Dovetail™ Libraries 

Dovetail™ Omni-C

The Dovetail™ Omni-C™ library uses a sequence-independent endonuclease for chromatin digestion prior to proximity ligation and library generation. Customer samples are converted to proximity ligation libraries ready for NGS sequencing using our proprietary Omni-C™ technology.

Omni-C Libraries Enable Genome Wide Resolution of Chromatin Interactions

By employing a sequence-independent endonuclease for chromatin digestion, Omni-C™ offers all the characteristics of Hi-C libraries, without the sequence bias inherent to restriction enzyme (RE) based Hi-C approaches. Omni-C™ data contains a significant overlap with data generated using RE based approaches, but are enriched in long-range cis reads. Improved resolution for chromatin conformation and looping interactions can be measured due to this lack of sequence bias. Omni-C™ libraries enable the most complete view of genome-wide chromatin conformation by dramatically increasing resolution of topological interactions that occur in regions with low restriction enzyme density.

  • Sequence independent chromatin fragmentation enables fully genome-wide detection of chromatin contacts (up to 20% of the genome lacks coverage using restriction enzyme based Hi-C approaches)
  • Shotgun sequencing-like even genome coverage enabling SNP calling, chromosome phasing and structural variant detection
  • Lower sequencing burden to reach desired sequence depth saving time and cost

SNPs & Chromosome Phasing    The even sequence coverage from Omni-C™ libraries enables genome-wide SNP calling and downstream applications reliant on SNP information, such as chromosome phasing due to low switch error rates. Omni-C™ technology offers the best possible approach for whole genome physical phasing using Illumina short reads.

Large SVs Are Captured In Omni-C™ Data    The proximity ligation data can be used to detect and confirm chromosomal rearrangements in cancer samples at a high resolution. Using open-source software tools such as HiGlass, contact matrices enable the quick visualization of such large structural variants.

  • Delivery Time: 6 weeks
  • Library Type: Hi-C
  • Sequencing Platform: Illumina
  • Analysis Platform: Dovetail™ QC Pipeline
  • Deliverable: Dovetail™ Omni-C™ Library

Dovetail™ Micro-C

Take advantage of having experienced Dovetail™ scientists produce Micro-C libraries for you! You provide the sample, we send you back the final library ready for sequencing with sufficient material for up to 200M read-pairs.

Dovetail™ Micro-C Libraries Are Enriched For Desirable Hi-C Properties

MNase possesses both sequence-independent endonuclease and exonuclease activities, thereby generated fragments are nucleosome length (146 bp). The proximity ligation portion of the protocol is optimized to maximize long-range interactions. The resulting highly uniform, short fragments enable nucleosome-level resolution of chromatin contacts, a theoretical resolution maximum.

  • Sequence independent chromatin fragmentation enables fully genome-wide detection of chromatin contacts (up to 20% of the genome lacks coverage using restriction enzyme based Hi-C approaches)
  • Ultra-high nucleosome-level resolution of chromatin contacts
  • Highest signal-to-noise data with both enrichment of long-range informative reads and nucleosome protected fragments

Improved calling of topological features    The ability to detect higher-order features – such as chromatin loops – in proximity ligation data is dependent on enriching long-range informative reads to capture chromatin interaction frequency. The increased chromosome conformation informative reads combined with ultra-high-resolution improves loop calling compared to RE-based methods.

Dovetail™ Micro-C uniquely captures nucleosome positioning    Chromatin digested with MNase reveals a genome-wide nucleosome map that is visible in the Dovetail Micro-C libraries. The map consists of sequence read peaks correlating to DNA that is protected by the nucleosome and troughs representing intervening DNA that is accessible to MNase digestion. This oscillation occurs at a frequency of ~146 bp (the length of DNA wrapped around a mono-nucleosome), a feature unique to Micro-C data but absent from RE-based approaches. The combined genome-wide nucleosome positioning and ultra-resolution chromosome topology enabled by Dovetail Micro-C facilitates mapping from nucleosome-to-nucleosome chromatin contacts.

  • Delivery Time: 6 weeks
  • Library Type: Hi-C
  • Sequencing Platform: Illumina
  • Analysis Platform: Dovetail™ QC Pipeline
  • Deliverable: Dovetail™ Micro-C Library, QC Report

Dovetail™ HiChIP MNase

Dovetail™ HiChIP combines ChIP-seq with Hi-C, a proximity ligation method that captures long-range interactions using standard Illumina paired-end sequencing. Take advantage of having experienced Dovetail™ scientists produce HiChIP libraries for you. You provide the sample, we ship you the final library ready for sequencing with sufficient library material for up to 200M read-pairs. For cells and tissue samples derived from human or mouse, map protein-directed chromatin conformation with one of three antibodies: CTCF, H3K4me3, or H3K27 (IgG also available as a negative control).

Map protein binding sites and long-range protein-directed interactions

The Dovetail™ HiChIP library enables study of protein-directed 3-D chromatin interactions. Akin to ChIP-seq, Dovetail™ HiChIP data captures sequences directly bound by the protein of interest, as well as long-range interactions mediated by the protein of interest. The use of MNase in the assay results in nucleosome resolution data.

  • Capture ChIP-seq and Hi-C data together in a single library
  • Choose one of three chromatin related antibodies: CTCF, H3K4me3, or H3K27 (IgG also available as a negative control)
  • Map chromatin interactions at nucleosome level resolution

Produce high resolution contact maps with less sequencing     Enrichment of protein-directed chromatin features enables high-resolution contact map generation with less read depth. Compared to a high resolution restriction enzyme-based Hi-C, Dovetail™ HiChIP data enables visualization of higher-order chromatin features, such as loops and chromatin interactions, at a fraction of the read depth, leading to significant savings in sequencing costs.

  • Delivery Time: 6 weeks
  • Sample Types: Human or mouse cells, tissue, and blood
  • Library Type: Hi-C
  • Sequencing Platform: Illumina
  • Analysis Platform: Dovetail™ QC Pipeline
  • Deliverable: QC Report, Sequence data (fastq file format), Contact matrices (mcool and hic file formats)

Designed to augment a Dovetail™ HiChIP MNase library, the Dovetail™ ChIP-seq MNase library service uses the same chromatin fragment strategy, ensuring the highest data concordance. A Dovetail™ ChIP-seq MNase library is only available with the purchase of Dovetail™ HiChIP MNase library. Choose from one of our three antibodies – CTCF, H3K4me3, or H3K27 (IgG also available as a negative control).

  • Delivery Time: 6 weeks
  • Sample Types: Human or mouse cells, tissue, and blood
  • Library Type: Standard
  • Sequencing Platform: Illumina
  • Analysis Platform: Dovetail™ QC Pipeline
  • Deliverable: QC Report, Dovetail™ ChIP-seq MNase Library