Hemat NGS Assay for Leukemia
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Overview


The Hemat NGS Assay from G2M is designed for comprehensive genomic profiling of hematologic malignancies, enabling high-resolution detection of clinically actionable somatic alterations across leukemias. The assay supports molecular diagnosis, prognostic risk stratification, therapeutic decision-making, and disease classification in accordance with contemporary NCCN, ESMO, and AMP guidelines.

The assay is optimized for use in:

  • Acute Myeloid Leukemia (AML)
  • Acute Lymphoblastic Leukemia (ALL)
  • Chronic Myeloid Leukemia (CML)
  • Secondary and therapy-related leukemias

By interrogating DNA mutations, copy number alterations, and both DNA and RNA fusion events, the assay provides a unified solution for routine and advanced clinical genomics applications.

Leukemogenesis is driven by a heterogeneous spectrum of genetic alterations involving:

  • Signal transduction pathways (FLT3, NRAS, JAK2)
  • Epigenetic regulators (IDH1, IDH2)
  • Transcriptional and splicing machinery
  • Structural rearrangements and fusion oncogenes (BCR-ABL1 and others)

Accurate detection of these variants, including low frequency sub clonal mutations and internal tandem duplications, is critical for risk assessment and therapy selection. The Hemat NGS Assay is engineered to capture difficult genomic regions, including GC-rich, homologous, and repetitive loci that are traditionally challenging for NGS assays.

Assay Chemistry and Methodology


The assay employs a hybridization capture–based target enrichment strategy, engineered for efficient and uniform capture of complex genomic regions, including GC-rich, repetitive, and homologous sequences. An optimized hybridization time of approximately 4 hours enables rapid library preparation without compromising to capture specificity or depth of coverage.

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The workflow is designed to be automation-friendly, supporting both manual and automated library preparation formats to accommodate varying laboratory throughput requirements. The assay demonstrates platform-agnostic compatibility and has been validated across commonly used sequencing systems, including Illumina, Element Biosciences, MGI, and Thermo Fisher platforms. This streamlined and flexible workflow ensures high reproducibility, consistent assay performance, and scalability across diverse clinical laboratory settings.

Bioinformatics & Data Analysis Pipeline


NGS data analysis is supported by GATK-based pipelines integrated with the Cliseq Interpreter Platform, a cloud-based clinical interpretation solution designed to streamline analysis of complex genomic data.

  • Quality control, alignment, and variant calling
  • Annotation of somatic variants using curated clinical databases
  • Identification of clinically significant mutations (CSMs)
  • Generation of downloadable annotated VCF files and CSM reports
  • Integration of therapy-linked insights, including FDA-approved drug associations where applicable

This integrated bioinformatics framework enables standardized, reproducible, and clinically actionable interpretation of leukemia genomic data.

Assay Design & Gene Content


The Hemat NGS Assay is designed for comprehensive genomic coverage, encompassing 208 genes associated with DNA mutations, 51 DNA fusion genes, and 94 RNA fusion genes within a total target size of approximately 0.7 Mb. The assay covers entire coding sequences along with clinically relevant hotspot regions, enabling robust detection of disease-defining and actionable variants. This integrated assay architecture supports simultaneous interrogation of single nucleotide variants, small insertions and deletions, copy number variations, and both DNA- and RNA-based fusion events within a single, consolidated assay workflow.

Key features and highlights


  • Comprehensive coverage of key genes, including hard to capture regions like homologous, repetitive, GC rich and difficult-to-detect biomarkers like PAX5, FLT3-ITDs, and CEBPA for high-impact clinical insights.
  • Covers a broad range of clinically actionable markers, providing clinicians with deeper insights for more informed leukemic care.
  • Easy to use assay workflows and automation friendly.
  • Fast turnaround time and clinically significant mutations (CSM) report will be available to download.
  • High-sensitivity detection that identifies somatic mutations at allele frequencies as low as 5%, with the flexibility of local or cloud-based analysis options.
  • Provides better diagnostic, prognostic and therapy selection information for patients with leukemia malignancies.

