Related Experiment Video
Updated: Aug 4, 2026
13:14
Global Gene Expression Analysis Using a Zebrafish Oligonucleotide Microarray Platform
Published on: August 10, 2009
Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer
1Rosetta Inpharmatics, Inc., 12040 115th Avenue NE, Kirkland, WA 98034, USA.
Nature Biotechnology
|April 3, 2001
Summary
Ink-jet synthesized oligonucleotide arrays offer a flexible gene expression profiling system. This technology reliably detects gene expression at low levels and shows strong correlation with complementary DNA (cDNA) arrays.
Area of Science:
- Molecular Biology
- Biotechnology
- Genomics
Background:
- Gene expression profiling is crucial for understanding cellular function and disease.
- Existing microarray technologies have limitations in flexibility and cost-effectiveness.
Purpose of the Study:
- To develop and characterize a novel, flexible system for gene expression profiling.
- To evaluate the performance of ink-jet synthesized oligonucleotide arrays.
- To compare the efficacy of oligonucleotide arrays with traditional complementary DNA (cDNA) arrays.
Main Methods:
- Synthesis of oligonucleotide arrays using ink-jet printing and phosphoramidite chemistry.
- Characterization of hybridization specificity and sensitivity by varying parameters like oligonucleotide length and hybridization stringency.
- Assessment of detection limits using complex biological samples.
- Comparison of results with standard cDNA arrays.
Main Results:
- Ink-jet synthesized oligonucleotide arrays enable gene expression profiling with high flexibility.
- 60-mer oligonucleotides reliably detect transcript ratios at one copy per cell.
- The arrays are compatible with various sample amplification and labeling techniques.
- Oligonucleotide array results closely correlate with cDNA array results, especially for unique gene families.
Conclusions:
- Ink-jet oligonucleotide array technology provides a sensitive and specific method for gene expression profiling.
- This technology offers advantages in flexibility and potential for diverse DNA microarray applications.
- The system is robust and comparable to established microarray methods, with unique benefits for gene family analysis.
Related Concept Videos
02:34DNA 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...
03:21RNA-seq
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
02:24Ribosome Profiling
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...