RNAseq of farmed and wild Atlantic salmon fed vegetable oil or fish oil or phospholipid diet from first feeding

Experiment ID:ERP117343
Technology:RNA-Seq
Description:Farmed and wild Atlantic salmon was given either vegetable oil (low DHA and EPA) feed or fish oil (high in DHA and EPA) feed or phospholipid (high in phospholipid) feed from start of feeding. We sampled and RNAseq two tissues (pyloric caeca and liver) on day 0, day 48, day 65 and day 94 after initial feeding.
DOI:10.1111/mec.15446
Source:ERP117343 SRA
Download:
Bulk RNA-Seq processed expression values in Salmo salar

List of assays

Show

entries

Showing 1 to 20 of 143 entries

Library ID
Identifier of the RNA-Seq library
Anat. entity ID
ID of the anatomical localization of the sample
Anat. entity name
Name of the anatomical localization of the sample
Anat. entity author annotation
Free text annotation of anatomical localization of the sample as provided by authors
Stage ID
ID of the developmental and life stage of the sample
Stage name
Name of the developmental and life stage of the sample
Stage author annotation
Free text annotation of the developmental and life stage of the sample as provided by authors
Sex
Annotation of the sex of the sample
Strain
Annotation of the strain of the sample
Time
Free text annotation of the time of sampling as provided by authors
Time unit
Unit for the time of sampling as provided by authors
Species
Physiological status
Physiological status of the organism at time of sampling
Technology
Sequencing platform
Sequenced transcript part
Possible values are: full length, all parts of the transcript are sequenced; 3': only the 3' end of the transcript is sequenced; 5': only the 5' end of the transcript is sequenced.
Fragmentation
Size of the RNA fragmentation
Run sequencing type
Paired-end or single-read run
Total read count
Total number of reads for the library.
Mapped read count
Number of reads that could be mapped to the transcriptome.
Total UMI count
Total number of individual RNA molecules (UMI) for the annotated sample. Only applicable for libraries producing UMIs.
Mapped UMI count
Number of UMIs that could be mapped to the transcriptome. Only applicable for libraries producing UMIs.
Distinct rank count
When performing a fractional ranking of the genes in the annotated sample, based on their expression level, number of distinct ranks observed, to have a value of the power for distinguishing expression levels. Used as a weight to compute a weighted mean rank accross samples for each gene and compute expression scores in Bgee.
Max rank
When performing a fractional ranking of the genes in the annotated sample, based on their expression level, maximum rank attained in the sample. Used to normalize ranks accross samples and compute expression scores in Bgee.
Link to processed expression values
See the processed expression value results for this assay
ERX3542341UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2228049515046339003597042765.5Browse results
ERX3542342UBERON:4300174 actinopterygian pyloric caecumpyloric caecumUBERON:0000066 fully formed stage1 day of feedingNAdomesticated1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH121single2088703515039864003202240673Browse results
ERX3542343UBERON:4300174 actinopterygian pyloric caecumpyloric caecumUBERON:0000066 fully formed stage1 day of feedingNAdomesticated1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2137871514883529003121440320Browse results
ERX3542344UBERON:4300174 actinopterygian pyloric caecumpyloric caecumUBERON:0000066 fully formed stage1 day of feedingNAdomesticated1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2246091916237548003190740607Browse results
ERX3542345UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2627713418095258003691143247.5Browse results
ERX3542346UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2262430016688041003511042330.5Browse results
ERX3542347UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2635703519283348003536342504.5Browse results
ERX3542348UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2378683516154662003658543101Browse results
ERX3542349UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2379576816315689003612942849Browse results
ERX3542350UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH121single1725632711770613003596942798.5Browse results
ERX3542351UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1564734711578641003435841822.5Browse results
ERX3542352UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1879263214076774003531542346.5Browse results
ERX3542353UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1699433712740311003485242167Browse results
ERX3542354UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAdomesticated0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1943017913835817003514642230.5Browse results
ERX3542355UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2160183315792536003501742167.5Browse results
ERX3542356UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2153167215991405003474942047.5Browse results
ERX3542357UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1838106013329815003471641992.5Browse results
ERX3542358UBERON:4300174 actinopterygian pyloric caecumpyloric caecumSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2289850416123475003746143537Browse results
ERX3542359UBERON:0002107 liverliverSsalDv:0000044 day 0 of fry stage (salmon)0 day of feedingNAwild0day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2054810614309900003476242050.5Browse results
ERX3542360UBERON:0002107 liverliverUBERON:0000066 fully formed stage1 day of feedingNAdomesticated1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2076596614601128003550442426.5Browse results

Showing 1 to 20 of 143 entries

This website requires cookies, and limited processing of your personal data in order to function. By using the site you are agreeing to this as outlined in our privacy notice.
Do not show this banner again