IS R K The Application of Genomic Dose-Response

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The Application of Genomic Dose-Response

Data in Risk Assessment

IS

K

Harvey Clewell and Rusty Thomas

CIIT Centers for Health Research

1

Overview

• Background

• Alternative Cancer Risk Assessment Approaches

• Applications of Genomics in Risk Assessment

• Examples

• Arsenic

• Issue: location of key dose-dependent transition(s) below observed tumor range

• Formaldehyde

• Issue: relative contribution of genotoxicity vs. cytotoxicity/proliferation

• Genomic Dose-Response Methodology

2

Alternative Dose-Response Approaches under the New EPA Cancer Guidelines

• Linear (default)

– Assumes linear relationship of cancer risk to dose from ED10 (dose associated with 10% increase in tumor incidence) to zero

– Regulation typically based on 1/10,000 to

1/1,000,000 risk

– Most appropriate for directly mutagenic carcinogens with no effect on cell proliferation

– Can greatly overestimate risks for chemicals with a mode of action dominated by cytotoxicity and increased cell proliferation

3

Alternative Dose-Response Approaches under the New EPA Cancer Guidelines

• Biologically Based Dose-Response (BBDR) Model

– Preferred approach in EPA guidelines

– Supports risk estimates below range of observation of tumors

– Requires quantitative data on dose-response for key elements in the mode of action

– Complexity of detailed BBDR description (e.g. formaldehyde) leads to agency concerns about potential uncertainties

4

Biologically Based Cancer Dose Response Model



N



1

1



I



2

A Biologically Motivated Model for Cancer

Goal: capture dose-dependence of critical, rate-limiting processes -- despite a lack of information on the specific biological details

M

Key Capability:

Describes the

Interaction of

Mutation and

Cell Division

- requires data on D/R for

- cytotoxicity/apoptosis

- cell proliferation

- DNA damage

- supports investigation of interactions between key processes

- DNA damage/repair

- cell cycle control

- cytotoxicity/apoptosis

Alternative Dose-Response Approaches under the New EPA Cancer Guidelines

• Margin of Exposure (MoE)

– Point of departure can based on LED10 for tumors or obligatory precursor events

– MoE selected to address human inter-individual variability and uncertainties in the underlying data

– Does not provide quantitative risk estimate

– Requires evidence of nonlinear mode of action (the hard part)

• Issues:

– Alternative / Multiple modes of action

– “Lurking” Genotoxicity

6

Proposed Approach: Biologically Based

Dose-Response Modeling of Genomic Data

• MoE Approach Using Genomic Dose-Response

– It may be a very long time before a fully-developed BBDR model gains acceptance

– Simplified dose-response descriptions that maintain a biological basis may be useful in the near term to inform both mode of action and dose-response

– Basis of simplified approach: nonlinear dose-response analysis of data on genomic alterations in key cell signal pathways

– Combined with quantitative modeling of cell signal pathways, may pave the way to a more detailed BBDR model

7

Excerpt from SOT RASS Tele- Seminar

Presented by Julian Preston (EPA/NHEERL)

Conclusions

• The conduct of quantitative cancer risk assessment that has minimal reliance on default factors requires knowledge of the key events leading to tumor induction.

• The same sorts of information can lead to the development of informative bioindicators of tumor response.

• Whole-genome approaches appear to offer the best chance for success.

• Computational approaches have to be developed in parallel with the experimental methods.

• These key events can be used for the purpose of extrapolations thereby reducing much of the uncertainty currently handicapping the process.

