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CTD: The Comparative Toxicogenomics Database

Publications/Citing

Contents

  1. Citing CTD
  2. Publications
  3. Presentations
  4. Related Publications from the MDIBL Center for Comparative Toxicology

Citing CTD

Please use the following citation when referring to the Comparative Toxicogenomics Database site in your publications:

Mattingly CJ, Rosenstein MC, Davis AP, Colby GT, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database: a cross-species resource for building chemical–gene interaction networks. Toxicol Sci. 2006 Aug;92(2):587-95.

To cite specific data, please use the following citation:

Curated [chemical–gene interactions|chemical–disease|gene–disease] data were retrieved from the Comparative Toxicogenomics Database (CTD), Mount Desert Island Biological Laboratory, Salisbury Cove, Maine. World Wide Web (URL: http://ctd.mdibl.org/). [Date (month, yr) when you retrieved the data cited].

Publications

  1. Davis AP, Murphy C, Rosenstein MC, Wiegers T, Boyer JL, Mattingly CJ. Using the Comparative Toxicogenomics Database to explore integrated chemical–gene disease relationships: Arsenic as a case study. BMC Medical Genomics. 2007. Submitted.
  2. Gohlke J, et al. The Genetic and Environmental Pathways to Complex Diseases. 2007. Submitted.
  3. Mattingly CJ, Colby GT, Rosenstein MC, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database (CTD): a resource for comparative toxicological studies. J Exp Zoolog A Comp Exp Biol. 2006 Sep 1;305(9):689-92. [PubMed]
  4. Mattingly CJ, Rosenstein MC, Davis AP, Colby GT, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database: a cross-species resource for building chemical–gene interaction networks. Toxicol Sci. 2006 Aug;92(2):587-95. [PubMed]
  5. Mattingly CJ, Colby GT, Rosenstein MC, Forrest JN, Boyer JL. Promoting comparative molecular studies in environmental health research: an overview of the comparative toxicogenomics database (CTD). Pharmacogenomics J. 2004;4(1):5-8. [PubMed]
  6. Mattingly CJ, Colby GT, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database (CTD). Environ Health Perspect. 2003 May;111(6):793-5. [PubMed]

Presentations

  1. Davis AP, Murphy C, Rosenstein MC, Wiegers T, Forrest JN, Boyer JL, Mattingly CJ. Curating the Comparative Toxicogenomics Database: a knowledge and discovery environment for chemical–gene-disease associations. Second International Biocuration Meeting. San Jose, CA, USA. October 25-28, 2007. [Abstract] [Presentation]
  2. Mattingly, CJ. The Comparative Toxicogenomics Database: Promoting Understanding About the Mechanisms of Chemical Actions. Toxicology Division of the American Society for Pharmacology and Experimental Therapeutics (ASPET) “Toxicogenomics Approaches for Evaluating Drug and Chemical Toxicity” Symposium at the Experimental Biology Annual Meeting. Washington, DC, USA. April 2007.
  3. Davis AP, Mattingly CJ, Rosenstein MC, Wiegers T, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database: connecting chemicals, genes, and diseases. Society of Toxicology. Charlotte, NC, USA. March 25-29, 2007. [Abstract] [Poster]
  4. Davis AP, Mattingly CJ, Rosenstein MC, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database: A Public Resource for Chemical-Gene and Chemical-Protein Interactions. EPA Science Forum 2006, U.S Environmental Protection Agency, Washington, DC, USA. May 16-18, 2006.
  5. Mattingly CJ, Rosenstein MC, Davis AP, Colby GC, Forrest JN, Boyer JL. Comparative Toxicogenomics Database (CTD): Promoting Understanding of Chemical–Gene Interactions Keystone: The Molecular and Integrative Basis for Toxic Responses. Victoria, BC. May 2006.
  6. Mattingly CJ, Rosenstein MC, Davis AP, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database (CTD). Society of Toxicology. San Diego, CA, USA. March 2006.
  7. Colby GT, Mattingly CJ, Rosenstein, MC, Forrest JN, Boyer JL. Data Integration in the Comparative Toxicogenomics Database (CTD). Annual meeting of the International Society for Computational Biology. Detroit, MI, USA. June 2005.
  8. Mattingly, CJ. Cross-Species Comparative Approaches to Understanding Chemical–Gene Interactions. 15th International Conference of Comparative Endocrinology. Boston, MA, USA. May 2005.
  9. Mattingly, CJ. Comparative Approaches to Understanding Gene Chemical Interactions. Northland Chapter of the Society of Toxicology Meeting. Minneapolis, MN, USA. April 2005.
  10. Mattingly CJ, Colby GT, Rosenstein MC, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database (CTD). Society of Toxicology. New Orleans, LA, USA. March 2005.
  11. Mattingly, CJ. The Comparative Toxicogenomics Database (CTD): Comparative Molecular Approaches to Environmental Health Research. American Chemical Society National Meeting. Philadelphia, PA, USA. August 2004.
  12. Mattingly, CJ. Comparative Approaches to Understanding Mechanisms of Toxicity: CTD. 2004 World Congress on In Vitro Biology. San Francisco, CA, USA. May 2004.
  13. Mattingly CJ, Colby GT, Rosenstein MC, Forrest JN, Boyer JL. The Comparative Toxicogenomics Database (CTD). Society of Toxicology. Salt Lake City, UT, USA. March 2004.

