data: ChIPanalyserData

In patrickCNMartin/ChIPanalyser: ChIPanalyser: Predicting Transcription Factor Binding Sites

ChIPanalyserData

Description

ChIPanalyserData is derived from real biological data. The source organism is Drosophila melanogaster. The data can be described as genomic data as it contains DNA sequences, loci, genetic information, DNA accessibility data and ChIP-seq data.

Usage

    data(ChIPanalyserData)

Format

1. Accessis GRanges containing DNA Accesibility data for the sequences described above.

2. csis GRanges containing Chromatin State data for the sequences described above.

3. topis GRanges containing a locus of interest. In this case eve strip Locus on chromosome 2R in Drosophila melanogaster

4. chipis a GRanges containing ChIP score of the eve strip locus in Drosophila melanogaster.

5. geneRefis a GRanges containing UCSC gene reference information

Value

Returns a set of Rdata objects as described above.

Source

Transcription Factor PFM: Berkeley Drosophila Transcription Network Project (bdtnp.lbl.gov)

References

Zabet NR, Adryan B (2015) Estimating binding properties of transcription factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84–94. Patrick C.N. Martin and Nicolae Radu Zabe (2020) Dissecting the binding mechanisms of transcription factors to DNA using a statistical thermodynamics framework. CSBJ, 18, 3590-3605.

Examples

data(ChIPanalyserData)

patrickCNMartin/ChIPanalyser documentation built on Nov. 24, 2022, 12:02 a.m.