ToxExpress® Program References


Updated: November 9th 2012.

ToxExpress® Program was a collaborative program with several large Pharma companies and Gene Logic. Of late, there has been interest in this program by several companies in the Chemical, Environmental, Tobacco and Cosmetic Industry. For those trying to evaluate this program this list of references may be very helpful to see how others have used this program effectively.

http://www.genelogic.com/knowledge-suites/toxexpress-program

2012, 2011, 2010, 2009, 2008, 2007, 2006, 2005, 2004, 2003, 2002, 2001, 2000

*********************************************************************

2012

***********************************************************************

Predictive modeling of chemical hazard by integrating numerical descriptors of chemical structures and short-term toxicity assay data

I Rusyn, A Sedykh, Y Low, KZ Guyton… – Toxicological …, 2012 – Soc Toxicology
 (2011) reported a similar outcome when gene expression data  Evaluation System
[http://toxico.nibio.go.jp/], Chemical Effects in Biological Systems Database [http://www.niehs.
nih.gov/research/resources/databases/cebs/], ToxExpress [http://www.genelogic.com/knowledge 

********************************************************************

2011

*****************************************************************

Quantitative knowledge-based analysis in compound safety assessment

S Bureeva… – Expert Opinion on Drug Metabolism …, 2011 – ingentaconnect.com
 Two compa- nies, GeneLogic and Iconix, developed commercial databases of gene expression
profiles and ‘drug signatures’ for dozens of toxicity end points and hundreds of drugs, known,
respec- tively, as ToxExpress Ò Program [26] and DrugMatrix [18]. 

********************************************************************

2010

*****************************************************************

State-of-the-art genomics approaches in toxicology

P Van Hummelen… – Mutation Research/Reviews in Mutation …, 2010 – Elsevier
 for hepatotoxicity based on raw microarray data within ToxExpress ® data base of Gene Logic
Japanese Toxicogenomics Project in which they developed a 112 gene classifier to  GeneLogic’s
ToxExpress ® Program contains a database comprised of over 14,000 drug treated 

15 Toxicogenomic and pathway analysis

B Lu, Y Jiang… – Predictive Toxicology in Drug Safety, 2010 – books.google.com
 In the commercial arena, GeneLogic’s ToxExpress and Entelo’s DrugMatrix are the two major 
DrugMatrix also come from two main data- base vendors Genelogic and Entelos.  toxicity15
DrugMatrix; 5 -day signatures predict 30-day nephrotoxicity10 Gene Logic ToxShield R&D 

[PDF] Toxicogenomics revolution in the optimisation of pharmaceutical drug development and drug safety evaluations

CN Fokunang, EA Tembe-Fokunang… – African Journal of …, 2010 – academicjournals.org
 Gaithersburg, MD, USA) has built a reference database called the ToxExpress™ Module (Wen 
However, gene expression for certain genes might be switched on or off, rather  Finally,
toxicogenomics DB providers such as GeneLogic, CuraGen and Iconix supply software tools 

Predicting hepatotoxicity using cell based assays

LC Mattheakis, JK Trautman, GP Solar… – US Patent …, 2010 – Google Patents
 Med. Biol. 41:523-537, 1996. R. Pepperkok et al., “System for quantitation of gene expression
in single cells by computerized microimaging: Application to c-fos expression after microinjection
of anti-casein kinase II antibody”, Experimental Cell Research 204:278-285, 1993. 


Drug development from natural products: Exploiting synergistic effects

G Ulrich-Merzenich, D Panek, H Zeitler… – Indian journal of …, 2010 – nopr.niscair.res.in
 200 validated gene signature sets Gene Logic www.genelogic.com ToxExpress
ToxExpress™ reference data base predictive system with in in vivo+in vitro models.
Extensive liver toxicity database. Exonhit http://www.exonhit.com 

