Proximo - Phase Genomics

Designed for your Sample Type

Proximo Hi-C kits include reagents tailored to your sample type, ensuring more successful runs. With five optimized kits (human, animal, plant, fungi, and microbe), we deliver robust results for all organisms.

Get a quote today to get started with Proximo.

Convert Contigs to Chromosomes

Proximo Hi-C kits employ cost-effective proximity ligation data generated using in vivo Hi-C to orient and order contigs into chromosome-scale, reference-quality genome assemblies for virtually any organism. Data generated can also be used to phase haplotypes, model the 3D conformation of the genome, and detect structural genomic variation, delivering insights across a wide range of applications in agriculture and medicine.

Hi-C scaffolding technology graphic. Image displays a woman, a cell structure, and genome before a representation of the Hi-C signal.

Proximity ligation technology is used to trap short-, long-, and ultra-long-range intracellular DNA contacts (black arcs). Chimeric junctions originating from the same cell are recovered, converted into a short-read sequencing library, and subjected to paired-end sequencing. The signal increases as the genomic distance between any two loci across the genome decreases.

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Phase Genomics Hi-C scaffolding product box

Features and Benefits

Sample-type-specific reagents
High-quality, long-range sequencing data
No high-molecular-weight DNA extraction required
Short-read compatible; yields libraries for Illumina^® or Element^® sequencing
User-friendly, 2-pack Proximo Hi-C Kits

Proximo Workflow

Start with a tissue sample, and end with FASTA files and figures. The entire process (depicted below) is typically completed in a month.

Hi-C scaffolding workflow showing process steps from tissue sample collection to file distribution.

Proximo workflow, from sample to analysis.

The proximity ligation library prep constitutes a specialized part of the workflow. Our Proximo Hi-C Library Prep Kits provide a streamlined protocol that does not require the extraction of high-molecular weight (HMW) DNA. The 8-step library prep workflow can be completed in one or two working days, and requires only 3 hours of hands-on time. The protocol contains several convenient, safe stopping points for maximum flexibility.

Hi-C scaffolding process hourly breakdown beginning with crosslinking and ending with library cleanup.

Proximo Hi-C library prep workflow.

If a draft assembly is not yet available for your sample, we can help facilitate traditional sequencing projects prior to Hi-C scaffolding. Contact us for recommendations if you do not have prior experience with whole-genome sequencing and assembly.

Sequencing may be performed on any Illumina^® or Element^® sequencer. The Proximo Kit yields a dual-indexed proximity ligation library, for which ~50 to 100 million paired-end reads are required.

Contact us for a consultation on data analysis or interpretation, or if you are interested in additional analysis services.

Download the Proximo Library Prep Protocol for your kit/sample type

Key Applications

Click here for more Proximo Applications in Plant & Animal Genomics and Human Genomics & Epigenomics

Scaffold and phase high-quality reference genomes

Transform your draft assemblies into high-quality genomes. Proximo dependably yields high-quality, end-to-end chromosome assemblies for diverse species, from diverse sample types. Hi-C data and Proximo may also be integrated with other computational approaches to enable the production of “gold” and “platinum” eukaryotic genomes.

See a complete list of metazoans and microbes for which reference genomes have been generated or improved with the Proximo Platform.

Link Structure to Function with 3D Genomics

Reveal the 3D structure of genomes with ultra-long-range (Hi-C) sequencing and unlock insights into genomic function. Using proximity ligation to construct high-resolution maps of chromatin interactions, Proximo Hi-C can help identify promoter-enhancer connections, associate non-coding variants with their target promoters in disease contexts, and elucidate the impact of structural variations on gene regulation.

Phase haplotypes and detect structural variants

Hi-C captures both short-range and long-range genomic contiguity. The Hi-C signal increases as the genomic distance between any two loci across the genome decreases. This information can be used to phase genomes and detect complex rearrangements, including balanced translocations, chromothripsis, and copy number changes across the entire genome. Collect SNV, CNV, SV, and phase data from a single library prep.

For comprehensive cytogenomic genome characterization, see our CytoTerra Platform.