Data catalog record for "Genome-wide transcriptome analysis of human epidermal melanocyctes"

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Title
Data catalog record for "Genome-wide transcriptome analysis of human epidermal melanocyctes"
Contributors
Haltaufderhyde, Kirk (creator)
Oancea, Elena (creator)
Doi
10.7301/Z0MW2F2N
Date Issued
2014
Abstract
Because human epidermal melanocytes (HEMs) provide critical protection against skin cancer, sunburn, and photoaging, a genome-wide perspective of gene expression in these cells is critical to understanding human skin physiology. In this study we performed high throughput sequencing of HEMs to obtain a complete data set of transcript sizes, abundances, and splicing. As expected, we found that melanocyte specific genes that function in pigmentation were among the highest expressed genes. We analyzed the receptor, ion channel and transcription factor gene families to get a better understanding of the cell signalling pathways used by melanocytes. We also performed a comparative transcriptomic analysis of lightly versus darkly pigmented HEMs and found 16 genes differentially expressed in the two pigmentation phenotypes; of those, only one putative melanosomal transporter (SLC45A2) has known function in pigmentation. Our melanocyte transcriptome study provides a comprehensive view and may help identify novel pigmentation genes and potential pharmacological targets. The dataset associated with this experiment-level metadata is located at the Sequence Read Archive, accessible at http://dx.doi.org/10.7301/Z0MW2F2N.
Keywords
RNA-Seq
Ion channels
Melanocytes
Transcriptome
Receptors
Transporters
Notes
ENCODEproject.org
SRP039354
4
Homo sapiens
Epidermal Melanocytes
cDNA
RNA-Seq
Foreskin
polyA
TruSeq RNA Sample Preparation Kit - Cat # RS-122-2001
Illumina HiSeq 2000
Single
50 bp
fastq
This work was funded by grants from Brown University (to E.O.), COBRE Pilot Project P30GM103410 (to E.O.), National Institute of General Medical Sciences of the National Institutes of Health Award No. R25GM083270 (to K.D.H.), and NSF Graduate Research Fellowship Award No. DGE-1058262 (to K.D.H.)
Access Conditions
This work is licensed under a Creative Commons Attribution 4.0 International License

Citation

Haltaufderhyde, Kirk, and Oancea, Elena, "Data catalog record for 'Genome-wide transcriptome analysis of human epidermal melanocyctes'" (2014). Data for Publications. Brown Digital Repository. Brown University Library. https://doi.org/10.7301/Z0MW2F2N

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