Collection of Microarray Resources

Here is a "best of" collection of links to manuals and tools for Microarray workflow. For other instruments refer to Collection of Support Documents

SureScan Microarray Scanner

For SureScan Dx Microarray Scanner resources, please see here 

General

G4900DA SureScan Microarray Scanner System User Guide

Agilent Microarray Scanner Software Versions A.8.3 Release Notes

Agilent G2565BA Microarray Scanner Bar Code and Glass Specifications 

A Method for Quantifying the Performance of a DNA Microarray Scanner

Assessment of Sensitivity and Dynamic Range of New Generation Microarray Technology using the MAQC Samples

Feature Extraction Software

Feature Extraction Software - Details & Specifications

Agilent Feature Extraction Software Version 10.7.1.1 (FE 10.7.1) Release Notes

Feature Extraction Software 12.1 Installation Guide

Feature Extraction Software 12.1 User Guide

Feature Extraction Software 12.1 Reference Guide

Feature Extraction Software 12.1 Quick Start Guide

Feature Extraction Enhanced Gridding - Release Note

Feature Extraction Software - Download 

Feature Extraction Protocols - Download

QC Chart Tool and Metric Sets

Feature Extraction Software - Revision Table

Migration Utility User Guide for Feature Extraction 11.5 or 12.0 to 12.1

CGH + (SNP) Microarray Analysis Platform

CGH Microarray Solutions for Genome-Wide Genetic Analysis

CGH Microarray Solutions

General

Oligonucleotide aCGH for gDNA Analysis - Enzymatic Labeling For Blood, Cells, or Tissues (with a High Throughput  option - User Manual 

Oligonucleotide Array-Based CGH for Single Cell Analysis - Enzymatic Labeling Protocol - User Manual

Oligonucleotide aCGH for Genomic DNA Analysis - ULS Labeling - User Manual

Oligonucleotide Array-Based CGH for Genomics DNA Analysis- Bravo Automated Liquid Handling Platform with Enzymatic and ULS - User Manual

Compatibility Matrix for Agilent Microarrays and Non-Agilent Scanners

Microarray Quality Information

Technical and Application Notes

Agilent CGH+SNP Microarrays Demonstrate Superior Copy Number Calling for Cytogenetic Profiling of Hematological Cancer Samples

High-Performance Aberration Detection from Low DNA Input and Mosaic Samples with the Agilent SureTag Labeling Kit and CGH Microarrays

Use of Spike-ins for Sample Tracking in Agilent Array CGH

Cytogenomics Software

Agilent CytoGenomics Software-A Complete Solution for Cytogenetic Research Data Analysis

Feature Extraction for CytoGenomics 5.1 User Guide

Feature Extraction for CytoGenomics 5.1 Reference Guide

Feature Extraction for CytoGenomics 5.1 Quick Start Guide

Microarray Gene Expression Platform

General

eArray site for Downloads

Microarray Quality Information

Gene Expression Microarrays

One-Color Microarray-Based Gene Expression Analysis - User Manual

Two-Color Microarray-Based Gene Expression Analysis - User Manual

Exon Microarrays

One-Color Microarray-Based Exon Analysis - LIQA WT Labeling Protocol 2.0

Two-Color Microarray- Based Exon Analysis - LIQA WT Labeling Protocol 2.0

Technical and Application Notes

Gene Expression

ERCC Spike-In Control Transcripts Provides Confidence in Agilent Microarray and RNA-Seq Gene Expression Data

Ultra-low Input Total RNA Gene Expression Analysis Using the Agilent SurePrint G3 Human Gene Expression Microarray

Exon Microarrays

Comprehensive coverage with the Agilent SurePrint G3 Exon Microarray system

Whole Transcript Profiling Using SurePrint G3 Exon Microarrays in a Complete Workflow

Highlights from The WINTHER trial (NCT01856296)

Microarray miRNA Platform

General

eArray site for Downloads

Microarray Quality Information

miRNA Microarray System with miRNA Complete Labeling and Hyb Kit - User Manual

Technical and Application Notes

Exosome miRNA Profiling with the Agilent miRNA Microarray Platform

MicroRNA Analysis of Archival FFPE Samples by Microarray

Agilent Human, Mouse, Rat, and Custom miRNA Microarrays