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Table 1 Properties of RNA-seq libraries

From: Optimizing and benchmarking de novo transcriptome sequencing: from library preparation to assembly evaluation

Library

Library preparation

Sequencing

RNA source

Duration of RNA fragmentation (min)

× AMPure volume (targeted fraction to retain)

PCR cycles

A

-4 dpo whole embryoa

8

× 1.6 (>100 bp)

6

HiSeq 1/4 lanes, 171 cycles paired-end

B

 

2

× 0.7 (>300 bp)

6

C

 

6

MiSeq 1/4 lanes, 250 cycles paired-end

D

9 dpo whole embryo

8

× 1.6 (>100 bp)

2

HiSeq 1/4 lanes, 171 cycles paired-end

E

2

× 0.7 (>300 bp)

4

F

30 dpo head

4

× 1.0 (>150 bp)

6

HiSeq 2/3 lanes, 151 cycles paired-end

G

30 dpo liver

  

6

 

H

30 dpo tail

  

6

 
  1. aEmbryo of 4 days before the estimated day of oviposition
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BMC Genomics

ISSN: 1471-2164

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