NutrEpi Work Package 1 Gonad - RNA-Seq (raw, unaligned)

Experiment ID:SRP293733
Technology:RNA-Seq
Description:Three groups of Atlantic salmon were fed with graded levels of micronutrient package. 18 male gonad samples were collected at the final harvest stage for RNA-seq.
Source:SRP293733 SRA

List of assays

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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
SRX9553419UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2651888416603545004042745096Browse results
SRX9553420UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2763494617360497004076445206Browse results
SRX9553421UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2797950617410583004091245345Browse results
SRX9553422UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2455249415249849004039744987.5Browse results
SRX9553423UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2555049816899056003775543621.5Browse results
SRX9553424UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2579500916330987004055645058Browse results
SRX9553425UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2492196715532660004046345026Browse results
SRX9553426UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2422010215323352004056245104.5Browse results
SRX9553427UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2600527716324660004074545167Browse results
SRX9553428UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2481585315233845004047945055.5Browse results
SRX9553429UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2964544018373651004083245204Browse results
SRX9553430UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2817518617652371004056245118.5Browse results
SRX9553431UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2922582318128159004099045319Browse results
SRX9553432UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single3490299221880129004105645421.5Browse results
SRX9553433UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2522550415665609004035744950.5Browse results
SRX9553434UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2621165816490293004061045092Browse results
SRX9553435UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2564511615930541004062545195Browse results
SRX9553436UBERON:0000473 testisGonadUBERON:0000066 fully formed stagepost-smolt (45 weeks post smolt)maleSalmoBreedNANASalmo salarpost-smoltificationIlluminaNextSeq 500FULL_LENGTH75single2138673813207306004039344976Browse results