154
D. L. Svoboda et al.
8.7 Accessing the DrugMatrix Database
NTP no longer hosts DrugMatrix or ToxFX applications for the public, however, the
complete DrugMatrix database can be downloaded (ftp://anonftp.niehs.nih.gov/ntpcebs/datatype/Drug_Matrix/DrugMatrixPostgreSqlDatabase.tar.gz) and deployed
into a local PostgreSql installation using a dump of the PostgreSQL database. Note
that the uncompressed database is larger than 10 GB.
8.8 Deploying the DrugMatrix and ToxFX Applications
for Local Use
Source code for the DrugMatrix and ToxFX applications have been posted to
Github (DrugMatrix: https://github.com/NIEHS/DrugMatrix; ToxFX: https://github.
com/NIEHS/ToxFX).
Expertise with Java, Tomcat, and database administration will be required to
deploy the applications to a local system. A detailed description on how to deploy
the application within your organization can be found at the above links.
8.9 DrugMatrix Data Reuse
There have been numerous publications that have employed the DrugMatrix data to
glean insight into toxicological processes. These publications are illustrative of what
is possible with a large, well-annotated data set. The publications can be grouped
into toxicity signature derivation [9–20], mechanism of action studies [21–25], data
mining and biological network creation and analysis [14, 20, 26–30] and technology
evaluation [31]. In addition, various components of the DrugMatrix database have
been incorporated into other databases and resources [32–40].
8.10 Conclusion and Future Directions
Members of the National Toxicology Program and NIEHS view the acquisition,
public-access implementation, and development of the DrugMatrix and ToxFX
resources as a step forward in bringing genomics into the arena of regulatory toxicology and furthering the goals of the Tox21 effort to revolutionize toxicology testing.
No doubt further work needs to be done to develop additional tools, and a framework
for the utilization of toxicogenomics data. Having DrugMatrix and ToxFX, together
with their associated background data in the public domain will allow open and crit-
D. L. Svoboda et al.
8.7 Accessing the DrugMatrix Database
NTP no longer hosts DrugMatrix or ToxFX applications for the public, however, the
complete DrugMatrix database can be downloaded (ftp://anonftp.niehs.nih.gov/ntpcebs/datatype/Drug_Matrix/DrugMatrixPostgreSqlDatabase.tar.gz) and deployed
into a local PostgreSql installation using a dump of the PostgreSQL database. Note
that the uncompressed database is larger than 10 GB.
8.8 Deploying the DrugMatrix and ToxFX Applications
for Local Use
Source code for the DrugMatrix and ToxFX applications have been posted to
Github (DrugMatrix: https://github.com/NIEHS/DrugMatrix; ToxFX: https://github.
com/NIEHS/ToxFX).
Expertise with Java, Tomcat, and database administration will be required to
deploy the applications to a local system. A detailed description on how to deploy
the application within your organization can be found at the above links.
8.9 DrugMatrix Data Reuse
There have been numerous publications that have employed the DrugMatrix data to
glean insight into toxicological processes. These publications are illustrative of what
is possible with a large, well-annotated data set. The publications can be grouped
into toxicity signature derivation [9–20], mechanism of action studies [21–25], data
mining and biological network creation and analysis [14, 20, 26–30] and technology
evaluation [31]. In addition, various components of the DrugMatrix database have
been incorporated into other databases and resources [32–40].
8.10 Conclusion and Future Directions
Members of the National Toxicology Program and NIEHS view the acquisition,
public-access implementation, and development of the DrugMatrix and ToxFX
resources as a step forward in bringing genomics into the arena of regulatory toxicology and furthering the goals of the Tox21 effort to revolutionize toxicology testing.
No doubt further work needs to be done to develop additional tools, and a framework
for the utilization of toxicogenomics data. Having DrugMatrix and ToxFX, together
with their associated background data in the public domain will allow open and crit-