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hPSC Genetic Analysis Kit

qPCR analysis kit for detecting the majority of karyotypic abnormalities reported in human ESCs and iPSCs

hPSC Genetic Analysis Kit

qPCR analysis kit for detecting the majority of karyotypic abnormalities reported in human ESCs and iPSCs

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qPCR analysis kit for detecting the majority of karyotypic abnormalities reported in human ESCs and iPSCs
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What's Included

  • qPCR Master Mix (2X), 3 mL
  • ROX Reference Dye, 0.2 mL
  • Chr 1q Genetic Assay, 60 Rxn
  • Chr 4p Genetic Assay, 60 Rxn
  • Chr 8q Genetic Assay, 60 Rxn
  • Chr 10p Genetic Assay, 60 Rxn
  • Chr 12p Genetic Assay, 60 Rxn
  • Chr 17q Genetic Assay, 60 Rxn
  • Chr 18q Genetic Assay, 60 Rxn
  • Chr 20q Genetic Assay, 60 Rxn
  • Chr Xp Genetic Assay, 60 Rxn
  • Genomic DNA Control, 15 µL
  • TE Buffer, 1 mL
Products for Your Protocol
To see all required products for your protocol, please consult the Protocols and Documentation.

Overview

Quickly and cost-effectively detect the 8 most common karyotypic abnormalities reported in human pluripotent stem cells (hPSCs).

This qPCR-based kit enables the genetic screening of multiple hPSC lines and contains enough material to analyze a maximum of 18 samples and 2 controls in triplicate including control DNA. It uses double-quenched probes with a 5-carboxyfluorescein (5-FAM) dye to give superior performance over other, single-quenched probes. The kit includes qPCR Master Mix, ROX Reference Dye, Buffer, and primer/probe mixes designed to detect the critical minimal regions of the 8 most commonly mutated regions, as well as a primer/probe mix to a control location in the genome. A genomic DNA control is also provided with demonstrated normal copy number over the regions of interest.

To understand your results, input qPCR data into our online Genetic Analysis App, which will perform statistical analyses, assist with data interpretation, and provide visual representation of the data
Cell Type
Pluripotent Stem Cells
Species
Human
Application
Genome Editing
Area of Interest
Disease Modeling, Stem Cell Biology

Data Figures

Figure 1. The hPSC Genetic Analysis Kit Identifies Chromosome 12 Trisomy

Chromosome 12 trisomy in WLS-1C human iPS cell line is (A) detected using the hPSC Genetic Analysis Kit (orange bar) and (B) confirmed by G-banding.

Figure 2. The hPSC Genetic Analysis Kit Identifies Chromosome 1 Duplication via Unbalanced Translocation

Unbalanced rearrangement of chromosome 1 in the WLS-1C human iPS cell line in which an extra copy of the long (q) arm of chromosome 1 translocated to the short arm (p) of chromosome 21 was (A) detected using the hPSC Genetic Analysis Kit (orange bar) and (B) confirmed by G-banding.

Figure 3. The hPSC Genetic Analysis Kit Identifies Chromosome 20q11.21 Duplication

Chromosome 20q duplication in WLS-1C human iPS cell line is (A) detected using the hPSC Genetic Analysis Kit (orange bar), (B) undetected by G-banding, and (C) confirmed by fluorescent in situ hybridization using probes for 20p11 (green) and 20q11.21 (red).

Figure 4. The hPSC Genetic Analysis Kit Identifies Abnormalities in Cultures with Approximately 30% Mosaicism

Genetically normal WLS-1C human iPS cells were mixed in the indicated ratios with WLS-1C human iPS cells containing a chromosome 20q duplication. Cultures with approximately 30% genetically abnormal cells exhibit a significantly enriched population of 20q11.21 duplication (orange bars).

Protocols and Documentation

Find supporting information and directions for use in the Product Information Sheet or explore additional protocols below.

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Applications

This product is designed for use in the following research area(s) as part of the highlighted workflow stage(s). Explore these workflows to learn more about the other products we offer to support each research area.

