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 15: | Line 15: | ||
|Nirav Amin, Frank Conlon (UNC) | |Nirav Amin, Frank Conlon (UNC) | ||
|2 <br/>(no rep) | |2 <br/>(no rep) | ||
| − | |~30M/library<br/> (75bp, single) <br/> 61M total | + | |~30M/library<br/> (75bp, single)<br/> 61M total |
| − | |~ | + | |~ 591k |
|13,523 | |13,523 | ||
|10,225 | |10,225 | ||
| Line 26: | Line 26: | ||
|Tae Joo Park, Richard Harland (UC Berkeley) | |Tae Joo Park, Richard Harland (UC Berkeley) | ||
|5 <br/>(no rep) | |5 <br/>(no rep) | ||
| − | | | + | |~100M/library<br/> (50bp, single)<br/> 500M total |
| − | | | + | |~ 1,480k |
| − | | | + | |14,890 |
| − | | | + | |12,648 |
| − | | | + | |13,328 |
|- | |- | ||
| Line 37: | Line 37: | ||
|TXGP | |TXGP | ||
|2 <br/>(1x2 rep) | |2 <br/>(1x2 rep) | ||
| − | | | + | |~100M/library<br/> (100bp, paired)<br/> 400M total |
| − | | | + | |~ 1,677k |
| − | | | + | |14,441 |
|.. | |.. | ||
|.. | |.. | ||
| Line 49: | Line 49: | ||
|4 <br/>(2x2 rep) | |4 <br/>(2x2 rep) | ||
|.. | |.. | ||
| − | | | + | |~ 600k |
| − | | | + | |11,198 |
| − | | | + | |7,871 |
| − | | | + | |9,134 |
|- | |- | ||
| Line 82: | Line 82: | ||
|1<br/>(no rep) | |1<br/>(no rep) | ||
|.. | |.. | ||
| − | | | + | |~436k |
| − | | | + | |13,838 |
| − | | | + | |10,559 |
| − | | | + | |11,409 |
|- | |- | ||
|} | |} | ||
| + | |||
| + | * assembled Tx == number of peptide query sequences for BLAST search. | ||
---- | ---- | ||
[[Category:XenopusGenome]] | [[Category:XenopusGenome]] | ||
Revision as of 12:25, 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) |
.. | ~ 600k | 11,198 | 7,871 | 9,134 |
| Quigley201112_XENLA | Ian Quigley, Christopher R. Kintner (Salk Institute) | 9 (unknown rep) |
.. | .. | .. | .. | .. |
| Jarikji201201_XENLA | Zeina Jarikji, Marko Horb (MBL) | 15 (5x3 rep) |
.. | .. | .. | .. | .. |
| TeperekTkacz201202_XENLA | Marta Teperek-Tkacz, John Gurdon (Gurdon Institute) | 1 (no rep) |
.. | ~436k | 13,838 | 10,559 | 11,409 |
- assembled Tx == number of peptide query sequences for BLAST search.
