Schema for GCSDI Models (R5) - General Chromatin Sensitivity to DNase I Configuration Models (R5)
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Database: dm6 Primary Table: gcsdi_2cm Row Count: 2,235   Data last updated: 2022-10-21
field | example | SQL type | info |
bin | 585 | smallint(5) unsigned | range |
chrom | chr2L | varchar(255) | values |
chromStart | 0 | int(10) unsigned | range |
chromEnd | 29309 | int(10) unsigned | range |
name | open_1 | varchar(255) | values |
score | 0 | int(10) unsigned | range |
strand | + | char(1) | values |
thickStart | 0 | int(10) unsigned | range |
thickEnd | 29309 | int(10) unsigned | range |
itemRgb | 10813478 | int(10) unsigned | range |
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Sample Rows
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bin | chrom | chromStart | chromEnd | name | score | strand | thickStart | thickEnd | itemRgb |
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585 | chr2L | 0 | 29309 | open_1 | 0 | + | 0 | 29309 | 165,0,38 |
585 | chr2L | 29309 | 58933 | closed_1 | 0 | + | 29309 | 58933 | 49,54,149 |
73 | chr2L | 58933 | 252688 | open_2 | 0 | + | 58933 | 252688 | 165,0,38 |
73 | chr2L | 252688 | 265771 | closed_2 | 0 | + | 252688 | 265771 | 49,54,149 |
587 | chr2L | 265771 | 305900 | open_3 | 0 | + | 265771 | 305900 | 165,0,38 |
73 | chr2L | 305900 | 399645 | closed_3 | 0 | + | 305900 | 399645 | 49,54,149 |
73 | chr2L | 399645 | 581341 | open_4 | 0 | + | 399645 | 581341 | 165,0,38 |
589 | chr2L | 581341 | 609093 | closed_4 | 0 | + | 581341 | 609093 | 49,54,149 |
73 | chr2L | 609093 | 808689 | closed_5 | 0 | + | 609093 | 808689 | 49,54,149 |
591 | chr2L | 808689 | 886313 | open_5 | 0 | + | 808689 | 886313 | 165,0,38 |
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Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
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GCSDI Models (R5) (GCSDIprofile) Track Description
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Description
These tracks show the General Chromatin Sensitivity to DNase I (GCSDI) Configuration Models produced by Milon and colleagues. The colors correspond to the states in the Two-Configuration Model (2CM) and Three-Configuration Model (3CM):
Color | Description |
| Open |
| Neutral |
| Closed |
References
Milon B, Sun Y, Chang W, Creasy T, Mahurkar A, Shetty A, Nurminsky D, Nurminskaya M.
Map of open and closed chromatin domains in Drosophila genome. BMC Genomics. 2014 Nov 18;15:988. doi: 10.1186/1471-2164-15-988.
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