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| Status |
Public on Dec 27, 2018 |
| Title |
Optimized ChIP-seq procedure facilitates hormone receptor profiling in human tumors |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Performing ChIP-seq analyses in clinical specimens has remained largely challenging due to multiple technical limitations and low quantities of starting material, resulting in low enrichments and poor signal-to-noise ratio. Here, we refined the original protocols for transcription factor ChIP-seq analyses in breast, prostate, and endometrial tumor tissue. In addition to the standard fixative formaldehyde, a second crosslinker Disuccinimidyl glutarate (DSG) was included in the procedure.
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| Overall design |
AR, FOXA1, ERα, H3K27ac & H3K4me3 ChIP-seq data with and without double croslinking in celllines (LNCAP & MCF-7) and in human tissues (Prostate, Breast, Endometrium and Prostate samples from core needle biopsies).
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| Contributor(s) |
Zwart W, Singh AA, Stello S, Schuurman K, Linder S, Droog M |
| Citation(s) |
30620009 |
| |
| Submission date |
May 21, 2018 |
| Last update date |
Sep 30, 2019 |
| Contact name |
Abhishek Singh |
| E-mail(s) |
abhisheksinghnl@gmail.com
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| Organization name |
Netherlands Cancer Institute
|
| Street address |
Plesmanlaan
|
| City |
Amsterdam |
| ZIP/Postal code |
1066CX |
| Country |
Netherlands |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (99)
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| Relations |
| BioProject |
PRJNA472620 |
| SRA |
SRP148757 |
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