ChIP-Sequencing (ChIP-Seq) Services

End-to-end ChIP-Seq services

ChIP-Seq Services

ChIP is a powerful method to study protein-DNA interactions and to investigate the locations of histone modifications across the genome. But ChIP assays take time to master. Our ChIP-Seq services enable any researcher to access the highest quality ChIP-Seq data and publish in high-impact journals as quickly as possible.

With our end-to-end ChIP-Seq services, you don’t need to worry about optimizing sonication to get efficient chromatin shearing or testing multiple antibodies to try to find one that works because we take care of all of that for you. There’s also no need to learn bioinformatics because analysis of the next-generation sequencing data and explanation of the results are included standard.

Using our ChIP-Seq services is simple. You just submit your cell or tissue samples to Active Motif and receive the analyzed data and publication-ready figures back within a matter of weeks.

Identify histone modification profiles on a genome-wide scale.

Genome-scale analysis of transcription factor binding sites.

Measure transcription rates across the genome.

Advanced ChIP-Seq normalization strategy helps reveal hidden global changes.

Bioinformatics approach to identify master regulators of gene expression.

Obtain high-quality ChIP-Seq data from valuable clinical FFPE samples.

The ChIP-Seq Service includes:

  • Chromatin preparation and sonication
  • Performing ChIP with a ChIP-validated antibody
  • Generating ChIP-Seq libraries
  • Performing next-generation sequencing
  • Comprehensive bioinformatics and data analysis
  • Delivery of publication-ready figures

Why Work with Active Motif?

Publish Your Results Faster and in Higher Impact Journals

Our customers publish data generated using our ChIP-Seq services in high-impact journals. So far, our ChIP-Seq projects have been published in over 300 peer-reviewed scientific articles.

Many scientists choose to work with Active Motif because we generate ChIP-Seq data they can trust to build their research programs around. The publication-ready results we produce enable them to publish faster than if they spent the time and resources to get ChIP assays up and running in their own labs. Expert ChIP labs also choose to work with Active Motif for some of their more difficult ChIP-Seq assays, such as low abundance transcription factors or challenging sample types because we are routinely successful with even the most difficult projects.

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View ChIP-Seq Services Publications

Search our database of customer publications that have used our ChIP-Seq services.


Active Motif Has the Most Experience & Expertise

Active Motif has been offering chromatin immunoprecipitation services for well over a decade, and we have more experience performing ChIP assays than any other service provider. Our Epigenetic Services scientists have optimized protocols for many different sample types, including primary cells, T cells, fresh frozen tissues, and FFPE samples. We also have dedicated scientists that specifically focus on sample preparation to ensure that the critical sonication step is efficient and consistent every time.

For many researchers, the ChIP-Seq experiments are critical parts of their studies. Hundreds of scientists trust Active Motif to perform the ChIP-Seq assays with their precious samples because the data quality we generate is unsurpassed.

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We Have Already Validated Hundreds of Antibodies for ChIP-Seq

Active Motif has evaluated >1,500 antibodies from many different vendors in ChIP assays over the years. While most antibodies are not suitable for ChIP-Seq, we have validated antibodies for >300 different ChIP targets in our hands, with our protocols, so we are confident they will work in your project. This takes the guesswork and trial and error out of the antibody selection process. For most ChIP targets we know which antibody works best because we have already tested them. If there is an uncommon target that we have not yet tested, we offer a quick and affordable ChIP-Seq antibody validation service to test one or more antibodies.

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Services antibodies

Included Standard: Rigorous QC Steps and All Troubleshooting

We do experiments the right way, not the quick or easy way, and we don’t cut corners. Every step in the ChIP-Seq workflow has a dedicated quality control checkpoint that must be passed before proceeding to the next step. You will be in contact with our team throughout your project, so you’ll always know the status of your samples in the experimental workflow.

If we are not convinced of the data quality at any point, we will consult with you to discuss your options and perform any necessary troubleshooting required to ensure that you will receive the best results – all for no additional charge. This includes repeating the chromatin immunoprecipitation step, repeating the library preparation, or performing additional next-generation sequencing to achieve sufficient sequencing depth for proper and robust data analysis. We will do everything we can to complete your project and deliver high-quality results.

What we offer is the closest thing to a guarantee possible in science.

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To learn more, please submit an Epigenetic Services Information Request. You can also download Active Motif’s Epigenetic Services Brochure.

What our customers are saying about us:

"Active Motif took the time to listen to our questions, understand our goal and discuss all options and implications. Not only did the ChIP-Seq study confirm our data-set, it also highlighted a novel mechanism. The quality of the data and service was amazing. Excellent science, informed and helpful people and quality data."

David Briere, PhD
Principal Scientist
Mirati Therapeutics
View complete list of testimonials >

ChIP-Seq Services Documents

Epi Services
Name Cat No. Price  
FactorPath™ ChIP-Seq 25001 Get Quote
HistonePath™ ChIP-Seq 25011 Get Quote
TranscriptionPath™ ChIP-Seq 25031 Get Quote
Input-Seq 25046 Get Quote

Generating data is only half the battle in ChIP-Seq. When the sequencing is complete, tens of millions of short sequence tags must be mapped back to the genome followed by peak calling. Peak calling is complicated by the fact that different algorithms are required for accurate peak calling depending on the antibody used. Thousands to tens of thousands of binding sites must then be exported into a meaningful output that relates the data to genes and allows for multiple samples to be compared to one another. Challenges continue with clustering, heat maps and graphical representations of genome-wide localization patterns. This type of in-depth bioinformatics analysis is beyond the capabilities of most labs. That is why data analysis is part of the standard package for all of our ChIP-Seq Service projects.

A heat map showing the relative occupancy of demethylase KDM1A and Histone H3 dimethyl Lys4 (H3K4me2) at the transcription start sites of all genes bound by these factors
A graph depicting the relative occupancy of demethylase KDM1A and Histone H3 dimethyl Lys4 (H3K4me2) at the transcription start sites of all genes bound by these factors
Figure 3: Compilation of all genomic binding sites relative to gene transcription start sites (TSS).

ChIP-Seq was performed with antibodies against the histone demethylase KDM1A and one of its targets, Histone H3 dimethyl Lys4 (H3K4me2). Thousands of binding sites were identified and the positions of all binding sites, as they relate to gene annotations, were compiled. Left. A heat map was created using all genes bound by H3K4me2 and KDM1A and the occupancy of these factors around the transcription start site (TSS) is depicted. Top. The same data depicted a different way shows KDM1A occupancy between the two peaks of H3K4me2 occupancy.

The selected papers below cite the use of and/or provide additional information about ChIP-Seq Services provided by Active Motif’s Epigenetic Services: