Discontinued SeqCap Portfolio

SeqCap Epi CpGiant Probes have been discontinued. Our new KAPA Target Enrichment Portfolio is now available and contains our new KAPA HyperExome, as well as our new custom probes, KAPA HyperChoice and KAPA HyperExplore. For additional questions, please contact your regional sales representative.



SeqCap® Epi CpGiant Probes enable you to target selected genomic regions for epigenetic studies from bisulfite-treated genomic DNA in a single workflow. Built on the Roche Sequencing Solutions proprietary probe design and manufacturing technologies, SeqCap Epi CpGiant Probes serve as an effective screening tool to identify specific regions in the genome for methylation variation assessment.

Features and benefits of the SeqCap Epi CpGiant Probes

  • Fixed epigenome-wide design that allows you to interrogate >5.5 million methylation sites per sample at single-nucleotide resolution
  • Genome coordinates  based on human genome build GRCh37 (hg19)
  • More than 2.1 million long oligonucleotide DNA probes to capture target regions with a total capture size of 80.5 Mb


Product Highlights

Upgrade from microarrays to sequencing

  • Obtain a broader view of methylation  by interrogating more than 5.5 million CpGs compared to the 450K CpGs on the Illumina Infinium HumanMethylation450 BeadChip
  • Get increased cost benefits of targeted bisulfite sequencing compared to whole genome bisulfite sequencing (WGBS)

Optimized design and workflow to effectively conserve epigenome complexity

  • Advanced design algorithm coupled with the ability to manufacture more than 2.1 million long oligonucleotide probes for superior target enrichment performance
  • Requirement of an industry-leading sample input of just 1µg*
  • Observe methylation changes on both strands while preserving the ability to decipher  SNPs vs. methylation events

Maximized epigenetic discovery while minimizing sequencing costs

  • Reduced sequencing output needed to validate methylation status by assessing the most well-studied CpG islands in the human genome

Design Files

The design files provide information about genomic regions covered by the SeqCap Epi CpGiant Probes. These files were designed for use with the following products:

  • SeqCap Epi CpGiant Probes, 4 Reactions (Catalog No. 07138881001)
  • SeqCap Epi CpGiant Probes, 48 Reactions (Catalog No. 07138911001)
  • SeqCap Epi CpGiant Probes, 384 Reactions (Catalog No. 07138920001)

Download Design Files

File Descriptions

The folder contains these three files:

  • 130912_HG19_CpGiant_4M_EPI.bed: This file contains the coverage intervals of the design in BED format.
  • 130912_HG19_CpGiant_4M_EPI_CpG.bed: This file contains all 5634094 CpGs that are found under the coverage regions in BED format.
  • 130912_HG19_CpGiant_4M_EPI.txt: This file contains information regarding the total number of regions captured and total size of the capture.


The BED files can be opened using the SignalMap software.

*Data on file.