|
Status |
Public on Oct 24, 2016 |
Title |
Miller201511_HYMBO_tadpole8 |
Sample type |
SRA |
|
|
Source name |
swimming tadpole replicate #2
|
Organism |
Hymenochirus boettgeri |
Characteristics |
strain: wild-type developmental stage: swimming tadpole
|
Treatment protocol |
N/A
|
Growth protocol |
N/A
|
Extracted molecule |
polyA RNA |
Extraction protocol |
Whole tissue was minced before mRNA extraction; mRNA was extracted with TRIzol protocol; the column purification was performed after extraction. Standard strand-specific RNA-seq protocol for Illumina HiSeq, with poly-A capturing method
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
Mapped reads to de novo assembled transcripts using Kallisto (0.42.4), to calculate TPM Genome_build: HYMBO_TrinityV1_cdna (de novo assembled transcripts) Supplementary_files_format_and_content: FASTA file containing de novo assembled transcripts, and their TPM values among samples calculated by Kallisto
|
|
|
Submission date |
Dec 16, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Taejoon Kwon |
E-mail(s) |
tkwon@unist.ac.kr
|
Organization name |
Ulsan National Institute of Science and Technology
|
Department |
Department of Biomedical Engineering
|
Street address |
50 Unist-gil
|
City |
Ulsan |
ZIP/Postal code |
44919 |
Country |
South Korea |
|
|
Platform ID |
GPL21252 |
Series (1) |
GSE76089 |
Developmental gene expression of Hymenochirus boettgeri |
|
Relations |
BioSample |
SAMN04347402 |
SRA |
SRX1487347 |