Resources and Publications

Educational Materials (38)

Brochure
Brochure

Publications (17)

A stem cell-based toolkit to model Angelman syndrome caused by paternal uniparental disomy of chromosome 15 F. C. Mateus et al. Human Cell 2025 Sep

Abstract

Angelman syndrome is a rare neurodevelopmental disorder caused by the loss of function of the maternally inherited UBE3A gene within the chr15q11-q13 region. This gene is subjected to a tissue-specific form of genomic imprinting leading to the silencing of the paternal allele in neurons. Angelman syndrome can result from various (epi)genetic mechanisms, with paternal uniparental disomy of chromosome 15 (patUPD15) being one of the rarest and least studied due to the absence of suitable models. To address this gap, we generated three independent induced pluripotent stem cell (iPSC) lines from individuals with Angelman syndrome caused by patUPD15, alongside genetically matched unaffected familial controls. Peripheral blood mononuclear cells (PBMCs) were reprogrammed into iPSCs using a non-integrative Sendai virus-based approach expressing the Yamanaka factors. All iPSC lines underwent rigorous quality control, confirming stem cell identity, trilineage differentiation potential, and genetic and epigenetic integrity. This newly established iPSC toolkit provides a powerful platform to investigate the molecular underpinnings of Angelman syndrome caused by patUPD15, paving the way for future translational research and therapeutic development tailored for this understudied form of the disorder. The online version contains supplementary material available at 10.1007/s13577-025-01287-8.
Functional characterization of the MED12 p.Arg1138Trp variant in females: implications for neural development and disease mechanism N. C. Shaw et al. Molecular Medicine 2025 Sep

Abstract

Seven female individuals with multiple congenital anomalies, developmental delay and/or intellectual disability have been found to have a genetic variant of uncertain significance in the mediator complex subunit 12 gene ( MED12 c.3412C>T, p.Arg1138Trp). The functional consequence of this genetic variant in disease is undetermined, and insight into disease mechanism is required. We identified a de novo MED12 p.Arg1138Trp variant in a female patient and compared disease phenotypes with six female individuals identified in the literature. To investigate affected biological pathways, we derived two induced pluripotent stem cell (iPSC) lines from the patient: one expressing wildtype MED12 and the other expressing the MED12 p.Arg1138Trp variant. We performed neural disease modelling, transcriptomics and protein analysis, comparing healthy and variant cells. When comparing the two cell lines, we identified altered gene expression in neural cells expressing the variant, including genes regulating RNA polymerase II activity, transcription, pre-mRNA processing, and neural development. We also noted a decrease in MED12L expression. Pathway analysis indicated temporal delays in axon development, forebrain differentiation, and neural cell specification with significant upregulation of pre-ribosome complex gene pathways. In a human neural model, expression of MED12 p.Arg1138Trp altered neural cell development and dysregulated the pre-ribosome complex providing functional evidence of disease aetiology and mechanism in MED12-related disorders. The online version contains supplementary material available at 10.1186/s10020-025-01365-5.
Single-cell RNA-sequencing reveals early mitochondrial dysfunction unique to motor neurons shared across FUS- and TARDBP-ALS Nature Communications 2025 May

Abstract

Mutations in FUS and TARDBP cause amyotrophic lateral sclerosis (ALS), but the precise mechanisms of selective motor neuron degeneration remain unresolved. To address if pathomechanisms are shared across mutations and related to either gain- or loss-of-function, we performed single-cell RNA sequencing across isogenic induced pluripotent stem cell-derived neuron types, harbouring FUS P525L, FUS R495X, TARDBP M337V mutations or FUS knockout. Transcriptional changes were far more pronounced in motor neurons than interneurons. About 20% of uniquely dysregulated motor neuron transcripts were shared across FUS mutations, half from gain-of-function. Most indicated mitochondrial impairments, with attenuated pathways shared with mutant TARDBP M337V as well as C9orf72-ALS patient motor neurons. Mitochondrial motility was impaired in ALS motor axons, even with nuclear localized FUS mutants, demonstrating shared toxic gain-of-function mechanisms across FUS- and TARDBP-ALS, uncoupled from protein mislocalization. These early mitochondrial dysfunctions unique to motor neurons may affect survival and represent therapeutic targets in ALS. In this study, the authors performed single-cell RNA-sequencing across various isogenic mutant FUS and TDP43 neurons. Mitochondrial dysfunction emerged as pathway unique to motor neurons demonstrating shared toxic gain of-function mechanisms, uncoupled from protein mislocalization.