EXPANDE project

Experiment ID:DRP003810
Technology:RNA-Seq
Description:EXPression AloNg Development and Evolution (EXPANDE) project aims to identify gene expression profiles expanded during embryogenesis and evolution. In brief, taking advantages of Illumina sequencing, RNAseq profiles of early to late embryos of 8 chordate species were identified with biological replicates (two or more biological replicates).
Source:DRP003810 SRA
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Bulk RNA-Seq processed expression values in Danio rerioBulk RNA-Seq processed expression values in Gallus gallusBulk RNA-Seq processed expression values in Mus musculus

List of assays

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Showing 1 to 20 of 77 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
DRX029536UBERON:0000922 embryo80 pooled whole embryosZFS:0000026 Segmentation:14-19 somites (Danio)14 somiteNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3744386031776371002418925647Browse results
DRX029537UBERON:0000922 embryo80 pooled whole embryosZFS:0000026 Segmentation:14-19 somites (Danio)14 somiteNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3715174231715561002407325577Browse results
DRX029538UBERON:0000922 embryo80 pooled whole embryosZFS:0000026 Segmentation:14-19 somites (Danio)14 somiteNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3734610531694846002420625660Browse results
DRX029539UBERON:0000922 embryo108 pooled whole embryosUBERON:0007232 2 cell stage2 cellNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single4156651137823684002032223661.5Browse results
DRX029540UBERON:0000922 embryo107 pooled whole embryosUBERON:0007232 2 cell stage2 cellNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3687517033532725001994523451Browse results
DRX029541UBERON:0000307 blastula100 pooled whole embryosZFS:0000016 Blastula:30%-epiboly (Danio)30% epibolyNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single4310219736883182002400425577.5Browse results
DRX029542UBERON:0000307 blastula100 pooled whole embryosZFS:0000016 Blastula:30%-epiboly (Danio)30% epibolyNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3129028526802480002340625243Browse results
DRX029543UBERON:0000922 embryo95 pooled whole embryosZFS:0000006 Cleavage:32-cell (Danio)32-cellNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3870906534945508002168124372Browse results
DRX029544UBERON:0000922 embryo100 pooled whole embryosZFS:0000006 Cleavage:32-cell (Danio)32-cellNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3678713033211058002161424363.5Browse results
DRX029545UBERON:0000323 late embryo50 pooled whole embryosZFS:0000033 Hatching:Long-pec (Danio)48 hours, long-pecNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3980240433370464002470125876.5Browse results
DRX029546UBERON:0000323 late embryo50 pooled whole embryosZFS:0000033 Hatching:Long-pec (Danio)48 hours, long-pecNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3702804731036947002467325866Browse results
DRX029547UBERON:0002548 larva50 pooled whole embryosZFS:0000037 Larval:Day 5 (Danio)5 dayNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3807570631174630002523226136Browse results
DRX029548UBERON:0002548 larva50 pooled whole embryosZFS:0000037 Larval:Day 5 (Danio)5 dayNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3893708731709438002529726190.5Browse results
DRX029549UBERON:0002548 larva50 pooled whole embryosZFS:0000037 Larval:Day 5 (Danio)5 dayNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3884716032419694002524926174Browse results
DRX029550UBERON:0000323 late embryo50 pooled whole embryosZFS:0000034 Hatching:Pec-fin (Danio)60 hours, pec-finNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3538468228583767002489625959.5Browse results
DRX029551UBERON:0000323 late embryo50 pooled whole embryosZFS:0000034 Hatching:Pec-fin (Danio)60 hours, pec-finNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3875337031714507002497726017Browse results
DRX029552UBERON:0000922 embryo50 pooled whole embryosZFS:0000024 Segmentation:5-9 somites (Danio)6 somiteNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3529311930046125002377625417.5Browse results
DRX029553UBERON:0000922 embryo50 pooled whole embryosZFS:0000024 Segmentation:5-9 somites (Danio)6 somiteNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3704431031569528002386025474.5Browse results
DRX029554UBERON:0002548 larva50 pooled whole embryosZFS:0000035 Larval:Protruding-mouth (Danio)72 hours, protruding mouthNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3897194531927288002513426102.5Browse results
DRX029555UBERON:0002548 larva50 pooled whole embryosZFS:0000035 Larval:Protruding-mouth (Danio)72 hours, protruding mouthNARiken WTNANADanio rerioNAIlluminaIllumina HiSeq 2000FULL_LENGTH100single3429795828035832002502426030.5Browse results

Showing 1 to 20 of 77 entries

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