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| Status |
Public on Jun 20, 2024 |
| Title |
Chromatin conformation and histone modification profiling across human kidney anatomic regions [CUT&RUN] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Here, we leveraged our recently described high-yield nuclei extraction method and performed Hi-C and Cleavage Under Targets and Release Using Nuclease (CUT&RUN) sequencing of histone modifications (H3K4me3 and H3K27me3) in parallel on the kidney cortex, medulla and papilla samples dissected from the same donor. This site describes the CUT&RUN data.
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| Overall design |
CUT&RUN was performed with the CUTANA™ ChIC / CUT&RUN Kit v3. CUT&RUN library preparation was performed with the NEBNext® Ultra™ II DNA Library Prep Kit. All 6 dual-indexed Hi-C libraries and 18 dual-indexed CUT&RUN libraries were sequenced on a 300-cycle NovaSeq X Plus platform (Illumina).
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| Contributor(s) |
Li H, Humphreys B |
| Citation(s) |
39025878 |
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| Submission date |
Jan 18, 2024 |
| Last update date |
Aug 09, 2024 |
| Contact name |
Benjamin Humphreys |
| Organization name |
Washington University School of Medicine
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| Street address |
660 S Euclid Ave
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| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (18)
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| GSM8024369 |
Human kidney cortex, CUT&RUN H3K27me3, rep1 |
| GSM8024370 |
Human kidney cortex, CUT&RUN H3K27me3, rep2 |
| GSM8024371 |
Human kidney cortex, CUT&RUN H3K4me3, rep1 |
| GSM8024372 |
Human kidney cortex, CUT&RUN H3K4me3, rep2 |
| GSM8024373 |
Human kidney cortex, CUT&RUN IgG, rep1 |
| GSM8024374 |
Human kidney cortex, CUT&RUN IgG, rep2 |
| GSM8024375 |
Human kidney medulla, CUT&RUN H3K27me3, rep1 |
| GSM8024376 |
Human kidney medulla, CUT&RUN H3K27me3, rep2 |
| GSM8024377 |
Human kidney medulla, CUT&RUN H3K4me3, rep1 |
| GSM8024378 |
Human kidney medulla, CUT&RUN H3K4me3, rep2 |
| GSM8024379 |
Human kidney medulla, CUT&RUN IgG, rep1 |
| GSM8024380 |
Human kidney medulla, CUT&RUN IgG, rep2 |
| GSM8024381 |
Human kidney papilla, CUT&RUN H3K27me3, rep1 |
| GSM8024382 |
Human kidney papilla, CUT&RUN H3K27me3, rep2 |
| GSM8024383 |
Human kidney papilla, CUT&RUN H3K4me3, rep1 |
| GSM8024384 |
Human kidney papilla, CUT&RUN H3K4me3, rep2 |
| GSM8024385 |
Human kidney papilla, CUT&RUN IgG, rep1 |
| GSM8024386 |
Human kidney papilla, CUT&RUN IgG, rep2 |
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| This SubSeries is part of SuperSeries: |
| GSE253634 |
Chromatin conformation and histone modification profiling across human kidney anatomic regions |
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| Relations |
| BioProject |
PRJNA1066378 |
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