probeEPICfemanno: Processed annotation of Illumina EPIC probes for use in the...
In FEM: Identification of Functional Epigenetic Modules
Description
Usage
Value
Author(s)
References
Description
A list of entries giving various annotation information of
the EPIC probes
Usage
1
Value
typeC
a vector of 0's and 1's indicating whether a probe maps to a CpG (1) or not (0).
CGI
a vector of 0's and 1's indicating whether a probe maps to a CGI (1) or not (0).
Design
a vector of 1's and 2's, specifying Design type of probe (1 = type I, 2 = type II).
probeID
the EPIC probe IDs.
GeneGroup
an integer vector specifying which gene region the
probe maps to. Regions are annotated as follows: 1=TSS1500, 2=TSS200, 3=5'UTR, 4=1stExon, 5=gene body, 6=3'UTR. Probes with ambiguous mappings are assigned an
NA.
eid
mapping of EPIC probes to Entrez Gene ID.
Author(s)
"Yinming Jiao"<20907099@zju.edu.cn>, "Andrew E Teschendorff"<andrew@picb.ac.cn>
References
A systems-level integrative framework for genome-wide DNA methylation and gene expression data identifies differential gene expression modules under epigenetic control. Jiao Y, Widschwendter M, Teschendorff AE. Bioinformatics. 2014;30(16):2360-2366
FEM documentation built on April 28, 2020, 8:56 p.m.
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Description Usage Value Author(s) References
Description
A list of entries giving various annotation information of the EPIC probes
Usage
1 |
Value
typeC |
a vector of 0's and 1's indicating whether a probe maps to a CpG (1) or not (0). |
CGI |
a vector of 0's and 1's indicating whether a probe maps to a CGI (1) or not (0). |
Design |
a vector of 1's and 2's, specifying Design type of probe (1 = type I, 2 = type II). |
probeID |
the EPIC probe IDs. |
GeneGroup |
an integer vector specifying which gene region the probe maps to. Regions are annotated as follows: 1=TSS1500, 2=TSS200, 3=5'UTR, 4=1stExon, 5=gene body, 6=3'UTR. Probes with ambiguous mappings are assigned an NA. |
eid |
mapping of EPIC probes to Entrez Gene ID. |
Author(s)
"Yinming Jiao"<20907099@zju.edu.cn>, "Andrew E Teschendorff"<andrew@picb.ac.cn>
References
A systems-level integrative framework for genome-wide DNA methylation and gene expression data identifies differential gene expression modules under epigenetic control. Jiao Y, Widschwendter M, Teschendorff AE. Bioinformatics. 2014;30(16):2360-2366
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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