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Index of /EvidentialGene/arthropods/triboliumbeetle/sradata

      Name                    Last modified       Size  

[DIR] Parent Directory 26-Dec-2014 13:19 - [DIR] sraf1c/ 04-Dec-2014 14:18 - [DIR] sraf1s/ 04-Dec-2014 14:18 - [DIR] sraf2c/ 04-Dec-2014 14:18 - [DIR] sraf2s/ 04-Dec-2014 14:18 - [TXT] tribcas14_srarna.csv 30-Nov-2014 22:56 17k



Data source RNA-seq from 
BMC Genomics. 2014; 15(1): 445.
Published online Jun 7, 2014. doi:  10.1186/1471-2164-15-445
Infection routes matter in population-specific responses of the red flour beetle to the entomopathogen Bacillus thuringiensis

Two pops of Tcas beetle, 3 repl, 2Bill paired reads .. only using genome-mapped reads..
Tcas v4 genome asm in progress, w/ Tcas v4 gene set by M. Stanke et al., Augustus models

SRA entries (also replicate 1, rep 3 not used)
SRX391109	SB 18 hours naive control, Replicate 2	Tribolium castaneum	27.9
SRX391098	SB six hours naive control, Replicate 2	Tribolium castaneum	29.6
SRX391093	Cro1 18 hours naive control, Replicate 2	Tribolium castaneum	29.8
SRX391086	Cro1 six hours naive control, Replicate 2	Tribolium castaneum	35.6
SRX390658	SB 18 hours pricking control, Replicate 2	Tribolium castaneum	26.0
SRX390656	SB six hours pricking control, Replicate 2	Tribolium castaneum	29.5
SRX390653	Cro1 18 hours after pricking infection, Replicate 2	Tribolium castaneum	26.1
SRX390650	Cro1 18 hours after oral infection, Replicate 2	Tribolium castaneum	31.3
SRX390646	Cro1 18 hours pricking control, Replicate 2	Tribolium castaneum	32.9
SRX390643	Cro1 six hours pricking control, Replicate 2	Tribolium castaneum	32.8
SRX390638	SB 18 hours after pricking infection, Replicate 2	Tribolium castaneum	35.6
SRX390635	SB six hours after pricking infection, Replicate 2	Tribolium castaneum	25.9
SRX390632	SB 18 hours after oral infection, Replicate 2	Tribolium castaneum	32.9
SRX390629	SB six hours after oral infection, Replicate 2	Tribolium castaneum	29.9
SRX390626	Cro1 six hours after pricking infection, Replicate 2	Tribolium castaneum	24.5
SRX390600	Cro1 six hours after oral infection, Replicate 2	Tribolium castaneum	42.2

all 3 reps, 48 SRX entries, 1.5 Bill pairs (3 bill reads, 100bp)


Developed at the Genome Informatics Lab of Indiana University Biology Department