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| Status |
Public on Nov 05, 2015 |
| Title |
Polytene Hi-C |
| Organism |
Drosophila melanogaster |
| Experiment type |
Other
|
| Summary |
Chemical cross-linking and high-throughput sequencing have revealed regions of intra-chromosomal interaction, referred to as topologically associating domains (TADs), interspersed with regions of little or no such interaction, in interphase nuclei. We find that TADs and the regions between them correspond with the bands and interbands of polytene chromosomes of Drosophila. We further establish the conservation of TADs between polytene and diploid cells of Drosophila. From direct measurements on light micrographs of polytene chromosomes, we then deduce the states of chromatin folding in the diploid cell nucleus. Two states of chromatin folding, fully extended fibers containing regulatory regions and promoters, and fibers condensed up to ten-fold containing coding regions of active genes, constitute the euchromatin of the nuclear interior. Chromatin fibers condensed up to 30-fold, containing coding regions of inactive genes, represent the heterochromatin of the nuclear periphery. A convergence of molecular analysis with direct observation thus reveals the architecture of interphase chromosomes.
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| Overall design |
Hi-C experiments where ligation is performed on beads (tethered) on male Drosophila salivary glands from three independent biological replicates. Also one Hi-C experiment where the ligation is performed in solution (conventional).
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| Contributor(s) |
Eagen KP, Kornberg RD |
| Citation(s) |
26544940 |
| |
| Submission date |
Aug 28, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Kyle Eagen |
| E-mail(s) |
[email protected]
|
| Organization name |
Baylor College of Medicine
|
| Department |
Department of Molecular and Cellular Biology
|
| Lab |
Eagen Lab
|
| Street address |
1 Baylor Plaza
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
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| Platforms (2) |
| GPL16479 |
Illumina MiSeq (Drosophila melanogaster) |
| GPL19132 |
Illumina NextSeq 500 (Drosophila melanogaster) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE72512 |
Stable Chromosome Condensation Revealed by Chromosome Conformation Capture |
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| Relations |
| BioProject |
PRJNA294189 |
| SRA |
SRP062964 |
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