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FDA Genomic Tool: ArrayTrack™

A free bioinformatics resource for DNA microarray and systems biology
Allows for the management, analysis and interpretation of omics data within a single package
Utilized by the U.S. FDA for the review of genomic data submissions. [WORD]

Image of microarray slide with beams of light coming out of it

ArrayTrack™ provides an integrated solution for managing, analyzing, and interpreting microarray gene expression data. Specifically, ArrayTrack™ is MIAME (Minimum Information About A Microarray Experiment) supportive for storing both microarray data and experiment parameters associated with a pharmaco- or toxico- genomics study. Many statistical and visualization tools are available with ArrayTrack™. ArrayTrack™ also provides a rich collection of functional information about genes, proteins and pathways for biological interpretation. The primary emphasis of ArrayTrack™ is the direct linking of analysis results with functional information for facilitating the interaction between the choice of analysis methods and the biological relevance of analysis results. Using ArrayTrack™, user can easily select a statistical method applied to a stored microarray data to determine a list of differentially expressed genes and the gene list can be directly linked to pathways and gene ontology for functional analysis.

Go Straight to ArrayTrack™

ArrayTrack™ News

WHAT’s NEW:

Eli Lilly Selects ArrayTrack™ – ArrayTrack™ is a free, publicly available bioinformatics tool developed by the NCTR for FDA research and review of pharmacogenomics data submitted by the sponsors in the Voluntary Genomics Data Submission (VGDS) program. ArrayTrack™ has been expanded to other omics dataset types, and over 100 FDA scientists and reviewers have been trained to use the ArrayTrack™ tools. Recently, Eli Lilly formed an evaluation team of experts for a rigorous review of ArrayTrack's: architectural structure, functional, quality, and security assessments, local installation parameters, ability to support Eli Lilly's clinical gene-expression studies.
Eli Lilly selected the ArrayTrack™ platform for their clinical gene-expression data storage and baseline analysis and further stated, “The level of commitment demonstrated by the ArrayTrack™ group strengthened our confidence in our ability to work together on some of the current gaps in making ArrayTrack™ fully functional for Lilly scientists.” (7/31/2008)
NEW RELEASE: ArrayTrack™ v3.4.0 Release Announcement (1/31/2008 Web version)(6/30/2008 CD version).
A new batch data uploading format, called SimpleTox, is available. SimpleTox was developed based on the SEND v2.3(Standard for Exchange of Nonclinical Data) standard and the SDTM (Study Data Tabulation Model) data model, and as such supports most non-clinical studies in conjunction with DNA microarrays. Data uploaded using SimpleTox is searchable (12/31/2007). Check it out!
The R version of the very popular SAM (Significance Analysis of Microarrays, SAMR v1.25) has been integrated with ArrayTrack™. You can access and run SAM within ArrayTrack™ with a user friendly interface (12/31/2007). Enjoy!
In addition to Windows and UNIX, ArrayTrack™ now supports Linux SuSE 10, Linux RedHat Enterprise 3, Linux Ubuntu 7 (10/31/2007).

WHAT's COMING: Integrating ArrayTrack™ with the JANUS database has begun. This effort will result in a complete data repository solution aggregating and integrating clinical and non-clinical study data together with DNA microarray data (08/29/2007)

ArrayTrack™ tutorials are available (6/20/06).
ArrayTrack™ DrugMatrix initial integration is complete. (6/20/06).
ArrayTrack™-GeneGo MedaCore integration is complete (02/06).
ArrayTrack™-JMP Genomics integration accomplished (12/05). The JMP Genomics software (developed by SAS) is an extension of the classic JMP for analysis of microarray and other omics data. This integration allows data to be exported/imported between ArrayTrack™ and JMP Genomics.
ArrayTrack™-IPA integration: ArrayTrack™ is integrated with Ingenuity Pathways Analysis (IPA) developed by Ingenuity Systems. The integration allows results in ArrayTrack™ (e.g., a list of genes from a microarray experiment) directly link to IPA for analysis. (06/05)
ArrayTrack™-CEBS integration: The National Center for Toxicological Research (NCTR/FDA) and National Institute of Environmental Health Sciences (NIEHS) entered an interagency agreement (IAG) to make ArrayTrack™ and Chemical Effects in Biological Systems (CEBS) developed by NIEHS fully interoperable. The latest versions of the two products will be made publicly available late in calendar year 2005. (05/05)
ArrayTrack™-SAS SDS integration: The National Center for Toxicological Research (NCTR/FDA) establishes Cooperative Research and Development Agreement (CRADA) with SAS Institute Inc. to develop ArrayTrack™ modules to linking functionality of ArrayTrack™ with SAS Scientific Discovery Solution (SDS). (04/05)
ArrayTrack™-PathArt integration: ArrayTrack™ is integrated with PathArt (Jubilant Biosys). Through ArrayTrack™, user can access various pathways provided in PathArt. (08/04)

Help Manual/Tutorials

Image of the cover of the ArrayTrack System User Guide

Download:

Quick Help Manual in 508 compliant PDF format.

Access ArrayTrack™ Tutorials

Help Manual will be available in the near future.

Sample Data

Contact Information

For any collaboration, please contact Dr. Weida Tong @ 870-543-7142 (voice) or weida.tong@fda.hhs.gov.

For assistance in using ArrayTrack contact Feng Qian @ 870-543-7290 (voice) or feng.qian@fda.hhs.gov.

Please address any other questions and suggestions to Dr. Hong Fang @ 870-543-7538 (voice) or hong.fang@fda.hhs.gov

For any technical problems and bugs, please e-mail to NCTR Bioinformatics Support .

For more information, please visit the NCTR/FDA's Center for Toxicoinformatics.

FDA/National Center for Toxicological Research
Web page updated by NCTR Webmaster 2008-Nov-24.