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| Status |
Public on Feb 14, 2018 |
| Title |
CPI_31_22 |
| Sample type |
SRA |
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| Source name |
gonad
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| Organism |
Chrysemys picta |
| Characteristics |
developmental stage: developmental stage 22
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from trunks (stage-9), adrenal-kidney-gonadal (AKG) complex (stages 12, 15) and gonads alone (stages 19, 22). RNeasy Kits(Valenzuela,2008a). RNA was quanti-fied with a NanoDropVRND-1000 Spectrophotometer,and its quality assessed by the presence of ribosomal bands in agarose gels
Paired end Illumina libraries
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
NV010
RawCounts.CPI
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| Data processing |
Read trimming: Trimmomatic, version 0.27
Transcriptome assembly: Trinity (r2013-02-25)
Read mapping: gsnap (2012-12-31)
Read quantification: HTSeq
Genome_build: Chrysemys picta v 3.0.1 [https://www.ncbi.nlm.nih.gov/assembly/GCF_000241765.2]
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| Submission date |
Feb 14, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Nicole Valenzuela |
| E-mail(s) |
nvalenzu@iastate.edu
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| Organization name |
Iowa State University
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| Street address |
251 Bessey Hal
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| City |
Ames |
| State/province |
IA |
| ZIP/Postal code |
50011 |
| Country |
USA |
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| Platform ID |
GPL23063 |
| Series (1) |
| GSE94871 |
Transcriptomic responses to environmental temperature by turtles with thermosensitive and genotypic sex determination assessed by RNAseq inform the genetic architecture of embryonic gonadal development |
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| Relations |
| BioSample |
SAMN06298512 |
| SRA |
SRX2549111 |
| Supplementary data files not provided |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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