Transcriptome Profiling of Ten Porcine Tissues at the Gene, Isoform and TSS level

Experiment ID:ERP002055
Technology:RNA-Seq
Description:In this study we have employed RNA seq on ten different tissues including four brain tissues from two boars to gain a understanding of the differential variations in transcriptional profiles for these tissues consisting of occipital cortex, frontal cortex, hypothalamus and cerebellum along with such diverse tissues as heart, spleen, liver, kidney, lung and musculus longissimus dorsi. This has enabled us to perform comparative gene expression analysis of brain regions versus non-brain tissues along with inter-brain tissue comparisons. Hence, we have tested for differentially expressed genes and isoforms, differential splicing, transcription start sites (TSS), and differential promoter usage between all ten porcine tissues.
Source:ERP002055  SRA
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Bulk RNA-Seq processed expression values in Sus scrofa

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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
ERX183611UBERON:0000082 adult mammalian kidneykidneyUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single23425561678742001456518852.5Browse results
ERX183612UBERON:0001898 hypothalamushypothalamusUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single611262402070001396618555Browse results
ERX183613UBERON:0002037 cerebellumcerebellumUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single873491555643001406918588.5Browse results
ERX183614UBERON:0000082 adult mammalian kidneykidneyUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single1281200902237001388118469.5Browse results
ERX183615UBERON:0000082 adult mammalian kidneykidneyUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single24638021760675001458518856.5Browse results
ERX183616UBERON:0002037 cerebellumcerebellumUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single16589481108141001535719354.5Browse results
ERX183617UBERON:0002106 spleenspleenUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single1369620899458001459418942Browse results
ERX183618UBERON:0016540 occipital cortexOccipital cortexUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single24228531571267001565219513.5Browse results
ERX183619UBERON:0002048 lunglungUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single40179342764028001639319892.5Browse results
ERX183620UBERON:0000948 heartheartUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single30911582199998001407318609Browse results
ERX183621UBERON:0001898 hypothalamushypothalamusUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single883639608474001388418460Browse results
ERX183622UBERON:0002048 lunglungUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single1410756962268001482718991.5Browse results
ERX183623UBERON:0002106 spleenspleenUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single33881122383816001571919569.5Browse results
ERX183624UBERON:0016540 occipital cortexOccipital cortexUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single1261665845088001451518850Browse results
ERX183625UBERON:0001401 longissimus thoracis muscleLongissimus dorsiUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single39017702744551001389518567.5Browse results
ERX183626UBERON:0001401 longissimus thoracis muscleLongissimus dorsiUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single19002411351373001269617850Browse results
ERX183627UBERON:0016540 occipital cortexOccipital cortexUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single24567681674177001569919526.5Browse results
ERX183628UBERON:0002106 spleenspleenUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single34110202413271001571919570.5Browse results
ERX183629UBERON:0002107 liverliverUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single20406211508272001355918305Browse results
ERX183630UBERON:0000082 adult mammalian kidneykidneyUBERON:0018241 prime adult stageone year oldmaleLandraceNANASus scrofaNAIlluminaIllumina Genome Analyzer IIFULL_LENGTH50single27205052046744001504019122Browse results

Showing 21 to 40 of 100 entries