8

Mode of Action from a Systems Biology Perspective:

Chemical Perturbation of Biological Processes

Exposure

Tissue Dose

Biological Interaction

Perturbation

Systems

Inputs

Biological

Function

Molecular Target(s)

(Chemical Mode of Action Link)

Impaired

Function

Adaptation Disease

Morbidity &

Mortality

9

Uses of Genomic Data (1):

Hazard Identification – Use of pattern recognition analysis to identify similarity of gene changes from uncharacterized compound with changes produced by compounds with known effects

- can provide insights into key elements in mode of action

- essentially qualitative

- typically, little consideration given to tissue dosimetry

10

Uses of Genomic Data (2):

Functional Genomics – Characterize interactions of compound with gene regulatory network using temporal analysis and iterative gene over-expression / inhibition

Input

Pulse

Increasing

Stimulus

Growth factor

MAPKKK

MAPKK

MAPK

(Conolly 2004)

can elucidate key elements of cellular dose-response

(e.g., switch-like behaviors)

- time-consuming, requires sophisticated analyses

- modeling of gene regulation is in its infancy

11

Uses of Genomic Data (3):

Dose-Response – Collection of data on genomic responses to a compound over a range of cell/tissue exposure concentrations to identify dose-response for key genomic bio-indicators of response

- provides support for mode of action hypothesis

- requires characterization of tissue dosimetry or phenotypic anchoring

400

(Snow et al. 2002)

300

APE/Ref-1 mRNA

200

100

0

0

Ligase I

5

Pol 

10 15

µM As III

Trx mRNA

20

12

25

Heirarchical Model for Cellular Responses to Stressors (A. Nel)

Stressors (heat, pH change, reactive compounds, etc.)

Normal

Epithelial

Cell

Adaptive

State

Stressed

State

Pathology

Necrosis

Atrophy

Biochemical effects

GSH/GSSG ratio

Interactions with MM

Genomic alterations

HSP proteins

Anti-Apoptotic

Inflammation

Toxicity

DNA-Repair

Proliferative

Apoptotic

Goal of Genomic Dose-Response Modeling:To identify key elements of each state and the points of transition

13

Example of Heirarchical Response:

Effects of Diesel Exhaust Particles on Cells:

(Gilmour et al., 2006, EHP)

14

Example 1: Inorganic Arsenic

PENTAVALENT

SPECIES:

Metabolism of Inorganic Arsenic

O O

H O

As

OH

OH H

3

C

As

OH

OH

O

H

3

C

As OH

CH

3

ARSENATE

METHYL

ARSONIC ACID

DIMETHYL

ARSINIC ACID

TRIVALENT

SPECIES:

OH

H O

As

OH

ARSENITE

MMA(III)

OH

As

H

3

C

OH

METHYL

ARSONOUS ACID

H

3

C

CH

3

As

OH

DIMETHYL

ARSINOUS ACID

15

Evidence for the Carcinogenicity of

Inorganic Arsenic

• Epidemiology: cancer in multiple tissues

• Most common: bladder and lung

• Animal bioassays: equivocal

• Co-carcinogenic

• Mutagenicity:

• Arsenite: clastogenic, co-mutagenic

• MMA(III): genotoxic(?)

• Noncancer toxicity: dermal, vascular

• Proliferation

• Chemical activity: binding to vicinal dithiols

• arsenite, MMA(III)

16

Key Considerations for the Mode of

Action of Inorganic Arsenic

• Tumors from inorganic arsenic observed in human populations at around 500 ppb, but animal bioassays at much higher concentrations have been negative

• Increased tumor risk from inorganic arsenic in drinking water correlates with MMA/DMA ratio

• Suggests role for MMA(III)

• Humans exposed to inorganic arsenic in drinking water have higher concentrations of MMA in urine than rodents

• Rodents: higher DMA

• No evidence of endocrine related tumors in chronically exposed human populations

17

Biologically Based Dose-Response Modeling of Inorganic Arsenic Carcinogenicity

Inorganic

Arsenic

Exposures

Target Tissue

Concentrations of Arsenite

(and Trivalent

MMA)

Biochemical

Targets of

Arsenic

Increased

Mutation

Frequency and Tumors

Dosimetry Modeling Tissue Response Modeling

Putative Mode of Action:

As III / MMA III interactions with key cellular proteins

18

Primary Target Tissue for Arsenic

Carcinogenicity: Urinary Bladder

Proposed Model for Bladder Cancer Progression p53 -

TCCs

Papillary Low-Grade

Non-Invasive

Normal Urothelium

9 -

Papillary High-Grade

Non-Invasive

Carcinoma in situ

9 -

CIS p53 -

Lamina Propria Invasive

Muscle Invasive

Metastases

19

Arsenite Effects and Biological Responses

(+)

