Medaka_F1_Expression_survey

Experiment ID:ERP010733
Technology:RNA-Seq
Description:We generated reciprocal crosses between 3 inbred strains of Medaka; HdR (the reference strain), Kaga and Cab, and sequenced a number of tissues to look at allele specific differences in expression between these F1 individuals.
Source:ERP010733 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
ERX993657UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired282314233988001016316835.5Browse results
ERX993658UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired438641353531001068917099Browse results
ERX993659UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired452117377278001037916950Browse results
ERX993660UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired414145340939001045916980Browse results
ERX993661UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired374787303000001006416779.5Browse results
ERX993662UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired34262528360200960816550Browse results
ERX993663UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired396017303650001164217569.5Browse results
ERX993664UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired471807388695001090217199.5Browse results
ERX993665UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired434235320387001130517402.5Browse results
ERX993666UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired391596308284001477519155.5Browse results
ERX993667UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired41688434060100982216664Browse results
ERX993668UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired41492133908800993316724.5Browse results
ERX993669UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired423251346566001004016772.5Browse results
ERX993670UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired391555308974001435818944.5Browse results
ERX993671UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired445344354818001053817025.5Browse results
ERX993672UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired467223388156001081817159Browse results
ERX993673UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired38895531402700987016683Browse results
ERX993674UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired458088377049001051317001Browse results
ERX993675UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired431969342005001043516963Browse results
ERX993676UBERON:0002107 liverliverUBERON:0000104 life cycleNANAreciprocal crosses between HdR, Kaga and CabNANAOryzias latipesNAIlluminaIllumina MiSeqFULL_LENGTH75paired390239304003001067317083Browse results