefly, the supernatant was then lyophilized by using a speed vaccum evaporator. The samples were then dissolved into a mixture of acetonitrile/water (1:1; v/v). |
| Processing Method: | Quenching |
| Processing Storage Conditions: | -80℃ |
| Extraction Method: | Quenching with Ice cold methanol |
| Extract Enrichment: | Speed vaccum evaporator |
| Extract Storage: | -80℃ |
| Sample Resuspension: | Acetonitrile/waster (1:1) |
Combined analysis:
| Analysis ID | AN002644 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Agilent 1290 |
| Column | Poroshell 120 SB-C18 (100 x 2.1mm,2.7um) |
| MS Type | ESI |
| MS instrument type | QTOF |
| MS instrument name | Agilent 6545 QTOF |
| Ion Mode | POSITIVE |
| Units | Normalized abundances |
Chromatography:
| Chromatography ID: | CH001953 |
| Chromatography Summary: | The entire LC/MS-MS experiment was performed in the Campus Chemical Instrumentation Center’s Mass Spectrometry and Proteomics facility at The Ohio State University. Lyophilized samples were dissolved in equal amounts of LC-MS grade water and acetonitrile and run with LC/MS-MS analysis, using an untargeted metabolomics approach by utilizing Agilent Q-TOF 6545 mass spectrometer connected to an Agilent 1290 UHPLC system with a Poroshell 120 SB-C18 (2 x 100 mm, 2.7 µm particle size) column. The LC gradient consisted of solvent A, H2O with 0.1 % Formic acid, and solvent B, 100 % acetonitrile at a 200 µL/min flow rate with an initial 2 % solvent B with a linear ramp to 95 % B at 15 min, holding at 95% B for 1 minutes, and back to 2 % B from 16 min and equilibration of 2 % B until min 32. A 5 µL volume sample was injected for each run and the top 5 ions were selected for data-dependent analysis with a 15 second exclusion window. |
| Instrument Name: | Agilent 1290 |
| Column Name: | Poroshell 120 SB-C18 (100 x 2.1mm,2.7um) |
| Column Pressure: | 800 bar |
| Column Temperature: | 40 |
| Flow Gradient: | an initial 2 % solvent B with a linear ramp to 95 % B at 15 min, holding at 95% B for 1 minutes, and back to 2 % B from 16 min and equilibration of 2 % B until min 32. |
| Flow Rate: | 200 µL/min |
| Sample Injection: | 5 µL |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 100% acetonitrile |
| Capillary Voltage: | 500 V |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS002456 |
| Analysis ID: | AN002644 |
| Instrument Name: | Agilent 6545 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | Masshunter software was used to collect the raw data |
| Ion Mode: | POSITIVE |