(+)

Oxidative

Stress

(+)

Oxidative

Stress

Response

(-)

Proteotoxicity

Arsenite

(+/-)

(+)

DNA repair

Proliferative signaling

Co-exposure to Mutagens

(+/-)

Cell cycle control

Transition thru cycle

Cancer

20

Review of the Literature on the Dose-

Response for the Genomic Effects of

Inorganic Arsenic

• PUBMED literature search concentrating on genomic response in in vitro and in vivo studies

• Prioritization and review of over 300 articles identified

• Population and development of inorganic arsenic genomic database

21

Results of Literature Search

• The database contains information from 161 unique studies evaluating 354 specific genes or proteins.

• 960 specific entries pertaining to specific genes or proteins

• 167 entries pertain to miscellaneous endpoints such as apoptosis, cytotoxicity, or changes in mitotic indexes.

• 1127 total database entries.

22

Summary of the Types of Data Describing Changes in

Gene/Protein Levels Following Arsenic Exposure

Type of Data

Information for specific genes and/or proteins

In vitro data entries

In vitro gene/protein specific information measured in immortalized/cancer cell lines

In vitro gene/protein specific information measured in normal cells

In vivo data entries

In vivo gene/protein specific information measured in immortalized/cancer cell lines

In vivo gene/protein specific information measured in normal cells

Total Number Percentage of Total

354 31%

700

230

470

427

44

383

62%

33%

67%

38%

10%

90%

23

Dose-Response for the In-Vitro Effects of Arsenic in Normal Cells

0.01 uM 0.1 uM 1.0 uM 10 uM 100 uM

Oxidative Stress

Inflammation

Proteotoxicity

Proliferation

DNA Repair

Cell Cycle Control

Apoptosis

Gene Expression:

Trx

Trx Reductase

SOD1

COX-2

HSP-32

AP-1

FGFR4

DDB2 p53

EGR-1 p105 p65

Increase

Fos

Jun

Pol beta

Ligase I

P53

NF-kB p53

HSP-70

VEGF

Myc p70

Erk

PARP-1 Ligase I

CDC25A p21

CDC25B

CDC25C

Casp3

Casp8

Casp9

HSP-60

HSP-27

ERK-1

ERK-2

EGFR

GADD153

SRC

JNK

JNK3

Decrease

HO-1

GSR

TPX-11

IL-8

MT-1

MT-2

NRF-2

Acute increase, chronic decrease

24

High-Concentration (1-100 uM) Arsenic Effects on Cells:

“Apoptosis” (Anti-Neoplastic Agent)

Arsenite

Oxidative Stress

Response

Non-specific Binding to Thiols

Depletion of NPSH

Specific Binding to Vicinal Di-thiols

Ubiquitization

Of key proteins

Inhibition of

DNA Repair Enzymes

(Ligase I)

Proteotoxicity

Response

Inflammatory Response

Proliferative Signaling

Cell Cycle Stasis

Induction of Apoptosis 25

Mid-Concentration (0.1-10 uM) Arsenic Effects on Cells:

“Toxicity” (Cancer, Blackfoot Disease)

Arsenite

Oxidative Stress

Response

Non-specific Binding to Thiols

Depletion of NPSH

Specific Binding to Vicinal Di-thiols

Ubiquitization

Of key proteins

Inhibition of

DNA Repair Enzymes

(Ligase I)

Proteotoxicity

Response

Inflammatory Response

Proliferative Signaling

Cell Cycle Delay

Induction of Apoptosis 26

Low Concentration (0.01-1 uM) Arsenic Effects on Cells:

“Adaptive Response”

Arsenite

Oxidative Stress

Response

Non-specific Binding to Thiols

Depletion of NPSH

Specific Binding to Vicinal Di-thiols

Ubiquitization

Of key proteins

Inhibition of

DNA Repair Enzymes

(PARP-1)

