RNA sequencing analysis using the intestines of adult Medaka (Oryzias latipes)

Experiment ID:DRP001158
Technology:RNA-Seq
Description:To clarify the quantitative regulation of gene expression after IR irradiation, we conducted RNA sequencing using the intestine of mature fish derived from two genetically distant inbred strains of Medaka (Oryzias latipes).
Source:DRP001158 SRA
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Bulk RNA-Seq processed expression values in Oryzias latipes

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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
DRX012399UBERON:0000160 intestineintestineUBERON:0000113 post-juvenilemature fishNANdF1NANAOryzias latipesNAIlluminaIllumina Genome Analyzer IIxFULL_LENGTH36single10927270855895172002251923039Browse results
DRX012400UBERON:0000160 intestineintestineUBERON:0000113 post-juvenilemature fishNANdF1NANAOryzias latipesNAIlluminaIllumina Genome Analyzer IIxFULL_LENGTH36single5126910734213745002159022566Browse results
DRX012401UBERON:0000160 intestineintestineUBERON:0000113 post-juvenilemature fishNANdF1NANAOryzias latipesNAIlluminaIllumina Genome Analyzer IIxFULL_LENGTH36single13049966472084151002258123059.5Browse results
DRX012405UBERON:0000160 intestineintestineUBERON:0000113 post-juvenilemature fishNANdF1NANAOryzias latipesNAIlluminaIllumina Genome Analyzer IIxFULL_LENGTH76single3569269124985387002006021794.5Browse results

Showing 1 to 4 of 4 entries

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