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| Status |
Public on Nov 06, 2021 |
| Title |
Spec-seq sequencing data for CTCF [2021 series] |
| Organism |
synthetic construct |
| Experiment type |
Other
|
| Summary |
This series is an updated dataset consisting of the Spec-seq and Methyl-Spec-seq samples for human CTCF with a bigger sequencing libraries and different epigenetic modifications. Each sample has replicate to gurantee the reproducibility for each measurement.
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| Overall design |
Spec-seq is an intemediate throughput method to quantify the relative binding energy of some TF to thousands of DNA sequences with resolution down to 0.2kT. In this work, we utilized Spec-seq to study the recognition property ot CTCF, the genomic insulator, to its underlying core and upstream sequences, with different epigienetic modifications. Each sample has replicate to check for reproducibility. The state of epigenetic modification within CTCF's core binding site can be infered from the upstream barcoding positions. The EMSA separation work is performed in cold room, 12% Tris-glycine gel, 200V, 50mins.
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| Contributor(s) |
Zuo Z |
| Citation(s) |
36951113 |
| Submission date |
Nov 04, 2021 |
| Last update date |
Apr 27, 2023 |
| Contact name |
Zheng Zuo |
| E-mail(s) |
zeropin@live.cn
|
| Organization name |
Stanford university
|
| Department |
Genetics
|
| Street address |
Stanford
|
| City |
Palo Alto |
| State/province |
CA |
| ZIP/Postal code |
94040 |
| Country |
USA |
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| Platforms (1) |
| GPL19424 |
Illumina NextSeq 500 (synthetic construct) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
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| Relations |
| BioProject |
PRJNA777867 |
| SRA |
SRP344566 |
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