Proteotoxicity

Response

Delay of Apoptosis

Pre-Inflammatory Response

Growth Factor Elaboration

27

EPA / CIIT / EPRI studies on Genomic

Dose-Response for Arsenite in Bladder

In vivo: Drinking water exposures

– Female C57Bl/J mouse (bioassay strain)

– 4 concentrations arsenate plus controls (0.05-50 ppm As)

– Genomic analysis of bladder tissues at 1 and 12 weeks

– Concentrations of all relevant arsenic species

In vitro: Bladder epithelial cell incubations

– Primary bladder epithelial cells

– Multiple concentrations, time-points

– Concentrations of all relevant arsenic species

– Compare mouse and human cells

28

Gene Ontology - Biological Process

29

Preliminary Results of Pilot Study

Biological Process Categories

Up-regulated by 50 ppm Arsenite

Function Name Unique Gene Total positive regulation of apoptosis anterior/posterior pattern formation regulation of transcription, DNA-dependent

6

5

47 nuclear mRNA splicing, via spliceosome cell cycle intracellular protein transport protein folding mRNA processing ubiquitin cycle transcription mitosis carbohydrate metabolism protein modification cytokinesis response to DNA damage stimulus

10

14

13

34

13

14

11

7

7

6

6

7

30

Preliminary Results of Pilot Study

Biological Process Categories

Down-Regulated by 50 ppm

Arsenite

Unique Input

Total Function Name cell-substrate junction assembly collagen catabolism proteolysis and peptidolysis cell-matrix adhesion cell adhesion regulation of cell growth integrin-mediated signaling pathway signal transduction cell differentiation

G-protein coupled receptor protein signaling pathway development transcription regulation of transcription, DNA-dependent

13

5

11

5

5

13

6

5

5

11

13

7

7

31

Dose-Response Characterization

• Develop and test dose-response approach with animal data

– PK: predict or measure tissue concentrations of active moieties in both short-term exposures and bioassays

– PD: link tissue concentration to cellular responses using in

vitro and iv vivo genomic data

• Apply dose-response approach in human

– PK: predict or measure tissue concentrations of active moieties in exposed populations

– PD: link tissue concentrations to signal pathway alterations using in vitro genomic data from human cells

32

Human in vivo

Mouse in vivo

Predict

Urothelial cells

Extend dose-response

Human in vitro

Bladder

Validate ability to predict in vivo

Mouse in vitro

Bladder cells Compare to understand difference in response

Bladder cells

33

Application of Genomic Dose-Response

Data to Refine a Human Risk

Estimate for Arsenic

Anchor in vitro dose-response to in vivo tumor incidence:

• Validate in vitro genomic assays by comparison with data from exposed population in Mongolia (study being conducted by Judy Mumford, EPA)

• Apply human genomic dose response to extend tumor doseresponse below the region of observation

• Proposed approach:

– Point of departure based on lowest LED10 for genomic response associated with non-adaptive response

– MoE selected to consider uncertainty in genomic data and human interindividual variability

34

Hypothetical Impact of Population Variability on Cancer

Dose-Response for Arsenic in Drinking Water

0.01

Average Individual Dose-Response

Sensitive / Resistant Individual Dose-Response

Population Dose-Response

0.001

Linear

0.0001

Extrapolation

0.00001

0.001

Susceptibility

Factors:

- Dietary intake

- Nutritional status

- Other exposures

- selenium

- mutagens

- Genetic factors

- metabolism (GST)

- cell control (P53)

0.01

0.1

Concentration in Drinking Water (mg/L) 35

1.0

Example 2: Formaldehyde

Formaldehyde bioassay results: rat nasal tumors

Kerns et al., 1983

Monticello et al., 1990

0 0.7

2 6 10

Exposure Concentration (ppm)

15

30

20

10

0

60

50

40

36

Cancer Risk Assessment Considerations for Formaldehyde

Increased cell proliferation

Secondary to Cytotoxicity

Tumor

Dosimetry

DNA interactions

DNA-protein cross-links

Adduct formation

Modes of action Effects

37

Predict decrease in risk at low concentrations using J-shaped dose-response of cell replication