********************************************************************

2009

*****************************************************************

Methods for determining hepatotoxins

D Mendrick, M Porter, K Johnson, B Higgs… – US Patent …, 2009 – Google Patents
 DL, ToxExpress, FDA-DIA Pharmacogenomics Work- shop May 2002, (2002). Mendrick, D.,
“Discovery of Relevant biomarkers for Nonclinical and Clinical Applications,” American College
of Toxicology Mtg. Nov. 8, 2004, (2004). Mendrick, D., “Rold of Gene Expression Studies 
H Toyoshiba, H Sawada, I Naeshiro… – Toxicology letters, 2009 – Elsevier
 Tong et al., 2003), ArrayExpress at the EBI (Parkinson et al., 2007), the Toxicogenomics Project
(TGP) (Takashima et al., 2006), Iconix DrugMatrix, the GeneLogic ToxExpress and BioExpress,
and the NCBI microarray data repository Gene Expression Omnibus (GEO) (www.ncbi 

[PDF] Toxicogenomics and Cell-based Assays for Toxicology

W TongH Fang… – IBC, 2009 – ibc7.org
 For example, ToxExpress® (http://www.genelogic.com/) and DrugMatrix®
(http://www.iconixbiosciences.com/) are two of the most comprehensive reference
databases available, devel- oped by Gene Logic and Iconix, respectively. 

Toxicogenomics Application to Oncology Drug Development

L Calzolai… – … in Anticancer Drug Development and Clinical …, 2009 – Springer
 ToxExpress Gene Logic Inc.: ToxExpress Module www.genelogic.com PTS CuraGen
Corporation: Predictive http://www.curagen.com/rnd/pts.asp Toxicogenomic Screen GeneMatrix
Iconix Biosciences, Inc.: GeneMatrix http://www.iconixbiosciences.com 

********************************************************************

2008

*****************************************************************

Key Aspects of Toxicogenomic Data Analysis and Interpretation as a Safety Assessment Tool to Identify and Understand Drug‐Induced Toxicity

A Vladimirova… – Toxicogenomics, 2008 – Wiley Online Library
 These include databases from commercial sources, such as Gene– Logic’s ToxExpress R
с System (Castle et al., 2002) (http://www.genelogic.com/genomics/ toxexpress/system.cfm),
and Entelos (formerly Iconix Biosciences) DrugMatrix R с (http:// 

Microarray analysis in rat liver slices correctly predicts in vivo hepatotoxicity

MGL Elferink, P Olinga, AL Draaisma… – Toxicology and applied …, 2008 – Elsevier
 TM (Suite v1.0 and the liver V toxicity prediction model)(Gene Logic, an Ocimum  models to assess
the potential for human hepatotoxicity based on rat gene expression data.  Affymetrix CEL files
for the appropriate treated samples and controls (GeneLogic, www.genelogic.com 
SA Barros… – METHODS IN MOLECULAR BIOLOGY-CLIFTON …, 2008 – Springer
 This chapter describes our internal efforts to develop and evaluate predictive in vitro and in vivo
toxicogenomic models for hepatotoxicity based on the raw microarray data within the ToxExpress®
database (Gene Logic, Inc., Gaithersburg, MD), with the goal of leveraging this 

Toxicogenomics and classic toxicology: how to improve prediction and mechanistic understanding of human toxicity

DL Mendrick – … IN MOLECULAR BIOLOGY-CLIFTON THEN TOTOWA-, 2008 – Springer
 Genomic analysis can detect such events as shown in Fig. 3 and Fig. 4. Studies in Gene
Logic’s (Gaithersburg, MD) ToxExpress® database were used for the analysis. InFig.  A study
was performed using data in Gene Logic’s ToxExpress database. 

Methods for determining renal toxins

D Mendrick, M Porter, K Johnson, B Higgs… – US Patent …, 2008 – Google Patents
 CI. G06F 19/00 (2006.01) The present invention is based on the elucidation of the global
changes in gene expression and the identification of toxicity markers in tissues or cells exposed
to a knownrenal toxin.  Kawamoto, etal., Gene, 174:151-158 (1996). 

