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| Status |
Public on May 13, 2021 |
| Title |
Human photoreceptor cells from different macular subregions have distinct transcriptional profiles [bulk RNA-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: The goals of this study were to identify cell specific expression patterns from the fovea, perifovea, and macular neural retina.
Methods: Independent libraries were prepared for human foveal (1mm), perifoveal (4mm), and macular (8mm) regions of neural retina. Poly-A selected RNA transcripts underwent 150 base-pair paired-end sequencing with an Illumina HiSeq 4000. Reads were mapped to the human genome hg19 with STAR (version = 020201) and quantified with the featureCounts function from the Rsubread package (version = 1.28.1). Differential expression analysis was performed with edgeR (version = 3.26.8).
Results: Differential expression analysis identified genes enriched in each retinal region.
Conclusions: This study provides a transcriptomic comparison of foveal, perifoveal, and macular human neural retina at the bulk and single-cell levels.
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| Overall design |
mRNA profiles from human neural retina isolates were generated from four donor eyes followed by sequencing on a HiSeq 4000.
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| Contributor(s) |
Scheetz TE, Voigt AP, Mullins RF |
| Citation(s) |
34014299 |
| |
| Submission date |
Mar 16, 2021 |
| Last update date |
Aug 12, 2021 |
| Contact name |
Andrew Voigt |
| Organization name |
University of Iowa
|
| Street address |
375 Newton Road
|
| City |
Iowa City |
| State/province |
Iowa |
| ZIP/Postal code |
52246 |
| Country |
USA |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE169048 |
Human photoreceptor cells from different macular subregions have distinct transcriptional profiles |
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| Relations |
| BioProject |
PRJNA714962 |
| SRA |
SRP310948 |
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