DPX dose-response for Rhesus monkey

10

-1

10

-2

10

-3

10

-4

1 2 3

Vmax: 91.02. pmol/mm

3

/min

Km: 6.69 pmol/mm

3 kf: 1.0878 1/min

Tissue thickness

ALWS: 0.5401 mm

MT: 0.3120 mm

NP: 0.2719 mm

5 6

PPM

4 7

95% UCL on KMU

7.00E-04

6.00E-04

5.00E-04

4.00E-04

3.00E-04

2.00E-04

0 1 2 3 4 5 6 7

38

Final risk assessment model: Hockey stick and

95% upper confidence limit on mutagenicity

DPX dose-response for Rhesus monkey

10

-1

10

-2

10

-3

10

-4

1 2 3

Vmax: 91.02. pmol/mm

3

/min

Km: 6.69 pmol/mm

3 kf: 1.0878 1/min

Tissue thickness

ALWS: 0.5401 mm

MT: 0.3120 mm

NP: 0.2719 mm

PPM

4 5 6 7

95% UCL on KMU

5.5000E-04

5.0000E-04

4.5000E-04

4.0000E-04

3.5000E-04

3.0000E-04

2.5000E-04

2.0000E-04

0 1 2 3 4 5 6 7

39

Mechanistic Dose Response Model with Genomic Data

(1)

Dosimetry

Inhaled Formaldehyde

(2) (3)

Tissue Phase Reactions

Cl

2

HOCl + HCl

Normal

Epithelial

Cell

Adaptive

State

Stressed

State

Pathology

Necrosis

Atrophy

Use specific in vivo studies to develop a dose response model for activation of proteotoxic response pathways following formaldehyde exposure and differentiate dose regions that activate cell homeostasis pathways vs. DNA-repair delays and proliferative pressure

40

Formaldehyde Genomics Study Design

Expose F344 rats to 0, 0.7, 2.0, and 6.00 ppm formaldehyde for 3 weeks

Assess dose- and time-dependent genomic changes using rat gene chips from Affymetrix

Evaluate gene family changes for heat shock response

(proteotoxic), oxidative stress, DNA-repair, cell cycling, apoptosis, etc.

Develop qualitative and quantitative models to link genomic changes with cell behaviors

• account for J-shaped cell-proliferation response incorporate dose response of DNA-damage sensors

41

Features of Genomics Study

Hybridized to a Affymetrix Rat Genome 230 2.0 array with over 30,000 probe sets

42

Time

Point

6 hours

Results of Formaldehyde Genomics Study blue: pathology , red: cell proliferation , green: genomics

Controls 0.7 ppm 2 ppm 6 ppm

1 day

5 days no pathology no gene changes at levels 2 to 3

Inflammation

(minimal) at level 1 no gene changes at levels 2 to 3 no pathology no gene changes at levels 2 to 3

Inflammation

(minimal) at level 1 no gene changes at levels 2 to 3 no pathology no increase in

ULLI for any sites at levels 2 or 3 no gene changes at levels 2 to 3 no pathology no increase in ULLI for any sites at levels 2 or 3 no gene changes at levels 2 to 3

Inflammation (minimal) at level 1 some gene changes at levels 2 to 3

Epithelial hyperplasia at level 1 no gene changes at levels 2 to 3

Inflammation and epithelial hyperplasia at level 1

Increased ULLI on lateral wall at level 3 many gene changes at levels 2 to 3

Inflammation (mild) at level 1

Some epithelial hyperplasia of lateral wall at level 2 many gene changes at levels 2 to 3

Inflammation at level 1

Widespread epithelial hyperplasia of lateral wall at level 2 no gene changes at levels 2 to 3

Inflammation, hyperplasia, and squamous metaplasia at level 1

Widespread epithelial hyperplasia of lateral wall at level 2

Increased ULLI for all sites at levels 2 and 3 some gene changes at levels 2 to 3

