RNA-seq of 12 different adult zebrafish tissues from the Phylofish Database
Survey
10.1186/s12864-016-2709-z
SRP044781
It is currently difficult to compare gene expression among teleost species due to the lack of an exhaustive gene repertoire in all but a few species and the lack of expression data collected using comparable methodologies across the same tissues and stages in different species. The PhyloFish database was designed to address both questions and provides a comprehensive gene repertoire from de novo assembled RNA-seq data in a large number of species chosen to entirely span the ray-finned fish tree of life with special attention for TGD and SaGD WGD events. Separate libraries were obtained from the following tissues or organs to allow analysis of tissue specific expression patterns: brain, liver, gills, heart, muscle, liver, kidney, bones, intestine, ovary, and testis. Tissues were sampled from the same female individual and testis from a male individual, when possible.
True
mickael.dong
Jan. 8, 2018, 5:03 a.m.
Oct. 22, 2018, 3:42 a.m.
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007036BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002034AA | DCD013625BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002404SQ | DCD002416TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007037BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002035AA | DCD013626BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002405SQ | DCD002417TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007038BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002036AA | DCD013627BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002406SQ | DCD002418TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007039BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002037AA | DCD013628BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002407SQ | DCD002419TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007040BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002038AA | DCD013629BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002408SQ | DCD002420TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007041BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002039AA | DCD013630BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002409SQ | DCD002421TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007042BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002040AA | DCD013631BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002410SQ | DCD002422TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007043BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002041AA | DCD013632BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002411SQ | DCD002423TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007044BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002042AA | DCD013633BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002412SQ | DCD002424TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007045BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002043AA | DCD013634BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002413SQ | DCD002425TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007046BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002044AA | DCD013635BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002414SQ | DCD002426TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |
| Biosample ID | Series | biosample_type | biosample_lab | genetic_background | stage | Hours Post Fertilization |
|---|---|---|---|---|---|---|
| DCD007047BS | DCD000382SR | tissue | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | AB | 90 Days-2 Years | adult |
| Applied Assay ID | Biosample Replicate | Assay |
|---|---|---|
| DCD002045AA | DCD013636BR | RNA-seq_Bobe_lab_0001AS |
| Sequencing ID | Technical Replicate | Sequencing Lab | Platform | Instrument | Strand | Sequencing Date |
|---|---|---|---|---|---|---|
| DCD002415SQ | DCD002427TR | Bobe lab, Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes | Illumina | HiSeq 2000 | reverse | 05/02/2017 |