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| Status |
Public on Mar 30, 2015 |
| Title |
Interaction with WDR5 promotes target gene recognition and tumorigenesis by MYC |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We report a comparison of the genome-wide binding patterns of MYC and WDR5, and the effects of a mutation in MYC (WBM) that disrupt the MYC-WDR5 interaction.
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| Overall design |
The experimental design included two distinct experimental strategies. For comparison of genome-wide binding patters of wild-type (WT) and WDR5 binding-deficient (WBM) MYC, HEK293 cells were engineered by retroviral transduction to express either FLAG-tagged WT-MYC, FLAG-tagged WBM-MYC, or an empty vector control ("vec") ChIP was performed on all samples using the anti-FLAG antibody, and co-precipitating DNAs subject to next-generation sequencing. Samples "2514-WPT-1_1", "2514-WPT-5_1" and "2514-WPT-13_1" are three independent biological replicates of ChIPs performed on the "vec" control cells (i.e., those not expressing any exogenous MYC). Samples "2514-WPT-2_1", "2514-WPT-6_1" and "2514-WPT-10_1" are three independent biological replicates of ChIPs performed on the WT-MYC expressing cells. "2514-WPT-3_1", "2514-WPT-7_1" and "2514-WPT-11_1" are three independent biological replicates of ChIPs performed on the WBM-MYC expressing cells. For comparison of these binding patterns with those of WDR5, we performed ChIP in HEK293 cells with either an antibody against WDR5, or with IgG (negative control). Samples "2514-WPT-23_1", "2514-WPT-25_1", and "2514-WPT-27_1" are independent biological replicates of ChIPs performed with the anti-WDR5 antibody. Samples "2514-WPT-24_1", "2514-WPT-26_1", and "2514-WPT-28_1" are independent biological replicates of ChIPs performed with the negative IgG control.
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| Contributor(s) |
Thomas LR, Wang Q, Zhao Z, Tansey WP |
| Citation(s) |
25818646 |
| Submission date |
Aug 28, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Qingguo Wang |
| E-mail(s) |
josephw10000@gmail.com
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| Organization name |
Vanderbilt University
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| Department |
Biomedical Informatics
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| Street address |
2525 West End AVE Suite 808
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| City |
Nashville |
| State/province |
TN |
| ZIP/Postal code |
37221 |
| Country |
USA |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (15)
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| GSM1493017 |
vector control cells FLAG ChIP (2514-WPT-1_1) |
| GSM1493018 |
WT-MYC expressing cells FLAG ChIP (2514-WPT-2_1) |
| GSM1493019 |
WBM-MYC expressing cells FLAG ChIP (2514-WPT-3_1) |
| GSM1493020 |
vector control cells FLAG ChIP (2514-WPT-5_1) |
| GSM1493021 |
WT-MYC expressing cells FLAG ChIP (2514-WPT-6_1) |
| GSM1493022 |
WBM-MYC expressing cells FLAG ChIP (2514-WPT-7_1) |
| GSM1493023 |
WT-MYC expressing cells FLAG ChIP (2514-WPT-10_1) |
| GSM1493024 |
WBM-MYC expressing cells FLAG ChIP (2514-WPT-11_1) |
| GSM1493025 |
vector control cells FLAG ChIP (2514-WPT-13_1) |
| GSM1493026 |
HEK293 cells WDR5 ChIP (2514-WPT-23_1) |
| GSM1493027 |
HEK293 cells IgG control ChIP (2514-WPT-24_1) |
| GSM1493028 |
HEK293 cells WDR5 ChIP (2514-WPT-25_1) |
| GSM1493029 |
HEK293 cells IgG control ChIP (2514-WPT-26_1) |
| GSM1493030 |
HEK293 cells WDR5 ChIP (2514-WPT-27_1) |
| GSM1493031 |
HEK293 cells IgG control ChIP (2514-WPT-28_1) |
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| Relations |
| BioProject |
PRJNA259760 |
| SRA |
SRP045873 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE60897_WBM-MYC-peaks.bed.gz |
6.5 Kb |
(ftp)(http) |
BED |
| GSE60897_WDR5_peaks.bed.gz |
157.9 Kb |
(ftp)(http) |
BED |
| GSE60897_WT-MYC-peaks.bed.gz |
23.7 Kb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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