43

Results of Formaldehyde Genomics Study blue: pathology , red: cell proliferation , green: genomics

Time

Point

Controls 0.7 ppm 2 ppm 6 ppm

8 days Inflammation

(minimal) at level 1

Inflammation

(minimal) at level 1

Inflammation (minimal) at level 1

Inflammation at level 1

Widespread epithelial hyperplasia of lateral wall at level 2

9 days Inflammation

(minimal) at level 1 no pathology Some inflammation and epithelial hyperplasia of lateral wall at level 2

Inflammation at level 1

Widespread epithelial hyperplasia of lateral wall at level 2

19 days Inflammation

(minimal) at level 1 no increase in

ULLI for any sites at levels 2 or 3 no gene changes at levels 2 to 3 no pathology no increase in ULLI for any sites at levels

2 or 3 no gene changes at levels 2 to 3

Some epithelial hyperplasia of lateral wall at level 2 no increase in ULLI for any sites at levels 2 or 3 no gene changes at levels 2 to 3

Inflammation at level 1

Widespread epithelial hyperplasia of lateral wall at level 2 no increase in ULLI for any sites at levels 2 or 3 many gene changes at levels 2 to 3

44

Principal Components Analysis: 0, 0.7, 2 and 6 ppm

General Observations

No genes were significantly altered at 0.7 ppm in any of the exposures, nor were there any differences in pathology in the noses of the 0.7 ppm exposed rats.

Transient gene changes at 2 ppm (at 5 days of exposure only)

Most not altered at the higher concentrations – including circadian rhythm related genes;

A consistent pattern of genes changed at 6 ppm over time

Most of these genes were part of the group of genes altered immediately after the first 15 ppm, 6 hour exposure.

Although only a small number genes were affected by the 6 ppm exposure, the GO categories for the longer exposure 6 ppm include gene families related to apoptosis.

46

Next Step: 90 day inhalation study

Exposures: 6 hours/day, 5 days/week, 13 weeks

Concentrations: 0, 0.7, 2, 6, 10, and 15 ppm

(Same as in cancer bioassay)

Endpoints for which dose-responses will be

Genomics

Pathology

Cell proliferation rates

P53 mutation frequency (NCTR)

Goal: determination of dominant factors in mode of action for carcinogenicity

• genomic alterations cytotoxicity proliferative pressure mutagenicity 47

Formaldehyde Genomics Study

Applications of Results

Differentiate dose regions for adaptive (survival) responses and overt DNA damage responses

Evaluate hypothesis of enhanced mutagenic potency at toxic concentrations as compared to lower concentrations

Provide mechanistic basis for U-shaped proliferation doseresponse noted in bioassay studies

Consider possible implications for low concentration

‘hormesis’ with formaldehyde and other irritants

48

Experimental Methods: Integrating Genomic

Data with Dose-Response Analysis

Gene Expression Dose Response

Data

One-Way Analysis of Variance to

Identify Genes Changing with Dose

Power

Model

Linear

Model

Polynomial

Model (2 ° )

Nested test to Select Best

Polynomial Model

Select Best Model

Remove Genes with BMD > Highest Dose

Group Genes by Gene Ontology

Category

Estimate BMD and BMDL for each

Gene Ontology Category

Polynomial

Model (3 ° )

CIIT

Centers For Health Research

80

60

40

20

Experimental Results: Benchmark Models

Goodness-of-Fit to Transcriptomic Data

120 120.00%

Frequency

Cumulative %

100 100.00%

80.00%

60.00% p > 0.05 for 85% of genes

40.00%

20.00%

0

0 0.05 0.1 0.15 0.2 0.25 0.3 0.35 0.4 0.45 0.5 0.55 0.6 0.65 0.7 0.75 0.8 0.85 0.9 0.95