Panel Specifications


Parameter
Description
No. of genes:
208 (includes DNA fusion genes) + 94 (RNA fusion genes)
Variant types:
SNV/ InDels/ CNV/ DNA & RNA Fusions
Covered region:
Whole CDS, DNA & RNA fusions, Hotspots
Target size:
653 Kb
Coverage recommendations:
1200X
Data requirement (per sample):
800 Mb
Sample type:
Blood/ Bone Marrow/ FFPE
Recommended sample (input range):
DNA:50-500 ng
RNA:20-200 ng
Workflow time*:
~1.5 Day
Platform compatibility:
Illumina, Thermo Fisher, MGI, Element Biosciences
Bioinformatics Support:
G2M CliSeq Interpreter
Primary Analysis: FASTQ to annotated VCF
Secondary Analysis: CNVs, SNVs, InDel, Fusions
Tertiary Analysis: Clinical interpretation

*Hybridization time may vary based on panel size

Assay Performance


Features
Performance
Coverage Uniformity (0.2X):
>99%
Reproducibility (%):
98
Sensitivity (%):
98.5
On Target Ratio (%):
75-85

*The panel’s performance is from the Illumina platform.

Low frequency variants reveal Leukemia’s true clonal architecture

Allelic Discrimination Plot

VAF distribution using the G2M Leukaemia kit shows SNVs dominating across all ranges, with notable in Indels presence at low frequencies demonstrating robust detection of low frequency variants for precise driven leukaemia diagnostics.

Mutation profile indicates gene-specific patterns in Leukemia

Melting Curve

Variant distribution across leukemia patients: SNVs dominate, with NRAS showing the highest count (11). InDels occur in NPM1, WT1, TP53, and other genes, while ITDs are confined to FLT3 and CEBPA.

Precision coverage across all Leukemia samples

Standard Curve

Fold 80 values for blood samples ranged from 1.23–1.35, showing highly uniform coverage with minimal sequencing bias supporting accurate and dependable variant detection.

Fusion driven interaction network exposing critical molecular nodes

Relative Quantification Analysis

Common fusion partners in G2M Hemat RNA fusion Assay.

RNA fusion detection power in Leukemia

Standard Curve

High-resolution profiling of RNA fusion genes in leukemia using our advanced NGS Assay, showcasing detection power across millions of sequencing reads.

VAF distribution across key genes in Leukemia

Standard Curve

The VAF plot shows the distribution of some of the important genes in 75 myeloid patient samples. Genes like FLT3, SETBP1, and NRAS display higher median VAFs with greater variability, suggesting a higher mutation burden which may reflect a greater impact on disease progression. In contrast, genes like JAK2, CBL, and DEK exhibit lower and more consistent VAFs, indicating a smaller or more stable role in the overall genetic profile.

Ordering Information


Commercial Name Old Cat No. New Cat No. Pack Size Platform
Hemat NGS Test Kit for Leukemia G2MML28001 G710017-1 24 T Illumina
G2MML28001 G710017-2 96 T Illumina
G2MML28001 G710017-3 96 T – EZY Illumina – EZY
Hemat NGS Test Kit for Leukemia G2MML28001 G710017-4 24 T MGI
G2MML28001 G710017-5 96 T MGI
G2MML28001 G710017-6 96 T – EZY MGI – EZY
Hemat NGS Test Kit for Leukemia G2MML28001 G710017-7 24 T Aviti
G2MML28001 G710017-8 96 T Aviti
G2MML28001 G710017-9 96 T – EZY Aviti – EZY
Hemat NGS Test Kit for Leukemia G2MML28001 G710017-10 24 T Thermo
G2MML28001 G710017-11 96 T Thermo
G2MML28001 G710017-12 96 T – EZY Thermo – EZY

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