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| Status |
Public on Dec 07, 2022 |
| Title |
yellow skin color, 4 months old, biol rep 3 |
| Sample type |
SRA |
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| Source name |
celestial goldfish
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| Organism |
Carassius auratus |
| Characteristics |
tissue: skin
skin color: yellow
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| Extracted molecule |
total RNA |
| Extraction protocol |
According to the instructions, skin tissue samples in three groups were taken, and the total RNA of each sample was extracted by RNA extraction kit (Invitrogen, Carlsbad, CA, USA).
RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
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| Description |
no
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| Data processing |
The original data was filtered by removing N-containing, jointed and low-quality reads, and the GC content
HISAT2 was used to align paired-end clean reads to the reference genome.
The mapped readings of each skin sample were put together using StringTie
new transcripts were annotated by Pfam, GO, KEGGand other databases
Using the Feature-Counts program, the readings mapped to each gene were calculated
Assembly: GCA_003368295.1
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample
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| Submission date |
Dec 06, 2022 |
| Last update date |
Dec 07, 2022 |
| Contact name |
Bo Zhang |
| Organization name |
China Agricultural University
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| Street address |
No. 2 Yuanmingyuan West Road, College Animal Science & Technology, China Agriculture University, Beijing
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| City |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
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| Platform ID |
GPL32915 |
| Series (1) |
| GSE220201 |
Comprehensive Transcriptome Analysis of Different Skin Colors to Evaluate Genes Related to the Formation of Pigment in Celestial Goldfish |
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| Relations |
| BioSample |
SAMN32072353 |
| SRA |
SRX18512050 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6796737_y3.txt.gz |
2.6 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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