Molecular cardiotoxicology modeling

DL Mendrick, MW Porter, KR Johnson… – US Patent …, 2008 – Google Patents
 Pharmacol, 45: 2289-2294 (1993). (Continued) Primary Examiner—Carolyn L. Smith (74) Attorney,
Agent, or Firm—Cooley Godward Kronish LLP (57) ABSTRACT The present invention is based
on the elucidation of the global changes in gene expression and the identification 
W Lin, G Shen, TO Khor… – Hepatotoxicity – Wiley Online Library
 There are some commercial companies, such as ‘GeneLogic ToxExpress‘ and ‘CuraGen’, which
provide commercially available toxicogenomic databases, aiming to improve the prediction of
hep- atotoxicants and human-specific toxicants through gene expression profile 

Use of Toxicogenomics as an Early Predictive Tool for Hepatotoxicity

L Suter – Toxicogenomics, 2008 – Wiley Online Library
 nomics databases such as DrugMatrix R с by Iconix/Entelos (Fielden and Kolaja, 2006) and
ToxExpress R с by Genelogic, and several  Experimental evidence using gene expression profiling
of monkeys treated with ciprofibrate, a PPAR α agonist, revealed clear species 

From Pharmacogenomics to Translational Biomarkers

DL Mendrick – … IN MOLECULAR BIOLOGY-CLIFTON THEN TOTOWA-, 2008 – Springer
 Examination of Kim-1 in human renal diseases was performed using the BioExpress® database
at Gene Logic (Gaithersburg, MD).  Studies from the ToxExpress database were selected to
examine the time course of gene expression change and the results from three 

In Vivo Predictive Toxicogenomics

MW Porter – … IN MOLECULAR BIOLOGY-CLIFTON THEN TOTOWA-, 2008 – Springer
 For commercial predictive service providers such as Gene Logic Inc. (Gaithersburg, MD, USA)
and Iconix Pharmaceuticals Inc.  There is no single way to treat multiple time point data in building
models. Gene Logic has attempted to build models by two methods. 

Pathway analysis tools and toxicogenomics reference databases for risk assessment

B Ganter, N Zidek, PR Hewitt, D Müller… – …, 2008 – Future Medicine
 database of the NIH/NIEHS [64,65,123], ArrayTrack from the FDA/NCTR [66,124], ArrayExpress
at the EBI [67,125] and the NCBI microarray data repository Gene Expression Omnibus (GEO)
[126]. The commercial databases include GeneLogic’s ToxExpress ® System [22,127 

********************************************************************

2007

*****************************************************************

From the bench to the clinic and back again: translational biomarker discovery using in silico mining of pharmacogenomic data

DL Mendrick… – Biomarkers, 2007 – Future Medicine
 translational biomarker. Using Gene Logic’s BioExpress and ToxExpress databases,
the expression of FETUB in multiple species was explored. In Figure 4, the expression
of FETUB in various liver diseases in humans is shown. The 

NOVEL METHODS FOR FUNCTIONAL ANALYSIS OF HIGH-THROUGHPUT EXPERIMENTAL DATA AND GENE GROUPS IDENTIFIED THEREFROM

Y Nikolsky, A Bugrim… – US Patent App. 12/520,441, 2007 – Google Patents
 a microarray platform. Current analytical software and empirical gene expression
reference databases include Iconix DrugMatrix and GeneLogic’s ToxExpress. This
software has relatively low predictive power. However, this 

E Szeto – US Patent 7,251,642, 2007 – Google Patents
 31, 2007 (56) ANALYSIS ENGINE AND WORK SPACE MANAGER FOR USE WITH GENE
EXPRESSION DATA Inventor: Ernest Szeto, Berkeley, CA (US) Assignee: Gene Logic Inc.,
Gaithersburg, MD (US) Notice: Subject to any disclaimer, the term of this patent is extended or 

Predicting hepatotoxicity using cell based assays

LC Mattheakis, JK Trautman, GP Solar… – US Patent …, 2007 – Google Patents
 Med. Biol. 41:523-537, 1996. R. Pepperkok et al., “System for quantitation of gene expression
in single cells by computerized microimaging: Application to c-fos expression after microinjection
of anti-casein kinase II antibody”, Experimental Cell Research 204:278-285, 1993. 

