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Comparative Genomic Hybridization CGH microarrays (5)

mRNA amplification for microarray analysis (5)


DNA microarray protocols from scienceboard.net new recommended protocol
DNA microarray protocols from Scientific Advisory Baord (www.scienceboard.net). contents: 10/9/2003 Western Blot Protocol 10/17/2003 Terminal deoxynucleotidyl Transferase-mediated dUTP nick end labeling (TUNEL) 10/19/2003 DNA Band Shift A ...

A Concise Guide to cDNA Microarray Analysis new recommended protocol
Efficient expression analysis using microarrays requires the development and successful implementation of a variety of laboratory protocols and strategies for fluorescence intensity normalization. The process of expression analysis can be broadly divided into ...

A Practical Guide to Microarray Analysis of Gene Expression new recommended protocol
A comprehensive practical guide and protocol for microarray analysis written by Mamdouh Aldamassi, Zugen Chen, Barry Merriman, Daniel Gussin and Stan Nelson at UCLA microarray core facility. The goal of this document is to provide a brief, practical guide f ...

The Rockfeller University Gene Array Resource Center protocols protocol
Protocols: DNA/RNA Preparation Nucleic Acid Labeling Array Hybridization Supply list Protocols are from The Rockfeller University Gene Array Resource Center. (Protocols were largely derived from t ...

NHGRI microarray protocols new protocol
This set of protocols is intended to serve as a basic introduction to making and using cDNA microarrays for those embarking on this path. There are three fundamental types of operations required in a cDNA microarray experiment. (National Human Genome Research ...

Microarray cDNA clone growth and template miniprepping new protocol
A pdf protocol of Microarray cDNA clone growth and template miniprepping developed by Jeremy Hasseman from Institute for Genomic Research. (TIGR) ...

Amino-allyl Labeling of RNA for Microarrays protocol
A pdf protocol of Amino-allyl Labeling of RNA for Microarray study developed by Jeremy Hasseman from Institute for Genomic Research. (TIGR) ...

Microarray labeled probe hybridization protocol
This pdf protocol describes the hybridization of a Cy labeled cDNA probe (mix of Cy3 and Cy5) onto coated slide spotted with PCR amplified cDNA. (by Jeremy Hasseman from Institute for Genomic Research) (TIGR) ...

Microarray slides staining procedure protocol
This protocol describes the staining of microarray slides that have been previously printed with cDNA. This pdf protocol is developed by Joseph Gilbert from Institute of Genomics Research (TIGR). ...

Creating a Microarray Study Binder protocol
This protocol describes the creation of a microarray study binder containing all study information and hybridization results in a study for the purpose of organization and data quality control. (Renee Gaspard, Institute of Genomic Research, TIGR). ...

Microarray Printing in DMSO protocol
This protocol describes the method for making microarray printing plates in a 96 well format. (The same procedure applies to a 384 well format as well). (Jeremy Hasseman from Institute for Genomic Research). (TIGR) ...

Ares Lab Microarray protocol
A pdf microarray protocol from Ares lab at UCSD. ...

MicroArray Protocol For Total RNA new protocol
A pdf protocol by Ramsi Haddad 3/14/02. This protocol requires 50 µg of each type of RNA to be compared for each microarray. The word probe will be used to describe the labeled cDNA that binds to the DNA on the microarray. (The Microarray Core Facility at the ...

Tsai Lab Microarray Protocols protocol
Microarray protocol from MTU-BRC Tsai Lab at Michigan Technological University. (archived content, pdf) ...

DNA microarray manual protocol
A lengthy DNA microarray manual with background, protocol and troubleshooting. (Ecoarray inc). Troubleshooting: A. Low counts of radiation B. High background on membranes C. Spots on membranes are faint D. Very few spots are observed on membranes ...

Membrane based microarray hybridization new protocol
This protocol details how to hybridize radiolabeled cDNA probe to microarray filters. (William H. Wood III, DNA Array Unit of the National Institute on Aging, National Institute of Health) ...

Microarray protocols new protocol
Collections of microarray protocols, faqs and validation methods from Dr. Bart Frank, Arthritis and Immunology Program, OMRF. Content: Protocols Reagent and Supply List Detailed Slide Blocking Protocol Direct Cy-Labeling Protocol with ...

Protocol for the MHC-Cellular Microarray new protocol
A general template for a basic MHC-cellular microarray experiment from pLos biology journal. Content: Array preparation: Preparation of T cells from mice: Cell labeling for differential profiling (i.e. controlled mixing experiments): Array p ...

Microarray reviews 2006 new recommended review
Reviews of microarray experimental design and data analysis techniques published on 2006. 1: Methods Inf Med. 2006;45 Suppl 1:91-103. Computational approaches to analysis of DNA microarray data. Quackenbush J. Objectives: To review the curr ...

Microarray protocol and microarray data analysis new recommended review
Microarray project from National Human Genome Research Institute (NHGRI). The microarray project web site contains information on microarray protocols, microarray analysis and microarray resources. (NHGRI, NIH) Content: Microarray Protocols: - Overvie ...

