Pinpoint FISH Kit
Products + Services

direct, definitive genomics

KromaTiD offers single-cell innovative solutions for the discovery detection and quantification of genomic structural variations for gene and cell therapy scientists.

Chromosomal rearrangements are a source of structural variation within the genome that are prominent in human diseases, where there is extreme importance in detecting translocations and deletions. Where traditional approaches have been used for detecting these inversions they are simply not robust enough and are often missed. Our directional Genome Hybridization is a single stranded hybridization method, able to detect these inversions routinely, providing high resolution using our chromosome paints.

dGH in-Site™ Targeted Assay Services
dGH in-Site™ Targeted Assay Services

platform overview

Our directional genome hybridization in-Site provides whole genome tracking inserting DNA cassettes as small as 2kb.

Unidirectional dGH probes provide a single cell, genome-wide perspective of cellular engineering outcomes, including tracking of viral and non-viral mediated insert integration (CRISPR/Cas9 and alternative systems).

As an orthogonal analysis to PCR/sequencing techniques, dGH in-Site™ assays enable, through direct visualization, definitive measurement of the presence or absence of inserts. This includes genome-wide distribution and orientation of transgenes or inserted segments. When used in combination with our targeted probes and/or dGH dosimetry paints, dGH in-Site™ assays can provide quantitative, single cell on- vs off-target outcomes of the delivery and editing process, and can be used to track the stability of the edited genome in both clonal isolates and non-clonal populations.

Offering the lowest limit of detection of integrated or genomic DNA targets by fluorescence, dGH in-Site™ is the most comprehensive tool available for researchers interested in tracking engineering outcomes in a de novo fashion.

assay benefits of in-Site™ technology

  • On- and off-target integration metrics
  • Detects structural variations in off target CRISPR therapies
  • Clean integration data, even from complex or heterogeneous cell populations
  • A unique, whole genome, orthogonal method of direct visualization of inserts, without bioinformatic prediction of outcomes
  • Multi-channel fluorescence for flexible and multiplex assay design
  • Available for human, murine, canine, non-human primate and CHO cells

dGH SCREEN Unbiased Assay Services
dGH SCREEN™ Unbiased Assay Services


platform overview

dGH SCREEN™ is a single cell assay designed to monitor structural variants throughout the genome in an entirely de novo fashion. By utilizing directional Genomic Hybridization technology combined with fluorescence labeling patterns and chromosomal aggregation strategies, dGH SCREEN™ provides the most comprehensive and high-resolution karyographic analysis available.

With dGH SCREEN™, researchers are able to track and localize a wide variety of chromosomal rearrangements within a 10kb limit of detection. In addition to being an unbiased tool for the detection of structural variants throughout the genome SCREEN™ offers High Resolution Analysis of DNA repair activity by monitoring hallmarks of genomic instability, including sister chromatid changes. This analysis produces vast amounts of rearrangement data which can be used to create stability and structural variance profiles for complex and heterogeneous cell populations, making dGH SCREEN™ one of the most comprehensive and robust karyographic assays available.

assay benefits of SCREEN™

  • Exchange Events including reciprocal, balanced and allelic translocations
  • Orientation Events including inversions, recombinations and sister chromatid exchanges
  • Chromosomal Gain & Loss Events including sister chromatid fusions, dicentrics/acentrics, fragmentation/chromothrypsis, polypoidy, aneuploidy, monosomy, polysomy
  • Monitoring Cellular Engineering Outcomes: Genome-wide, cell-by-cell and chromosome-by-chromosome assessment of structure, pre- and post modification
  • Orthogonal Data for Sequencing: Genome-wide, confirmatory data regarding rearrangements predicted with long read and other NGS analyses
  • Structural Integrity QC: A straightforward yardstick by which to measure the relative stability of cell lines, or to screen and compare candidate cell lines, based on total genomic structural variation metrics.
  • Variant Discovery: Discover previously unknown mutations by de novo assessment of single cells from patient sub-types
  • Genomic Stability Assessment: Track persistence of variants over time, passages, process variable changes, etc.

Cutting-Edge Assay Development

dGH and pinpoint FISH assays

KromaTiD offers a full range of dGH and Pinpoint FISH products and services, ranging from targeted rearrangement assays to unbiased screening of the entire genome. In addition to our standard probes and services, we specialize in quickly and efficiently designing custom assays to your specifications. You provide the samples; culture, tissue or blood; we design, validate, and execute the assays. Providing you with comprehensive reporting and analysis every step of the way.

application benefits of dGH™

  • Rapid assay development and data delivery
  • Cost effective discovery of any structural rearrangement throughout the genome, including inversions and translocations
  • Sequence, location and orientation from a single assay
  • High resolution screening of individual genes to the entire genome
  • Specific Targets as small as 2kb
  • Structural Genomic insight at almost any level.