1

Probability Value of Model Fit

0.00%

50

Examples of Individual Gene

Dose-Responses

ID: 1383471_at

Model: Linear

Fit p-value: 0.0102

ID: 1368215_at

Model: Polynomial 3°

Fit p-value: 0.0502

ID: 1370317_at

Model: Polynomial 2°

Fit p-value: 0.1002

ID: 1371736_at

Model: Power

Fit p-value: 0.4804

51

Experimental Methods: Integrating Genomic

Data with Dose-Response Analysis

Gene Expression Dose Response

Data

One-Way Analysis of Variance to

Identify Genes Changing with Dose

Power

Model

Linear

Model

Polynomial

Model (2 ° )

Nested test to Select Best

Polynomial Model

Select Best Model

Remove Genes with BMD > Highest Dose

Group Genes by Gene Ontology

Category

Estimate BMD and BMDL for each

Gene Ontology Category

Polynomial

Model (3 ° )

52

Defining the Benchmark Response for Gene Expression Changes

1.349*

σ

μ

0.5%

0.5%

11%

μ

0 BMD

Dose (ppm)

53

> BMD

Experimental Results: Benchmark Doses by Gene Ontology Category

Biological process GO Categories with the lowest mean BMD and other selected categories

Biological Process GO Category

Regulation of cell size

Cell growth

Cell division

Taxis

Chemotaxis

Sensory perception

Locomotory behavior

Pattern specification

Wound healing

Chromatin modification

M phase

Monovalent inorganic cation transport

Protein import

Neurophysiological process

Cellular morphogenesis

Negative regulation of transcription,

DNA-dependent

Cell migration

Cellular macromolecule catabolism

Establishment and/or maintenance of chromatin architecture

DNA packaging

Gene

Count

15

14

11

10

10

11

11

10

12

12

12

15

12

28

35

19

34

22

13

13

Mean BMD

4.12

4.38

4.46

4.54

4.54

4.71

4.78

4.89

5.05

5.07

5.08

5.15

5.22

5.27

5.29

5.33

5.33

5.38

5.43

5.43

Standard

Deviation BMD Mean BMDL

2.64

2.52

4.51

1.84

1.84

3.53

3.20

4.26

4.84

2.90

5.53

3.41

2.89

3.15

3.28

4.59

3.45

3.54

3.53

3.53

2.78

2.95

3.02

3.23

3.23

3.36

3.26

3.46

3.50

3.39

3.68

3.43

3.72

3.67

3.72

4.02

3.66

3.60

3.78

3.78

Other Selected GO Categories

DNA repair

Response to DNA damage stimulus

Cell proliferation

Apoptosis

Inflammatory response

Response to unfolded protein

12

24

73

71

16

10

6.81

5.99

7.12

7.21

7.47

7.67

4.21

4.17

4.39

4.29

3.75

3.56

5.22

4.54

4.96

5.12

4.97

5.75

BMD for cell labeling index: 4.9 ppm (Schlosser, Risk Anal., 2003)

BMD for tumors: 6.4 ppm (Schlosser, Risk Anal., 2003)

54

Conclusions: Genomic Dose-Response Analysis

• Merging genomic tools with BMD analysis allows BMDs to be estimated for individual functional categories.

• Preliminary analysis suggests that the BMD estimates for the genomic effects are similar to those observed for cell labeling and tumor incidence.

• The use of genomic data together with BMD analysis may reduce the need for expensive animal bioassays.

• Challenges will be determining which functional categories represent adverse versus adaptive effects.

• Future and ongoing analyses are being performed on arsenic, chloroform, and a receptor-mediated toxicant.

55

Acknowledgements

CIIT

Mel Andersen

Andy Nong

Cecilia Tan

Ed Bermudez

Linda Pluta

Dana Stanley

Chris Learn

Frank Boellmann

Longlong Yang

Todd Page

Tom Halsey

R

IS

K

56

ENVIRON

Robinan Gentry

Bruce Allen

Annette Shipp

EPA

Elaina Kenyon

Mike Hughes

Rory Conolly

Mike Devito

Jeff Gift

Other Collaborators

Jan Yager (EPRI)

Tom O’Connell (UNC)

Russ Wolfinger (SAS)

Funding

EPRI

Formaldehyde Council, Inc.

American Chemistry Council

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