Expression microarray reproducibility is improved by optimising purification steps in RNA amplificat review
A BMC Genomics open access paper on optimising purification steps in RNA amplification and labelling. (BMC Genomics) Reference: Expression microarrays have evolved into a powerful tool with great potential for clinical application and therefore re ...

HGMP Microarray Resources recommended site
The Microarray Programme at the Medical Research Council’s HGMP Resource Centre, is a new initiative funded by the MRC and BBSRC aimed at developing and disseminating microarray technology to UK academics. It also includes protocols on microarray and various o ...

microarray discussion forum site
here is the homepage of the microarray discussion forum http://www.bsi.vt.edu/ralscher/gridit/ it also contains the archive ... ... ...

DNA Microarray (Genome Chip) site
This simple, printer-friendly site has been created and maintained by Leming Shi, Ph.D. You'll find the basics on DNA microarray technology and a list of academic and industrial links related to this exciting new technology. ...

Microarray discussion list new site
A very popular microarray discussion group (Yahoo group) with over 16000 messages. ...

Collection of microarray resources new site
This is the collections and links by Y.F.Leung at City University of HongKong, China. Resources and links: Background Hardware Arrayer/ Spotter Scanner Microarray slide (pre-spotted) Accessaries Microdissection ...

Microarray resource site site
Microarrays.org is a public source for microarray protocols and software. This site is built and maintained by the DeRisi Lab, Dept. of Biochemistry & Biophysics, Univ. of California at San Francisco. ...

Expression Array Detection Troubleshooting Guide new recommended troubleshooting
Expression Array Detection Troubleshooting Guide.(GeniSphere) Content: 3DNA Array 900, Array 350 and Array 50 V2 Kits Section I. Troubleshooting: General Recommendations Section II. Procedural Problems 1. Unable to carry out reve ...

microarrays troubleshooting
i w'd like u tell me what is/are microarray(s) all about. where are they used. ... ... ...

Microarrays new troubleshooting
This is a troubleshooting guide on Arabidopsis oligonucleotide microarrays. (David Galbraith at University of Arizona) No hybridization signals from the microarrays Faint signal Edge signal Background ...

Microarray troubleshooting guide new troubleshooting
A brief troubleshooting table on microarray analysis. The images in the left-hand column present some common problems encountered during microarray production, with possible solutions offered in the right-hand column. (from Stress-genomics.org and David Galbra ...

Troubleshooting Guide to Microarray Printing new troubleshooting
These are the five key components to manufacture high quality microarrays. They are: Motion Control System, Micro Spotting Pins, Sample Preparation, Substrate Surface, and Printing Environment. If any of these five criteria are not optimized, the quality of m ...

More microarray protocols

Microarray protocols and overviews
(Curr Protoc Mol Biol.)
1: Curr Protoc Mol Biol. 2007 Jan;Chapter 19:Unit 19.6.

Analysis and management of microarray gene expression data.

Grant GR, Manduchi E, Stoeckert CJ Jr.

University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania, USA.

Microarray experiments require careful planning and choice of analysis tools in
order to get the most out of the data generated, especially considering the
associated significant cost and effort. Microarray experiments also require
careful documentation, often residing in local databases and/or submitted to
public repositories. An often bewildering assortment of choices is available for
experimental design, data preprocessing, data analysis (e.g., differential gene
expression, classification), and data management. This unit covers the basic
steps and common applications for planning, data processing, and data management
of microarray experiments, and provides guidance to making choices based on the
goals and practical realities of the experiment, as well as the authors'
experience in this area.

2: Curr Protoc Mol Biol. 2004 Sep;Chapter 22:Unit 22.4.

Overview of mRNA expression profiling using microarrays.

Katagiri F, Glazebrook J.

University of Minnesota, St. Paul, Minnesota, USA.

Microarray technology allows simultaneous measurement of the mRNA levels of
thousands of genes. This powerful technology has applications in addressing many
biological questions that were not approachable previously; however, the enormous
size of microarray data sets leads to issues of experimental design and
statistical analysis that are unfamiliar to many molecular biologists. The type
of array used, design of the biological experiment, number of experimental
replicates, and statistical method for data analysis should all be chosen based
on the scientific goals of the investigator. This overview presents a discussion
of the relative merits and limitations of various methods with respect to some
common applications of microarray experiments.

3: Curr Protoc Mol Biol. 2004 Nov;Chapter 21:Unit 21.9.

Defining in vivo targets of nuclear proteins by chromatin immunoprecipitation and
microarray analysis.


Moqtaderi Z, Struhl K.

Harvard Medical School, Boston, Massachusetts, USA.

This unit describes the combination of chromatin immunoprecipitation (ChIP) with
microarray hybridization to determine the genome-wide occupancy profile of a
DNA-associated protein. After conventional ChIP, the immunoprecipitated material
is amplified by a two-step process involving primer extension followed by PCR in
the presence of a modified nucleotide. The amplified DNA is fluorescently labeled
in a reaction that couples dye to the modified nucleotide, and the labeled sample
is hybridized to a microarray representing a complete genome. This method allows
the study of a protein's pattern of DNA association across an entire genome with
no need for prior knowledge of potential DNA targets.

Bead arrays technology
(NCBI)
ProbeDB > Technologies > Bead Arrays

Microarray books
(Biowww bookshelf)
microarray technique and analysis


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