Incorporating genome-based technologies into toxicology and safety assessments for drug discovery and development

LG Yengi – International Journal of Pharmaceutical Medicine, 2007 – ingentaconnect.com
 field was Gene Logic Inc. (Gaithersburg, throughput screening and the human genome project,
which made MD, USA) which, in partnership with a group of pharmaceutical it possible for newly
sequenced clones and transcripts to be easily companies, developed ToxExpress® 1 

********************************************************************

2006

*****************************************************************

Predictive models of hepatotoxicity using gene expression data from primary rat hepatocytes

L Hultin-Rosenberg, S Jagannathan… – …, 2006 – informahealthcare.com
 Expression profiles Expression profiles were obtained by performing directed queries
on the ToxExpress database from Gene Logic (http://www.genelogic.com; Castle et
al. 2002). Profiles were obtained from treatments of hepatocytes 

Toxicogenomics strategies for predicting drug toxicity

R Martin, D Rose, K Yu… – Pharmacogenomics, 2006 – Future Medicine
 Samples for the two knowledge bases were subsets of those available from the
ToxExpress ® database (Gene Logic, Inc., MD, USA). The in vitro knowledgebase
consisted of data derived from rat primary hepatocytes, while 

[CITATION] The ToxExpress™ Module*: applying gene expression data to predictive toxicology

Application of data mining approaches to drug delivery

S Ekins, J Shimada… – Advanced drug delivery reviews, 2006 – Elsevier
 several hundred marketed drugs and toxicants using different array platforms (the Iconix Drug
Matrix™ [60], GeneLogic ToxExpress™ [61] and  connected with molecule bioactivity databases
such as BioPrint, which would combine molecular interactions at the gene level with 

Toxicogenomics and cross-species biomarker discovery: applications in drug discovery and safety assessment

MS Orr – Toxicology Mechanisms and Methods, 2006 – informahealthcare.com
 At Gene Logic Inc., Affymetrix GeneChips® microarrays were used to identify dysregulated
secreted genes in human or rat samples. Comparisons of the dysregulated genes identified in
either the human (BioExpress® database) or rat studies (ToxExpress® database) were 

MOLECULAR CARDIOTOXICOLOGY MODELING

DL Mendrick… – US Patent App. 12/064,933, 2006 – Google Patents
 CI. C12Q 1/68 (2006.01) (52) US CI 435/6 (57) ABSTRACT The present invention includes
methods of predicting car- diotoxicity of test agents and methods of generating car- diotoxicity
prediction models using algorithms for analyzing quantitative gene expression information. 

Toxicogenomics in drug discovery and development: mechanistic analysis of compound/class-dependent effects using the DrugMatrix® database

B Ganter, RD Snyder, DN Halbert… – Pharmacogenomics, 2006 – Future Medicine
 Since the most effective application of toxicogenomics requires generation of high content gene
expression data on large numbers of reference compounds, and therefore  Commercial
toxicogenomic databases include GeneLogic’s (MD, USA) ToxExpress™ Module [47,205 

Predicting hepatotoxicity using cell based assays

LC Mattheakis, JK Trautman, GP Solar… – US Patent App. 11/ …, 2006 – Google Patents
 See “Serious liver injury: leading reasons for drug removals, restrictions” http://www.fda.gov/fdac/
features/ 2001/301_liver.html; and ToxExpress™ Application Note, GeneExpress ToxExpress
Predictive System™, Gene Logic, Gaithersburg, Md. (2002). 

Tissue and species distribution of the glutathione pathway transcriptome

WB Mattes, KK Daniels, M Summan, ZA Xu… – …, 2006 – informahealthcare.com
 arrays. Rat and canine gene expression data are resident in Gene Logic’s ToxExpress®
System Database, whereas mouse gene expression data are found within Gene Logic’s
BioExpress® System Database. Affymetrix probesets 

********************************************************************

2005

*****************************************************************


The use of toxicogenomic data in risk assessment: a regulatory perspective

VSW Chan, MD Theilade – Clinical Toxicology, 2005 – informahealthcare.com
 GeneLogic ToxExpress is a consortium of more than seven pharmaceutical companies that
examines samples from rats, dogs, and humans using microarray and traditional toxicity
assessment methods. The group aims to collect data on gene expression changes 

Hepatotoxicity Molecular Models

M Porter, B Higgs, D Mendrick… – US Patent App. 11/ …, 2005 – Google Patents
 Each elec- tronic copy of the Sequence Listing was created on Mar. 28, 2005 with a file size of
5995 KB. The file names are as follows: Copy 1—gene logic 5134-wo.txt; Copy 2—gene logic
5134-wo.txt; Copy 3—gene logic 5134-wo.txt.; and CRF—gene logic 5134-wo.txt. 

