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DNA Microarrays

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Updated: May 1, 2026

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

Published on: April 11, 2016

Next generation MUT-MAP, a high-sensitivity high-throughput microfluidics chip-based mutation analysis panel.

Erica B Schleifman¹, Rachel Tam¹, Rajesh Patel¹

¹Oncology Biomarker Development, Genentech Inc., South San Francisco, California, United States of America.

|March 25, 2014

Summary

This summary is machine-generated.

A new mutation multi-analyte panel (MUT-MAP) enables high-throughput detection of 120 somatic mutations across eleven cancer genes. This robust assay requires minimal DNA input and offers rapid analysis for personalized medicine and drug development.

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Last Updated: May 1, 2026

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

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Published on: April 11, 2016

Single Droplet Digital Polymerase Chain Reaction for Comprehensive and Simultaneous Detection of Mutations in Hotspot Regions

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Published on: September 25, 2018

Next Generation Sequencing for the Detection of Actionable Mutations in Solid and Liquid Tumors

Next Generation Sequencing for the Detection of Actionable Mutations in Solid and Liquid Tumors

Published on: September 20, 2016

Area of Science:

Oncology
Molecular Biology
Genetics

Background:

Molecular profiling of tumor tissue is crucial for selecting cancer treatments.
Detecting oncogenic hotspot mutations requires high-throughput, multiplexed technologies due to limited patient tissue samples.
Next-generation sequencing (NGS) faces challenges like cost, DNA input, data complexity, and turnaround time for clinical application.

Purpose of the Study:

To develop a high-throughput microfluidic panel for detecting multiple somatic mutations.
To address the limitations of existing technologies for clinical molecular profiling.

Main Methods:

Development of the mutation multi-analyte panel (MUT-MAP) using allele-specific PCR (AS-PCR) and Taqman technology.
The panel detects 120 somatic mutations across eleven key cancer genes (AKT1, BRAF, EGFR, FGFR3, FLT3, HRAS, KIT, KRAS, MET, NRAS, PIK3CA).
Utilized low DNA input (2 ng high quality or 100 ng FFPE) and implemented automated data analysis for high-throughput processing (88 samples/day).

Main Results:

Validated assays showed robust signals and low cross-reactivity.
Mutation calls in cell lines were consistent with the COSMIC database and Sanger sequencing.
Demonstrated high correlation with NGS (Ion Torrent SuraSeq500) in FFPE dilution experiments, with sensitivity down to 0.45%.

Conclusions:

The MUT-MAP is a valuable tool for high-throughput biomarker discovery in personalized medicine.
This multiplexed assay facilitates cancer drug development by enabling efficient molecular profiling.
The platform overcomes limitations of current technologies, offering a robust solution for clinical settings.