Difference between revisions of "TXGP RNAseq assembly"
From Marcotte Lab
(→Dataset for RNA-seq assembly) |
(→Dataset for RNA-seq assembly) |
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| Line 48: | Line 48: | ||
|Meii Chung, John Wallingford (UT Austin) | |Meii Chung, John Wallingford (UT Austin) | ||
|4 <br/>(2x2 rep) | |4 <br/>(2x2 rep) | ||
| − | | | + | |16~38M/library<br/> (50bp, paired)<br/> 222M total |
|~ 600k | |~ 600k | ||
|11,198 | |11,198 | ||
| Line 59: | Line 59: | ||
|Ian Quigley, Christopher R. Kintner (Salk Institute) | |Ian Quigley, Christopher R. Kintner (Salk Institute) | ||
|9<br/>(unknown rep) | |9<br/>(unknown rep) | ||
| − | | | + | |23~50M/library<br/>(50bp,single)<br/>311M total |
|.. | |.. | ||
|.. | |.. | ||
| Line 70: | Line 70: | ||
|Zeina Jarikji, Marko Horb (MBL) | |Zeina Jarikji, Marko Horb (MBL) | ||
|15<br/>(5x3 rep) | |15<br/>(5x3 rep) | ||
| − | | | + | |39~72M/library<br/>(100bp,paired)<br/>1,432M total |
|.. | |.. | ||
|.. | |.. | ||
| Line 81: | Line 81: | ||
|Marta Teperek-Tkacz, John Gurdon (Gurdon Institute) | |Marta Teperek-Tkacz, John Gurdon (Gurdon Institute) | ||
|1<br/>(no rep) | |1<br/>(no rep) | ||
| − | | | + | |94M/library<br/>(50bp,paired),200M total |
|~436k | |~436k | ||
|13,838 | |13,838 | ||
Revision as of 12:37, 15 March 2012
Dataset for RNA-seq assembly
| Dataset | Contributor | Samples | Reads | Assembled Tx(raw) | X. laevis genes | X. tropicalis genes | H. sapiens genes |
|---|---|---|---|---|---|---|---|
| Amin201106_XENLA | Nirav Amin, Frank Conlon (UNC) | 2 (no rep) |
~30M/library (75bp, single) 61M total |
~ 591k | 13,523 | 10,225 | 11,540 |
| Park201106_XENLA | Tae Joo Park, Richard Harland (UC Berkeley) | 5 (no rep) |
~100M/library (50bp, single) 500M total |
~ 1,480k | 14,890 | 12,648 | 13,328 |
| TXGP201107_XENLA | TXGP | 2 (1x2 rep) |
~100M/library (100bp, paired) 400M total |
~ 1,677k | 14,441 | .. | .. |
| Chung201110_XENLA | Meii Chung, John Wallingford (UT Austin) | 4 (2x2 rep) |
16~38M/library (50bp, paired) 222M total |
~ 600k | 11,198 | 7,871 | 9,134 |
| Quigley201112_XENLA | Ian Quigley, Christopher R. Kintner (Salk Institute) | 9 (unknown rep) |
23~50M/library (50bp,single) 311M total |
.. | .. | .. | .. |
| Jarikji201201_XENLA | Zeina Jarikji, Marko Horb (MBL) | 15 (5x3 rep) |
39~72M/library (100bp,paired) 1,432M total |
.. | .. | .. | .. |
| TeperekTkacz201202_XENLA | Marta Teperek-Tkacz, John Gurdon (Gurdon Institute) | 1 (no rep) |
94M/library (50bp,paired),200M total |
~436k | 13,838 | 10,559 | 11,409 |
- assembled Tx == number of peptide query sequences for BLAST search.
