Transcriptome study in rhesus monkey

Experiment ID:SRP017517
Technology:RNA-Seq
Description:RNA-Seq technology was widely used to study gene expression, splicing structure and RNA editing. To facilitate transcriptome study in rhesus macaque, and provide an evolutionary context to understand human biology, we performed 90bp × 2, paired-end, strand-specific, polyA-postive RNA-Seq in 10 tissues of the same macaque animals. The data were deposited under accession number GSE42857 and GSE34426. Overall design: This submission represents RNA-Seq: cerebellum, lung, kidney, heart and spleen component of study.
Source:SRP017517 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
SRX209570UBERON:0002037 cerebellumcerebellumUBERON:0000104 life cycleNAmaleNANANAMacaca mulattaNAIlluminaIllumina HiSeq 2000FULL_LENGTH90paired6451407336935957002253624661Browse results
SRX209571UBERON:0002113 kidneykidneyUBERON:0000104 life cycleNAmaleNANANAMacaca mulattaNAIlluminaIllumina HiSeq 2000FULL_LENGTH90paired4786666633476485002140423884.5Browse results
SRX209572UBERON:0002048 lunglungUBERON:0000104 life cycleNAmaleNANANAMacaca mulattaNAIlluminaIllumina HiSeq 2000FULL_LENGTH90paired5677844536352947002282024818.5Browse results
SRX494639UBERON:0000948 heartheartUBERON:0000104 life cycleNAmaleNANANAMacaca mulattaNAIlluminaIllumina HiSeq 2000FULL_LENGTH90paired6184391344353450001964222620Browse results
SRX858064UBERON:0002106 spleenspleenUBERON:0000104 life cycleNAmaleNANANAMacaca mulattaNAIlluminaIllumina HiSeq 2000FULL_LENGTH90paired4984740132836596002198824229Browse results