RNA-seq of liver from pigs divergent in feed efficiency highlights shifts in macronutrients metabolism, hepatic growth and immune response

Experiment ID:ERP105435
Technology:RNA-Seq
Description:Liver is a metabolically complex organ that influences nutrient partitioning and potentially modulates the efficiency of converting energy acquired from macronutrients ingestion into a muscle and/or adipose tissue (referred to as feed efficiency, FE). The objective of this study was to sequence the hepatic tissue transcriptome of pigs divergent for FE and identify relevant biological processes that underpin the differences in liver phenotypes and FE.
Source:ERP105435 SRA
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Bulk RNA-Seq processed expression values in Sus scrofa

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Showing 1 to 16 of 16 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
ERX2260428UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage134 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH123paired6291945651292950001975322479Browse results
ERX2260429UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage134 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH120paired4440902135506256001962522341Browse results
ERX2260430UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage134 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH111paired5947435747100033001967022428.5Browse results
ERX2260431UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage135 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH122paired5167707741216260001957322325.5Browse results
ERX2260432UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage134 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH122paired5489375142875586001950822283Browse results
ERX2260433UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage134 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH123paired6010710747690982001970522404Browse results
ERX2260434UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage134 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH121paired6033694844345057001953822302.5Browse results
ERX2260435UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage134 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH121paired5978497144541443002020622656Browse results
ERX2260436UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage140 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH118paired5523683542880082001890222039.5Browse results
ERX2260437UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage140 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH122paired4447751336383939001806121473Browse results
ERX2260438UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage141 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH123paired5089809540768818001856021812.5Browse results
ERX2260439UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage141 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH120paired4633380437076319001840221701.5Browse results
ERX2260440UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage141 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH122paired4692811138040826001853521750Browse results
ERX2260441UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage140 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH122paired5085794239202438001865121842Browse results
ERX2260442UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage141 daysmaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH115paired4928388239002008001922822140Browse results
ERX2260443UBERON:0001114 right lobe of liverSamples of the right liver lobe (Lobus Spigelii) tissueUBERON:0034919 juvenile stage141 daysfemaleMaxgro (Hermitage Genetics) X (Landrace X Large white)NANASus scrofaNAIlluminaIllumina HiSeq 2500FULL_LENGTH117paired4934854437165822001983022467Browse results

Showing 1 to 16 of 16 entries

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