Equine RNAseq Tissue pool

Experiment ID:ERP006861
Technology:RNA-Seq
Description:This dataset is comprised of RNA samples from 11 horses of various ages and sex that comprise the following tissues: Adipose Tissue, Adrenal Cortex, Adrenal Medulla, Aorta, Articular Cartilage (foal), Bladder, Bone, Bone Marrow, Cecum, Cerebrum, Cornea, Embryo (whole embryo, 34d), Endometrium (preg. day 16), Endometrium (preg. day 50), Epididymus, Hoof (germinal epithelium), Kidney, Large Intestine, Liver, Lung Lymph Node, Lymphocytes (activated), Muscle (cardiac), Muscle (skeletal, tongue), Muscle (skeletal), Muscle (smooth), Ovary, Pancreas, Pituitary (anterior), Pituitary (posterior), Placental Villous, Retina, Salivary Gland, Skin (full thickness), Spinal Cord, Spinal Root Ganglia, Spleen (red pulp), Spleen (white pulp), Stomach, Synovial Membrane, Tendon (superficial digital flexor, foal), Testes, Thymus, and Vena Cava. This study was carried out in strict accordance with the recommendations in the Guide for the Care and Use of Laboratory Animals of the National Institutes of Health. Tissue samples for total RNA isolation were collected under a protocol (00814A2004) reviewed and approved by the Office of Research Integrity, Institutional Animal Care and Use Committee, at the University of Kentucky (PHS Assurance Number: A3336-01). Two micrograms of mRNA from each tissue sample was used to generate the final RNA pool. The pooled sample was Illumina and 454 sequenced with the aim to improve equine gene structural annotation.
Source:ERP006861 SRA
Download:
Bulk RNA-Seq processed expression values in Equus caballus

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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
ERX551525UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75single3591007923125426002091122008.5Browse results
ERX551526UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75paired3562644925167301002158322723Browse results
ERX551528UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75single3593605823394758002091221998Browse results
ERX551529UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75single3527496923016041002083621946Browse results
ERX551531UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75paired3469028324705933002155122718.5Browse results
ERX551533UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75single3547541823096713002087221974Browse results
ERX551534UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75paired3482255824781168002160222759.5Browse results
ERX551536UBERON:0000468 multicellular organismmixed tissueUBERON:0000104 life cyclemixed agemixedThoroughbredNANAEquus caballusNAIlluminaIllumina HiSeq 2000FULL_LENGTH75paired3404219024194025002155622725.5Browse results

Showing 1 to 8 of 8 entries

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