Techniques: application of systems biology to absorption, distribution, metabolism, excretion and toxicity

S Ekins, Y Nikolsky… – Trends in pharmacological sciences, 2005 – Elsevier
 Several companies market content databases of gene-expression profiles, histopathology,
multi-parameter clinical chemistry tests and  These include Iconix (Drug Matrix™;
http://www.iconixpharm.com/), GeneLogic (ToxExpress™; http://www.genelogic.com/) [55], 

Toxicogenomics in the pharmaceutical industry: Hollow promises or real benefit?

A Lühe, L Suter, S Ruepp, T Singer… – Mutation Research/ …, 2005 – Elsevier
 In addition to the non-commercial resources, commercial providers, such as Gene Logic,
Inc. (ToxExpress ® ) or Iconix Pharmaceuticals, Inc. (DrugMatrix ® ) offer comprehensive
instruments for assessment of the toxic potential of a compound. 

The role of transcriptome analysis in pre-clinical toxicology

GH Searfoss, TP Ryan… – Current Molecular Medicine, 2005 – ingentaconnect.com
 Prediction of 10 different liver toxicities. Gene Logic www.genelogic.com ToxExpress
Gaithersburg, MD ToxExpress™ reference database predictive system with in vivo and in vitro
models. Extensive liver toxicity database. Multifaceted tools and services. 

Expression genomics and drug development: towards predictive pharmacology

ET Liu – Briefings in functional genomics & proteomics, 2005 – bfg.oxfordjournals.org
 Keywords: transcription, cDNAs, expression signatures, gene regulation, drug effects  It
demonstrated a hierarchy of transcriptional impact, with cell lineage making a greater impact
than biochemical pathways, and, in turn, greater than individual gene effects. 

Prediction methods and databases within chemoinformatics: emphasis on drugs and drug candidates

SÓ Jónsdóttir, FS Jørgensen… – Bioinformatics, 2005 – Oxford Univ Press
 The ToxExpress Reference Database is a toxicogenomic database, which contains gene
expression profiles from known toxicants. This database is built on in vivo and in vitro studies
of exposure to toxicants, and around 110 compounds have been profiled. 

P1 Altered Expression of Gene Products Involved as a Complex in the Endogenous Hepatocarcinogenesis of Rats Fed a Choline-Deficient, L-Amino Acid-Defined …

D Nakae, F Uematsu, Y Hatanaka… – Toxicologic …, 2005 – tpx.sagepub.com
 P1 Altered Expression of Gene Products Involved as a Complex in the Endogenous
Hepatocarcinogenesis of Rats Fed a Choline-Deficient, L-Amino Acid-Defined Diet.  P11 Gene
Expression in Regenerating Rat Liver Following Partial Hepatectomy: A Detailed Time Course. 
N Fletcher, D Wahlström, R Lundberg… – Toxicology and applied …, 2005 – Elsevier
 Clinical chemistry and pathological examination was carried out at Gene Logic Inc.  Dose selection
was designed to encompass the dose at which gene changes were observed using microarray
analyses.  Data are contained within GeneLogic’s Toxexpress database. 

********************************************************************

2004

*****************************************************************

Methods for enhancing gene expression analysis

U Scherf, GD Hoke, DJ Wilson… – US Patent App. 10/ …, 2004 – Google Patents
 MD (US); Daniel J. Wilson, Mississauga (CA); Debra A. Barnes, Frederick, MD (US)
Correspondence Address: MORGAN LEWIS & BOCKIUS LLP 1111 PENNSYLVANIA AVENUE
NW WASHINGTON, DC 20004 (US) (73) Assignee: Gene Logic, Inc., Gaithersburg, MD (21) Appl. 

