RNA sequencing of marmoset embryonic development

Experiment ID:ERP007083
Technology:RNA-Seq
Description:Transcriptional profiling of common marmoset embryo stages spanning E5.0 to E7.0 was performed by RNA-seq.
Source:ERP007083 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
ERX592808UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stagelate-stage blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH104paired17548836965385464001572220686.5Browse results
ERX592809UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stageearly blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH104paired11849995117296100001252718644Browse results
ERX592810UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stagemid-stage blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH104paired16699906758124923001518620291.5Browse results
ERX592811UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stagelate-stage blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH104paired14696779759861560001544120399Browse results
ERX592812UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stagemid-stage blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH104paired18039180966915472001472720052Browse results
ERX592813UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stageearly blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH104paired7899542116200136001292218999.5Browse results
ERX592814UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stageearly blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH104paired12871292223025072001265118791.5Browse results
ERX592815UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stageearly blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH101paired20843826180644995001340819192.5Browse results
ERX592816UBERON:0000087 inner cell massblastocyst inner cell massUBERON:0000108 blastula stageearly blastocystNANANANACallithrix jacchusNAIlluminaIllumina HiSeq 2000FULL_LENGTH101paired19859080967003840001291618895Browse results