MICROARRAY
PROTOCOLS
The research
world is filled with specific protocols and tools that may be
used to successfully establish and perform microarray experiments.
This page consists of an organized, extensive set of links to
facilitate access to microarray printing, RNA isolation, probe
labeling and scanning techniques.
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| Comprehensive Microarray Protocols
(Academia/Non-profit) |
DeRisi
Laboratory UCSF
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Pat
Brown's Laboratory Stanford
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John
Quackenbush TIGR
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Microarray
Protocols (Oak Ridge National Laboratories)
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National
Human Genome Research Institute (NHGRI)
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The
Institute for Genomic Research (TIGR)
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SRC
Microarray Facility (University of Queensland, Australia)
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Oklahoma
Medical Research Foundation
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Microarray
Core Facility (Baylor College of Medicine)
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Complete
protocol for epoxy slides (QUANTIFOIL)
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Complete
protocol for aldehyde slides (QUANTIFOIL)
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Complete
protocol for amino slides (QUANTIFOIL)
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| DNA Amplification and Purification
(Academia/Non-profit) |
Preparation
of DNA Samples (Brown Laboratory Stanford)
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Random
DNA Amplification (DeRisi Laboratory UCSF)
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cDNA
Clone Preparation (De Risi Laboratory UCSF)
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DNA
Precipitation (De Risi Laboratory UCSF)
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National
Human Genome Research Institute (NHGRI)
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Template
Miniprepping (TIGR)
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PCR
Purification and Storage (TIGR)
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| DNA Amplification
and Purification (Commercial Kits) |
QIAquick
96 PCR Purification Kit (Qiagen)
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MinElute
96 UF PCR Purification Kit (Qiagen)
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Montage
PCR Cleanup Filter Plates (Millipore)
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| Slide Array Preparation
& Printing (Academia/Non-profit) |
Poly-l-Lysine
coating of slides (Brown Laboratory-Stanford)
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Preparation
of Poly-Lysine Slides (DeRisi Laboratory UCSF)
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Printing
Microarrays (DeRisi Laboratory UCSF)
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Post-Processing
Arrays (Brown Laboratory-Stanford)
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Array
Post-Processing Protocol (DeRisi Laboratory UCSF)
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National
Human Genome Research Institute (NHGRI)
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Printing
in DMSO (TIGR)
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Printing
Troubleshooting Guide (University of Queensland)
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Preparation
of Poly-Lysine Slides (University of Queensland)
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Slide
array preparation and printing (QUANTIFOIL)
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| RNA Isolation (Academia/Non-profit) |
Fast
Track mRNA Isolation (Brown Laboratory Stanford)
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Fast
Track mRNA Isolation (DeRisi Laboratory UCSF)
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Human
Tumor mRNA Isolation (DeRisi Laboratory UCSF)
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Preparation
of Total RNA from Blood (Brown Laboratory-Stanford)
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RNA
Extraction (NHGRI)
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Poly
A+ Isolation from Total RNA (TIGR)
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RNA
Isolation (Microarray Core Services - University of Rochester)
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| RNA Isolation (Commercial
Kits) |
FastTrack®
2.0 mRNA Isolation Kit (Invitrogen)
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Micro-FastTrack™
2.0 mRNA Isolation Kit (Invitrogen)
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mRNA
Catcher™ (Invitrogen)
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TRIzol®
Reagents (Invitrogen)
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RNA
Stabilization and Purification from Animal, Plant, Bacterial,
Yeast, and Fungal Samples (Qiagen)
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QIAquick
PCR Purification Kit (Qiagen)
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Technical
Article (Ambion, Inc.)
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Total
RNA isolation kits and reagents (Ambion, Inc.)
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mRNA
isolation kits and reagents (Ambion, Inc.)
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ArrayIt
Micro-Total RNA Extraction Kit (Telechem)
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| RNA Amplification
(Academia/Non-profit) |
aRNA
Amplification - Ambion Method (Brown Laboratory Stanford)
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aRNA
Amplification - Wang Method (Brown Laboratory Stanford)
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aRNA
Amplification (Brown Laboratory Stanford)
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Modified
Eberwine RNA Amplification
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| RNA Amplification
(Comercial Kits) |
Amino
Allyl MessageAmp™ aRNA Kit (Ambion, Inc.)
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MessageAmp™
II aRNA Amplification Kit (Ambion, Inc.)
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BDSmart
mRNA Amplfication Kit (BD Biosciences Clontech)
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Ovation
System (Nugen)
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ArrayIt
MiniAmp mRNA Amplification Kit (Telechem)
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| Probe Labeling (Glass
Slide Arrays - Academia/Non-profit) |
Labeling
Yeast RNA (Brown Laboratory Stanford)
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Labeling
Human RNA (Brown Laboratory-Stanford)
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Labeling
E.Coli RNA (Brown Laboratory-Stanford)
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Amino-Allyl
Reverse Transcription (Brown Laboratory-Stanford)
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Revised
Amino-Allyl Labeling (Brown Laboratory-Stanford)
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Labeling
by Reverse Transcription (NHGRI)
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Amino-allyl
Dye Coupling Protocol
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Reverse
Transcription/Labeling RNA
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Modified
Eberwine RNA Amplification
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Amino
Allyl Labeling (TIGR)
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Direct
Probe Labeling (University of Queensland)
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| Probe Labeling (Commercial
Kits) |
LabelStar
Array Kit (Qiagen)
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Amino
Allyl cDNA Labeling Kit (Ambion, Inc.)
|
FairPlay®
II Microarray Labeling Kit (Stratagene)
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LabelStar
Array Kit (Qiagen)
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Ovation
Aminoallyl System (Nugen)
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ArrayIt
Indirect Amino Allyl Fluorescent Labeling Kit (Telechem)
|
ULS™ labeling
kits for DNA microarray applications (Kreatech)
|
Microarray
Target Purification Kit (Roche Biochemicals)
|
Label
IT® µArray™ Cy™3/Cy™5 Labeling Kit (Mirus
Bio Corp.)
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| Hybridization & Washing (Glass
Slide Arrays) |
Array
Hybridization-General/Yeast (Brown Laboratory-Stanford)
|
Array
Hybridization-Human (Brown Laboratory-Stanford)
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Array
Hybridization (DeRisi Laboratory UCSF)
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Array
Washing (DeRisi Laboratory UCSF)
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Hybridization
(NHGRI)
|
Labeled
Probe Hybridization (TIGR)
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Hybridization/Washing
Glass Slide Arrays (QUANTIFOIL)
|
Array
Washing Protocol (QUANTIFOIL)
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| Scanning (Glass Slide Arrays) |
Array
Scanning (DeRisi Laboratory UCSF)
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| Probe Labeling (Filter Arrays
- Academia/Non-profit) |
Showe
Lab (The Wistar Institute)
|
OU
Microarray Core Facility (University of Oklahoma)
|
Saied
A. Jaradat, Ph.D., Tetsuya S. Tanaka, Ph.D. and Yulan Piao, M.D
(National Institute of Aging)
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| Affymetrix GeneChips®
Protocols |
BioMolecular
Resource Facility (Australian National University)
|
W.M.
Keck Facility (Yale University)
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