Difference between revisions of "TXGP RNAseq assembly"

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(Dataset for RNA-seq assembly)
(Dataset for RNA-seq assembly)
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
+
|94M/library<br/>(50bp,paired)<br/>200M total
 
|~436k
 
|~436k
 
|13,838
 
|13,838

Revision as of 12:42, 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
~ 647k .. .. ..
Jarikji201201_XENLA Zeina Jarikji, Marko Horb (MBL) 9
(3x3 rep)
39~72M/library
(100bp,paired)
932M total
~ 3,254k
.. .. ..
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.