Gene expression alterations during HGF-induced dedifferentiation of a renal tubular epithelial cell line (MDCK) using a novel canine DNA microarray

DF Balkovetz, ER Gerrard Jr, S Li… – American Journal of …, 2004 – Am Physiological Soc
 The cRNA products were fragmented to 200 nucleotides or less, heated at 99°C for 5 min, and
hybridized for 16 h at 45°C to the ToxExpress GeneChip Canine Array, which was developed
as a custom array by Gene Logic and Pfizer, using Affymetrix standard design 

Molecular cardiotoxicology modeling

DL Mendrick, MW Porter, KR Johnson… – US Patent App. 10/ …, 2004 – Google Patents
 CI. C12Q 1/68 G06F 19/00 (52) US CI (57) (2006.01) (2006.01) ABSTRACT 435/6; 702/20 The
present invention is based on the elucidation of the global changes in gene expression and the
identification of toxicity markers in tissues or cells exposed to a known cardiotoxin. 
K SUMIDA… – ww.sumitomo-chem.co.jp
 Treatment Rat Hepatocyte (Human, Rat) Bioinformatics CuraGen Gene Logic Iconix Company
GeneCalling® Affymetrix GeneChip Amersham CodeLink Gene Expression Platform Predictive
Toxicogenomics Screen (PTS) ToxExpress/ ToxSuite/ ToxScreen DrugMatrix 

Primary rat hepatocyte toxicity modeling

D Mendrick, M Porter, K Johnson… – US Patent App. 10/ …, 2004 – Google Patents
 S. Orr, Gaithersburg, MD (US); Michael Elashoff, Gaithersburg, MD (US) Correspondence Address:
COOLEY GODWARD LLP THE BROWN BUILDING – 875 15TH STREET, NW SUITE 800
WASHINGTON, DC 20005-2221 (US) (73) Assignee: Gene Logic Inc., Gaithersburg, MD 

Methods For Molecular Toxicology Modeling

JC Diggans… – US Patent App. 10/580,423, 2004 – Google Patents
 In a preferred embodiment, the database is a ToxExpress® or BioExpress® database marketed
by Gene Logic Inc., Gaithersburg, Md. [0061] The databases of the invention may be linked
to an outside or external database such as GenBank (www ncbi. 

[BOOK] Analyzing microarray gene expression data

GJ McLachlan, KA Do… – 2004 – books.google.com
Page 1. Analyzing Microarray Gene Expression Data Page 2. This Page Intentionally
Left Blank Page 3. Analyzing Microarray Gene Expression Data Page 4. WILEY
SERIES IN PROBABILITY AND STATISTICS Established 

********************************************************************

2003

*****************************************************************

[CITATION] An introduction to toxicogenomics

ME Burczynski – 2003 – Informa HealthCare

Toxicogenomics takes center stage

J Lehmann – Drug News Perspect, 2003 – journals.prous.com
 Standardization of experimental methods was and continues to be pushed to the extreme limit
to optimize precision and reproducibility in the ToxExpress project led by Gene Logic URLs cited.
Society of Toxicology: http://www.toxicology.org. Gene Logic: www.genelogic.com. 

[CITATION] 12 Predictive Toxicogenomics

MW Porter, AL Castle, MS Orr… – An introduction to …, 2003 – Informa HealthCare

Predicting hepatotoxicity using cell based assays

LC Mattheakis, JK Trautman, GP Solar… – US Patent App. 10/ …, 2003 – Google Patents
 See “Serious liver injury: leading reasons for drug removals, restrictions” http://www.fda.gov/fdac/
features/ 2001/301_liver.html; and ToxExpress™ Application Note, GeneExpress ToxExpress
Predictive System™, Gene Logic, Gaithersburg, Md. (2002). 

Molecular nephrotoxicology modeling

DL Mendrick, MW Porter, KR Johnson… – US Patent App. 10/ …, 2003 – Google Patents
 CI. G06F 19/00 (2006.01) (52) US CI 702/20 (57) ABSTRACT The present invention is based
on the elucidation of the global changes in gene expression and the identification of toxicity
markers in kidney tissues or cells exposed to a known renal toxin. 