KromaTiD’s directional Genomic Hybridization™ (dGH) technology combines bioinformatics driven design of unique single-stranded synthetic probes with strand specific hybridization strategies, and is the only genomics approach capable of detecting DNA sequence, location and orientation in a single test. With the ability to resolve very small inversions and translocations, dGH technology can be employed in both targeted and unbiased discovery studies, quickly providing data on new or variable rearrangements for your patient screening or target validation needs.

If a complete genetic profile is required, pair dGH with NGS on the same samples to build a comprehensive mutation profile.

The dGH platform is available in three iterations, each designed specifically to cater to different scientific needs.

dGH platform variants

1. Unbiased Assays – dGH SCREEN™ (Chromatid Paints)

KromaTiD’s full chromosome chromatid paints can be used to screen the full genome, whole chromosomes, or even single arms or regions of chromosomes for clinically important DNA rearrangements. dGH paints can be used for the de novo discovery of all manner of structural variations including inversions, sister chromatid exchanges, translocations, and copy number variants. dGH SCREEN™ has broad utility in multiple fields and can be used to identify structural abnormalities of varying sizes in any actively dividing human cells.


2. Targeted Assays – dGH in-Site™

Targeted dGH provides insight into structural aberrations occurring in specific regions of the genome. Capable of discovering both small and large structural rearrangements, targeted dGH is a versatile method that helps researchers gain a deeper understanding about structural abnormalities in almost any region of interest. Targeted dGH in-Site provides analysis and visualization of exogenous DNA plasmids or rearrangements occurring at specific loci of interest. With dGH in-Site, researchers can track events involving their edit sites or plasmids throughout the genome. Capable of illuminating sequences as small as 2kb, dGH in-Site is a versatile method that helps scientists gain a deeper understanding about any genomic region of interest.


3. 3X Resolution – Pinpoint FISH

Pinpoint FISH was developed with precision and resolution in mind. With 3x the relative signal of BAC FISH probes, and the ability to hit targets as small as 4kb in length, Pinpoint FISH can be used to detect inversions, gene rearrangements, gene fusions, copy number variants, duplications or deletions at nearly any location of the genome.

LEARN MORE About Pinpoint FISH™

Pinpoint FISH Kit
Pinpoint FISH™ Kits

tp53/cep17 probe kit

Pinpoint FISH TP53/CEP17 probe kit is an oligonucleotide-based FISH assay designed to provide the highest resolution, lowest background, and lowest limit of detection available. By modifying the hybridization conditions and eliminating strand degradation steps.

The TP53/CEP17 probe kit provides 3x the relative signal; 3x the resolution and 6x the signal-to-noise ratio; 50% lower background, compared to similar oligonucleotide assays. Pinpoint probes can be designed for a wider range of targets and target sizes.

With KromaTiD’s probe kit you can easily detect mutations with variable breakpoints free of repetitive sequences, and no blocking required, providing Robust performance and consistent hybridization quality.

KromaTiD’s full chromosome chromatid paints can be used to screen the full genome, whole chromosomes, or even single arms or regions of chromosomes for clinically important DNA rearrangements. dGH paints can be used for the de novo discovery of all manner of structural variations including inversions, sister chromatid exchanges, translocations, and copy number variants. dGH SCREEN has broad utility in multiple fields and can be used to identify structural abnormalities of varying sizes in any actively dividing human cells.


Cell Culture Services
Cell Culture Services

cell line growth, expansion, isolation and quality control

We will grow primary or established cells at various scales. Starting from your cell lines or blood provided to us, we will handle your cell line growth, expansion, isolation and quality control. No capital costs or extra time on your end. Our Cell services will include recovery of the culture from cryopreservation, assessment of the viability of your cells, at our above 50%, doubling of beginning cell count which will influence the yields that are determined by ending cell viability and assessment.

We offer ISPC cell culture services, T-Cell culture services,  adherent and suspended cell line culture services, Whole Blood Services, Growth and Assessment Viability services. We also provide DNA isolation cell, mycoplasma testing and metaphase preparation services. With KromaTiD’s Cell Culture Services you can focus on discovering what matters most in your research, finding the answers to the most important questions!


G-Banding Services

assay execution, imaging, and scoring

KromaTiD offers standardized G-banding services for as little as $20 per analyzed spread. For more information, please fill out the contact form below and a KromaTiD representative will reach out to you shortly. The more information you can provide in the form below, the more efficiently we’ll be able to provide a quote and answer any questions. We look forward to discussing your karyotyping and research requirements with you!


Get Started with KromaTiD’s Simple 3 Step Process:

Contact us today to learn more!


DGH SCREEN™ Overview
Gene Editing Sample Report


SUBTELomere Pinpoint FISH™ Probes
Centromere Pinpoint FISH™ Probes
Oncology Pinpoint FISH™ Probes


Cell Culture Services