Summary of Study ST001133
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 PR000758. The data can be accessed directly via it's Project DOI: 10.21228/M8Q10R 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.
| Study ID | ST001133 |
| Study Title | Downregulation of CENPF epigenetically remodels prostate cancer cells and alters cellular metabolism |
| Study Summary | This study aimed to determine the metabolic profile of CENPF-knockout (CENPFKO) PC cells and identify differentially expressed metabolites (DEMs) that can be used as diagnostic markers. |
| Institute | Cedars-Sinai Medical Center |
| Last Name | Kim |
| First Name | Jayoung |
| Address | 8700 Beverly Blvd., Davis 5071 Los Angeles, CA 90048, USA |
| Jayoung.Kim@cshs.org | |
| Phone | 310-423-7168 |
| Submit Date | 2019-01-14 |
| Analysis Type Detail | GC-MS |
| Release Date | 2020-01-06 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000758 |
| Project DOI: | doi: 10.21228/M8Q10R |
| Project Title: | Downregulation of CENPF epigenetically remodels prostate cancer cells and alters cellular metabolism |
| Project Summary: | This study aimed to determine the metabolic profile of CENPF-knockout (CENPFKO) PC cells and identify differentially expressed metabolites (DEMs) that can be used as diagnostic markers. |
| Institute: | Cedars-Sinai Medical Center |
| Department: | Departments of Surgery and Biomedical Sciences |
| Last Name: | Kim |
| First Name: | Jayoung |
| Address: | 8700 Beverly Blvd., Davis 5071 Los Angeles, CA 90048, USA |
| Email: | Jayoung.Kim@cshs.org |
| Phone: | 310-423-7168 |
Subject:
| Subject ID: | SU001194 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Gender: | Not applicable |
| Species Group: | Mammals |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | CENPF |
|---|---|---|
| SA078168 | PC3_003 | Control |
| SA078169 | PC3_002 | Control |
| SA078170 | PC3_001 | Control |
| SA078171 | PC3_CENPF_KO_005 | KO |
| SA078172 | PC3_CENPF_KO_006 | KO |
| SA078173 | PC3_CENPF_KO_004 | KO |
| Showing results 1 to 6 of 6 |
Collection:
| Collection ID: | CO001188 |
| Collection Summary: | Human PC3 cells were obtained from American Type Culture Collection (ATCC, Manassas, VA, USA). |
| Sample Type: | Prostate |
Treatment:
| Treatment ID: | TR001209 |
| Treatment Summary: | CENPFKO PC3 cell line was constructed using the CRISPR/Cas9 system by ALSTEM, LLC (Richmond, CA). |
Sample Preparation:
| Sampleprep ID: | SP001202 |
| Sampleprep Summary: | Samples were dissolved in 1 ml -20'C mixture of acetonitrile, isopropanol, and water (3:3:2 v/v) at a pH of 7. The solution was then vortexed at 4'C for 5 min. Samples were centrifuged for 2 min at 14,000 rcf and 500 ul were aliquoted. The aliquots were then evaporated in a Labconco Centrivap Cold Trap to complete dryness. The methoximation step was performed using a 10 ul solution of 40 mg/ml O-methylhydroxylamine hydrochloride (CAS: [593-56-6]; Formula: CH5NO.HCl) and shaken for 90 min at 30C. Then, 90 ul of N-methyl-N-trimethylsilyltrifluoroacetamide (MSTFA) was added and the solution was shaken for 30 min at 37'C. After, a 1 ul mixture of fatty acid methyl ester (FAME) retention time markers were added. The mixture was transferred to amber crimp autosampler vials. |
Chromatography:
| Chromatography ID: | CH001345 |
| Chromatography Summary: | An Agilent 6890GC with an Agilent 6890 Split/Splitless Injector was used. The column used was a Restek RTX-5Sil MS (95% dimethyl/5% diphenyl polysiloxane) with a 30 m length, 0.25 mm i.d., 0.25 um film thickness, and an additional 10 m guard column. |
| Instrument Name: | Agilent 6890N |
| Column Name: | Restek Rtx-5Sil (30m x 0.25mm,0.25um) |
| Chromatography Type: | GC |
Analysis:
| Analysis ID: | AN001858 |
| Analysis Type: | MS |
| Chromatography ID: | CH001345 |
| Num Factors: | 2 |
| Num Metabolites: | 163 |
| Has Mz: | 1 |
| Rt Units: | No RT data |
| Results File: | ST001133_AN001858_Results.txt |
| Units: | normalized intensity |
