|
| Status |
Public on Dec 31, 2022 |
| Title |
Nematostella vectensis MHC::mCherry Adult mesentery_20956 |
| Sample type |
SRA |
| |
|
| Source name |
Adult mesentery
|
| Organism |
Nematostella vectensis |
| Characteristics |
tissue: mesentery non muscle
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mesenteries from eight Nematostella vectensis::MHC::mCherry adults were isolated, and the distal-most tissue removed. Tissue pieces were dissociated into single-cell suspensions in a papain (Sigma-P-4762) / collagenase (Sigma-CC9407) solution, cell suspensions were washed, and then FACS sorted into TRIZOL (ThermoFisher Scientific) as mCherry+ or mCherry- populations.
NEB polyA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
NemVecMesenteryBULK.txt
20956
|
| Data processing |
adapter trimming (cutadapt)
rRNA removal (SorMeRna)
read mapping (tophat)
counting (HTSeqq)
Genome_build: Reads were mapped to a customized transcriptome (David Fredman 2013)
Supplementary_files_format_and_content: NemVecMesenteryBULK.txt
|
| |
|
| Submission date |
Jul 15, 2020 |
| Last update date |
Dec 31, 2022 |
| Contact name |
Alison G Cole |
| Organization name |
University of Vienna
|
| Department |
Neurosciences and Developmental Biology
|
| Street address |
Djerassiplatz 1
|
| City |
Vienna |
| ZIP/Postal code |
1030 |
| Country |
Austria |
| |
|
| Platform ID |
GPL23802 |
| Series (2) |
| GSE154476 |
Sea anemone mesentery muscle profiling [bulk RNA-seq] |
| GSE154477 |
Transcriptomic profiling of sea anemone tissues |
|
| Relations |
| BioSample |
SAMN15543112 |
| SRA |
SRX8736738 |
