基因组坐标 “0-base” 和 “1-base”
2019-07-01 本文已影响64人
热衷组培的二货潜
- 讲的特别详细就搬运过来了，搬运链接：The UCSC Genome Browser Coordinate Counting Systems
“1-start, fully-closed” = coordinates positioned within the web-based UCSC Genome Browser.
“0-start, half-open” = coordinates stored in database tables.
Table 1. UCSC Genome Browser coordinate systems summary
| 0-start, half-open (0-based) | 1-start, fully-closed (1-based) |
|---|---|
| “BED” format (Browser Extensible Data): | “Position” format: |
| chr1 127140000 127140001 | chr1:127140001-127140001 |
| Note: Spaces, not punctuation | note: Punctuation used, no spaces |
| When using BED format, brows er & utilities | When using “position” format, browser & utilities |
| assume coords are 0-start, half-open. | assume coords are 1-start, fully-closed. |
| Stored in UCSC Genome Browser tables | Positioned in UCSC Genome Browser web interface |
| To convert to 1-start, fully-closed: | To convert to 0-start, half-open: |
| add 1 to start, end = same | subtract 1 from start, end = same |
