RNA-Seq of chimpanzee (Pan troglodytes), gorilla (Gorilla gorilla), gibbon (Hylobates lar) and marmoset (Callithrix jacchus) adult testis

Experiment ID:ERP132575
Technology:RNA-Seq
Description:RNA sequencing (RNA-seq) was used to annotate chimpanzee, gorilla, gibbon, and marmoset genome and transcript isoforms in adult testis. This dataset is part of a larger evolutionary study of adult testis at the single-nucleus level (97,521 single-nuclei in total) across mammals including 10 representatives of the three main mammalian lineages: human, chimpanzee, bonobo, gorilla, gibbon, rhesus macaque, marmoset, mouse (placental mammals); grey short-tailed opossum (marsupials); and platypus (egg-laying monotremes). Corresponding data were generated for a bird (red junglefowl, the progenitor of domestic chicken), to be used as an evolutionary outgroup.
Source:ERP132575  ENA
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Bulk RNA-Seq processed expression values in Gorilla gorillaBulk RNA-Seq processed expression values in Callithrix jacchusBulk RNA-Seq processed expression values in Pan troglodytes

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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
ERX6700400UBERON:0000473 testistestisUBERON:0007222 late adult stage45 yearsmaleNANANAPan troglodytesNAIlluminaNextSeq 550FULL_LENGTH80single5729460844319707002256624371.5Browse results
ERX6700401UBERON:0000473 testistestisPtroDv:0000019 14-year-old stage (chimpanzee)14 yearsmaleNANANAPan troglodytesNAIlluminaNextSeq 550FULL_LENGTH80single3860589429372210002216524110Browse results
ERX6700403UBERON:0000473 testistestisGgorDv:0000022 43-year-old stage (gorilla)43 yearsmaleNANANAGorilla gorillaNAIlluminaNextSeq 550FULL_LENGTH80single2407217018617289001995121669Browse results
ERX6700404UBERON:0000473 testistestisGgorDv:0000030 51-year-old stage (gorilla)51 yearsmaleNANANAGorilla gorillaNAIlluminaNextSeq 550FULL_LENGTH80single6030730547292537002074722145.5Browse results
ERX6700405UBERON:0000473 testistestisUBERON:0007222 late adult stage10 yearsmaleNANANACallithrix jacchusNAIlluminaNextSeq 550FULL_LENGTH80single4870940831053589002336225236Browse results
ERX6700406UBERON:0000473 testistestisUBERON:0007222 late adult stage10 yearsmaleNANANACallithrix jacchusNAIlluminaNextSeq 550FULL_LENGTH80single3997135926033131002337525293Browse results

Showing 1 to 6 of 6 entries