ChIP-seq analysis

ChIP-seq is a method of analyzing the interaction of protein-DNA complexes. This approach is used to profile histone modifications, transcription factors, and other DNA-related proteins. ChIP-Seq analysis uses chromatin immunoprecipitation (ChIP) and next-generation high-throughput sequencing (NGS).

The ChIP-seq experiment consists of the stage of identification of enriched DNA regions (protein binding sites), sequencing of selected fragments on the NGS machine and bioinformatic analysis. The purpose of bioinformatics analysis is to detect peaks protruding beyond the 'background' of readings in a given region in the genome and to determine their significance in relation to the designed experiment. The detection of the peaks always occurs between the control sample (called the 'input') and the test sample. Thanks to the ChIP-Seq analysis, we can determine which genes have changed due to the conditions used in the experiment. The effect is visible throughout the genome of the tested organism. This method is widely used in many areas of biology and medicine.

At Bioidea, we offer high-quality, comprehensive bioinformatics analysis of ChIP-Seq projects, ranging from experiment design to full reports ready for scientific publication. The analysis consists of several steps: quality analysis, mapping of reads to a reference sequence, peak identification, sequence motif identification, peak annotation, and functional analysis of the genes associated with the peaks. Additionally, we offer you the possibility to combine the results of the ChIP-seq experiment with the results of other experiments, eg RNA-seq.

For more information on CHIP-Seq bioinformatics analysis, please contact: