Technology

Multiplexing and high throughput

Our patented technology enables a multiplex and high-throughput assay of epigenetic markers. At its core, the workflow utilises chromatin immunoprecipitation sequencing (ChIP-seq) and library preparation, requiring minimal adjustments for ChIP-seq useres to adopt in their laboratories. Multiplexing (multiple targets) and high-throughput (multiple samples) is combined to streamline large-scale ChIP-seq experiments, reduce unspecific background and enable direct quantitative comparisons between samples. The proprietary design is also compatible with mapping transcription factors and other chromatin-associated proteins, providing a robust workflow from sample to quantitative data for numerous fields of interest. With minor adjustments, target panels can be adopted to include DNA methylation, and other epigenetic markers.

Scalable solutions for your epigenetic profiling needs

EpiFinder™ kits leverage hmqChIP-seq technology across different scales, from genome-wide detail with high sequencing depth to global quantifications based on low-depth sequencing.

Intrinsically quantitative ChIP-seq tracks

The pooled workflows of EpiFinder™ kits not only offer immense data yield, the data produced is also intrinsically quantitative, because samples are pooled early in the workflow. This not only removes all sample-to-sample variation typically observed in parallelized workflows, it also allows to quantitatively compare across all samples. Chromatin fragments carrying the target epitope (e.g. hPTM) compete for the available antibody binding sites in each ChIP reaction, and the proportion of fragments captured in the ChIP reaction is directly proportional to the relative abundance of the hPTMs in each sample. Our analysis pipeline uses this information to scale the output tracks according to the true proportions, reliably and accurately identifying global and local quantitative differences across all conditions in the pool.

Example data exemplifies the importance of quantitative ChIP-seq:

Different pluripotent states of mouse embryonic stem cells were compared. Quantitative analysis reveals gains (green) and losses (red) between conditions, and statistical significance (green and red blocks) based on three replicates analyzed of each state.

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