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Zhang F, Xu Y, Cao H, et al. Mapsnp: an R package to plot a genomic map for single nucleotide polymorphisms. PLoS One. 2015;10(4):e0123609doi: 10.1371/journal.pone.0123609.
Zhang, F., Xu, Y., Cao, H., Jin, C., Cheng, Z., Wang, G., & Shugart, Y. Y. (2015). Mapsnp: an R package to plot a genomic map for single nucleotide polymorphisms. PloS one, 10(4), e0123609. https://doi.org/10.1371/journal.pone.0123609
Zhang, Fuquan, et al. "Mapsnp: an R package to plot a genomic map for single nucleotide polymorphisms." PloS one vol. 10,4 (2015): e0123609. doi: https://doi.org/10.1371/journal.pone.0123609
Zhang F, Xu Y, Cao H, Jin C, Cheng Z, Wang G, Shugart YY. Mapsnp: an R package to plot a genomic map for single nucleotide polymorphisms. PLoS One. 2015 Apr 08;10(4):e0123609. doi: 10.1371/journal.pone.0123609. eCollection 2015. PMID: 25853637; PMCID: PMC4390227.
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PLoS One. 2015 Apr 08;10(4):e0123609. doi: 10.1371/journal.pone.0123609. eCollection 2015.

Mapsnp: an R package to plot a genomic map for single nucleotide polymorphisms.

PloS one

Fuquan Zhang, Yong Xu, Hongbao Cao, Chunhui Jin, Zaohuo Cheng, Guoqiang Wang, Yin Yao Shugart

Affiliations

  1. Wuxi Mental Health Center of Nanjing Medical University, Wuxi, Jiangsu Province, China; Unit on Statistical Genomics, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, Maryland, United States of America.
  2. Department of Psychiatry, First Hospital of Shanxi Medical University, Taiyuan, China.
  3. Unit on Statistical Genomics, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, Maryland, United States of America.
  4. Wuxi Mental Health Center of Nanjing Medical University, Wuxi, Jiangsu Province, China.

PMID: 25853637 PMCID: PMC4390227 DOI: 10.1371/journal.pone.0123609

Abstract

Single-nucleotide polymorphism (SNP) is one of the most common sources of genetic variations of the genome. Currently, SNPs are a main target for most genetic association studies. Visualizing genomic coordinates of SNPs, including their physical location relative to their host gene, and the structure of the relevant transcripts, may provide intuitive supplements to the understanding of their functions. Nevertheless, to date, no such easy-to-use programming tools exist. Therefore, we developed an R package, "mapsnp", to plot genomic map for a panel of SNPs within a genome region of interest, including the relative chromosome location and the transcripts in the region. mapsnp is a simple and flexible software package which can be used to visualize a genomic map for SNPs, integrating a chromosome ideogram, genomic coordinates, SNP locations and SNP labels.

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