[CITATION] The future of Toxicogenomics

JC Rockett – An introduction to toxicogenomics, 2003 – Informa HealthCare

Nucleic acid detection assay control genes

A Castle, B Higgs, M Elashoff… – US Patent App. 10/620,765, 2003 – Google Patents
 Available databases include, but are not limited to, the Gene Logic ToxExpress® database, the
Gene Expression Omni- bus gene expression and hybridization array repository available through
NCBI (www.ncbi.nlm.nih.gov/entrez) and the SAGE™ gene expression database. 
DL Mendrick – Toxicogenomics, 2003 – Springer Verlag

Methods for classification of biological data

AL Castle, MR Elashoff, KR Johnson… – US Patent App. 10/ …, 2003 – Google Patents
 Gaithersburg, MD (US); Kory R. Johnson, Gaithersburg, MD (US); Mark W. Porter, Gaithersburg,
MD (US) Correspondence Address: MORGAN LEWIS & BOCKIUS LLP 1111 PENNSYLVANIA
AVENUE NW WASHINGTON, DC 20004 (US) (73) Assignee: Gene Logic, Inc. 

********************************************************************

2002

*****************************************************************

Toxicogenomics: a new revolution in drug safety

AL Castle, MP Carver… – Drug discovery today, 2002 – Elsevier
 The combination of READS™ and ToxExpress™ (Gene Logic) and GeneChip® (Affymetrix, Santa
Clara, CA, USA) enables the detection of both novel and known genes that respond to toxicants,
as well as validation of interesting genes using Q-RT-PCR. Predictive toxicology. 

System and method for managing gene expression data

V Markowitz, T Topaloglou… – US Patent App. 10/ …, 2002 – Google Patents
 11,2003 (54) SYSTEM AND METHOD FOR MANAGING GENE EXPRESSION DATA (76) Inventors:
Victor Markowitz, Albany, CA (US); Thodoros Topaloglou, Menlo Park, CA (US); Kevin McLoughlin,
Oakland, CA (US); John Campbell, Gaithersburg, MD (US); Dmitry Krylov 
JD Thompson – Drug discovery today, 2002 – Elsevier
 affymetrix.com). Libraries of drug profiles from mammalian cells are also commercially
available from, for example, DrugMatrix (Incyte Genomics, http://www.incyte.com)
and ToxExpress (Gene Logic, http://www.genelogic.com). In 

System and method for retrieving and using gene expression data from multiple sources

V Markowitz, T Topaloglou… – US Patent App. 10/096,645, 2002 – Google Patents
 9,2003 (54) SYSTEM AND METHOD FOR RETRIEVING AND USING GENE EXPRESSION DATA
FROM MULTIPLE SOURCES (76) Inventors: Victor Markowitz, Albany, CA (US); Thodoros
Topaloglou, Menlo Park, CA (US); I-Min Amy Chen, El Cerrito, CA (US) Correspondence 

********************************************************************

2001

*****************************************************************

VM Markowitz… – … and Bioengineering Conference …, 2001 – ieeexplore.ieee.org
 GeneExpress products are available as DataSuites, such as BioExpress and ToxExpress,
which contain data on disease or tissue specific samples (see http://www.genelogic.com/gexpress 
GeneExpress is notable for its size: it includes gene expression data on thousands of 

*****************************************************************

2000

*****************************************************************************

[HTML] Toxico-Logic

A Francis – The Scientist, 2000 – f1000scientist.com
 Clontech 800-662-2566 http://www.clontech.com. Gene Logic 301-987-1700 www.genelogic.
com. Incyte 877-746-2983 http://www.incyte.com.  Gene Logic began developing its ToxExpress
database with Wyeth-Ayerst Research about 18 months ago. 

 

Leave a Reply

Please log in using one of these methods to post your comment:

WordPress.com Logo

You are commenting using your WordPress.com account. Log Out / Change )

Twitter picture

You are commenting using your Twitter account. Log Out / Change )

Facebook photo

You are commenting using your Facebook account. Log Out / Change )

Google+ photo

You are commenting using your Google+ account. Log Out / Change )

Connecting to %s