Summary of Study ST001429
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 PR000981. The data can be accessed directly via it's Project DOI: 10.21228/M8WD7R 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 | ST001429 |
| Study Title | MYC regulates ribosome biogenesis and mitochondrial gene expression programs through its interaction with Host Cell Factor-1 |
| Study Summary | MYC is an oncoprotein transcription factor that is overexpressed in the majority cancers. Although MYC itself is considered undruggable, it may be possible to inhibit MYC by targeting the co-factors it uses to drive oncogenic gene expression patterns. Here, we use loss- and gain- of function approaches to interrogate how one MYC co-factor—Host Cell Factor (HCF)-1—contributes to MYC activity in a Burkitt lymphoma setting. We identify high-confidence direct targets of the MYC–HCF-1 interaction that are regulated through a recruitment-independent mechanism, including genes that control mitochondrial function and rate-limiting steps for ribosome biogenesis and translation. We describe how these gene expression events impact cell growth and metabolism, and demonstrate that the MYC–HCF-1 interaction is essential for tumor maintenance in vivo. This work highlights the MYC–HCF-1 interaction as a focal point for development of novel anti-cancer therapies. |
| Institute | Vanderbilt University |
| Last Name | Codreanu |
| First Name | Simona |
| Address | 1234 Stevenson Center Lane |
| simona.codreanu@vanderbilt.edu | |
| Phone | 6158758422 |
| Submit Date | 2020-07-15 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2021-01-19 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Combined analysis:
| Analysis ID | AN002389 | AN002390 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | HILIC |
| Chromatography system | Thermo Vanquish | Thermo Vanquish |
| Column | Thermo Accucore C18 (100 x 2.1mm,2.6um) | EMD Millipore ZIC-HILIC (100 x 2.1mm,3.5um) |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive HF hybrid Orbitrap | Thermo Q Exactive HF hybrid Orbitrap |
| Ion Mode | POSITIVE | POSITIVE |
| Units | peak area | peak area |
Chromatography:
| Chromatography ID: | CH001756 |
| Chromatography Summary: | RPLC analysis metabolite extracts (10 μl injection volume) were separated on a Hypersil Gold, 1.9 μm, 2.1mm x 100 mm column (Thermo Fisher) held at 40°C. Liquid chromatography was performed at a 250 μl/min using solvent A (0.1% formic acid in H2O) and solvent B (0.1% formic acid in acetonitrile) with the following gradient: 5% B for 1 minute, 5-50% B over 9 minutes, 50-70% B over 5 minutes, 70-95% B over 5 minutes, 95% B held 2 minutes, and 95-5% B over 3 minutes, 5% B held 5 minutes (gradient length: 30 minutes). |
| Methods Filename: | Global untargeted method_MYC_Project |
| Instrument Name: | Thermo Vanquish |
| Column Name: | Thermo Accucore C18 (100 x 2.1mm,2.6um) |
| Column Temperature: | 40 |
| Flow Rate: | 0.25 mL/min |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 100% acetonitrile, 0.1% formic acid |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH001757 |
| Chromatography Summary: | For HILIC analysis metabolite extracts (10 μl injection volume) were separated on a SeQuant ZIC-HILIC 3.5-μm, 2.1 mm × 100 mm column (Millipore Corporation, Darmstadt, Germany) held at 40°C. Liquid chromatography was performed at a 200 μl min−1 using solvent A (5 mM Ammonium formate in 90% H2O, 10% acetonitrile) and solvent B (5 mM Ammonium formate in 90% acetonitrile, 10% H2O) with the following gradient: 95% B for 2 min, 95-40% B over 16 min, 40% B held 2 min, and 40-95% B over 15 min, 95% B held 10 min (gradient length 45 min). |
| Methods Filename: | Global untargeted method_MYC_Project |
| Instrument Name: | Thermo Vanquish |
| Column Name: | EMD Millipore ZIC-HILIC (100 x 2.1mm,3.5um) |
| Column Temperature: | 40 |
| Flow Rate: | 0.2 mL/min |
| Solvent A: | 90% water/10% acetonitrile; 5 mM ammonium formate |
| Solvent B: | 90% acetonitrile/10% water; 5 mM ammonium formate |
| Chromatography Type: | HILIC |
