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| Status |
Public on Jul 23, 2012 |
| Title |
Composition and organization of active centromere sequences in complex genomes |
| Organism |
Canis lupus familiaris |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We report the sequences bound to CENP-A in the dog genome (Canis familiaris) for high-throughput characterization of centromeric sequences. We compare these ChIPSeq reads (72 bp, single read) against a reference centromeric satellite DNA domain database for the dog genome, resulting in the annotation of sequence variation and estimated abundance of seven satellite families together with adjacent, non-satellite sequences. To study global patterns of sequence diversity and characterizing the subset of sequences correlated with centromere function, these sequences were evaluated relative to a comprehensive centromere sequence domain k-mer library. From this analysis, we identify functional sequence features from two satellite families (CarSat1 and CarSat2) that are defined by distinct arrays subtypes.
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| Overall design |
Sequences bound to CENP-A in MDCK (dog) cell line
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| Contributor(s) |
Hayden KE, Willard HF |
| Citation(s) |
22817545 |
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| Submission date |
May 21, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Karen Elizabeth Hayden |
| Organization name |
Duke University
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| Department |
Institute for Genome Sciences and policy
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| Lab |
Huntington F. Willard
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| Street address |
101 Science Drive
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| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27708 |
| Country |
USA |
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| Platforms (1) |
| GPL10474 |
Illumina Genome Analyzer (Canis lupus familiaris) |
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| Samples (1) |
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| Relations |
| BioProject |
PRJNA167192 |
| SRA |
SRP013276 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE38079_RAW.tar |
147.7 Mb |
(http)(custom) |
TAR (of BED) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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