|
Status |
Public on Jan 23, 2018 |
Title |
261O |
Sample type |
SRA |
|
|
Source name |
whole animal
|
Organism |
Schmidtea mediterranea |
Characteristics |
strain: asexual BCN-10 clonal line tissue: whole animal treatment: gfp(RNAi) 4 weeks
|
Extracted molecule |
polyA RNA |
Extraction protocol |
RNA was extracted with TRIzol® (Invitrogen) following the manufacturer's instructions. Quantification of RNA was assessed with a Nanodrop ND-1000 spectrophotometer (Thermo Scientific) and quality check was performed by capillary electrophoresis in an Agilent 2100 Bioanalyzer (Agilent Technologies)prior to library preparation. cDNA libraries were prepared using the Illumina® TruSeq Stranded mRNA Library Prep Kit and sequenced as paired-end reads in an Illlumina® HiSeq 2000 sequencer. Quality check of the reads was performed with the FastQC suite.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
Transcript abundances were calculated with kallisto v0.43.0. Genome_build: S. mediterranea dd_Smed_v6 transcriptome assembly Supplementary_files_format_and_content: Tab-separated values file containing TPM expression values.
|
|
|
Submission date |
Feb 21, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Gustavo Rodriguez-Esteban |
E-mail(s) |
gustavo.rodriguez@cnag.crg.eu
|
Organization name |
Centro Nacional de Análisis Genómico
|
Department |
Development
|
Lab |
Single Cell Genomics
|
Street address |
C. Baldiri Reixac, 4; Barcelona Science Park
|
City |
Barcelona |
State/province |
Catalonia |
ZIP/Postal code |
08028 |
Country |
Spain |
|
|
Platform ID |
GPL15553 |
Series (1) |
|
Relations |
BioSample |
SAMN06350912 |
SRA |
SRX2579213 |