RNA-seq of liver and pyloric caeca in salmon fry before and after initial feeding

Experiment ID:ERP112945
Technology:RNA-Seq
Description:The salmon fry was sampled at day 0 (before initial feeding) and day 1 (20h after initial feeding). The fish was about 0.2g, liver and pyloric caeca were dissected and used for RNA-seq. Fish was given standard commercial diets with high PUFA.
DOI:10.1016/j.aquaculture.2018.12.089
Source:ERP112945 SRA
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Bulk RNA-Seq processed expression values in Salmo salar

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Showing 1 to 16 of 16 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
ERX3017257UBERON:0002107 liverliverUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1564734711578641003435841822.5Browse results
ERX3017258UBERON:0002107 liverliverUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1879263214076774003531542346.5Browse results
ERX3017259UBERON:0002107 liverliverUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1699433712740311003485242167Browse results
ERX3017260UBERON:0002107 liverliverUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1943017913835817003514642230.5Browse results
ERX3017261UBERON:4300174 actinopterygian pyloric caecumpyloric caecaUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2228049515046339003597042765.5Browse results
ERX3017262UBERON:4300174 actinopterygian pyloric caecumpyloric caecaUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2627713418095258003691143247.5Browse results
ERX3017263UBERON:4300174 actinopterygian pyloric caecumpyloric caecaUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2262430016688041003511042330.5Browse results
ERX3017264UBERON:4300174 actinopterygian pyloric caecumpyloric caecaUBERON:0000069 larval stageat yolk sac stage just before initiation of first feeding (unfed salmon), pool of 5 fish, individuals (0.2 g)mixedNANANASalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2635703519283348003536342504.5Browse results
ERX3017265UBERON:0002107 liverliverSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2076596614601128003550442426.5Browse results
ERX3017266UBERON:0002107 liverliverSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2179650515253989003557442466.5Browse results
ERX3017267UBERON:0002107 liverliverSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single1732016612705402003557642467.5Browse results
ERX3017268UBERON:0002107 liverliverSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2336394117458374003580042628Browse results
ERX3017269UBERON:4300174 actinopterygian pyloric caecumpyloric caecaSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2141970615118863003022439705Browse results
ERX3017270UBERON:4300174 actinopterygian pyloric caecumpyloric caecaSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH121single2088703515039864003202240673Browse results
ERX3017271UBERON:4300174 actinopterygian pyloric caecumpyloric caecaSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2137871514883529003121440320Browse results
ERX3017272UBERON:4300174 actinopterygian pyloric caecumpyloric caecaSsalDv:0000043 fry stage (salmon)at fry stage ~20 h after first feeding (fed salmon), pool of 5 fish, individuals (0.2 g)mixedNA1day-of-feedingSalmo salarNAIlluminaIllumina HiSeq 2500FULL_LENGTH61single2246091916237548003190740607Browse results

Showing 1 to 16 of 16 entries

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