Top To top of page Related Publications from the MDIBL Center for Comparative Toxicology

  1. Aman JS, Congdon CB, Mattingly CJ. A genetic algorithm approach to motif inference. 2007 (in preparation).
  2. Ballatori N, Madejczyk MS. Transport of nonessential metals across mammalian cell membranes. Topics in Current Genetics. 2006;14:455-483.
  3. Ballatori N, et al. Retention of structural and functional polarity in cultured skate hepatocytes undergoing in vitro morphogenesis. Comp Biochem Physiol B Biochem Mol Biol. 2006 Jun;144(2):167-79. [PubMed]
  4. Boyer JL, et al. Upregulation of a basolateral FXR-dependent bile acid efflux transporter OSTalpha-OSTbeta in cholestasis in humans and rodents. Am J Physiol Gastrointest Liver Physiol. 2006 Jun;290(6):G1124-30. [PubMed]
  5. Cai SY, et al. The farnesoid X receptor FXRalpha/NR1H4 acquired ligand specificity for bile salts late in vertebrate evolution. Am J Physiol Regul Integr Comp Physiol. 2007 Sep;293(3):R1400-9. [PubMed]
  6. Congdon CB, et al. An evaluation of information content as a metric for the inference of putative conserved non-coding regions in DNA sequence using a genetic algorithms approach. IEEE/ACM TCBB, 13 June 2007.
  7. Congdon CB, et al. Preliminary Results for GAMI: A Genetic Algorithms Approach to Motif Inference. CIBCB. 2006:97-104.
  8. Congdon CB, et al. Towards Interactive Visualization for Exploring Conserved Motifs in Noncoding DNA Sequence. Proceedings of Frontiers in the Convergence of Bioscience and Information Technologies 2007. FBIT 2007 (IEEE Press).
  9. Davis AP, Murphy C, Rosenstein MC, Wiegers T, Boyer JL, Mattingly CJ. Using the Comparative Toxicogenomics Database to explore integrated chemical–gene disease relationships: Arsenic as a case study. BMC Medical Genomics. 2007. Submitted.
  10. Forest D, et al. RNA expression in a cartilaginous fish cell line reveals ancient 3' noncoding regions highly conserved in vertebrates. Proc Natl Acad Sci USA. 2007 Jan 23;104(4):1224-9. [PubMed]
  11. Mattingly CJ, Calhoun JD, Planchart AJ. Preliminary investigations indicate that Crot and Abcb genes from the spiny dogfish (Squalus acanthias) are syntenic. Bull MDIBL. 2007;46.
  12. Parton A, et al. Cell and molecular biology of SAE, a cell line from the spiny dogfish shark, Squalus acanthias. Comp Biochem Physiol C Toxicol Pharmacol. 2007 Feb;145(1):111-9. [PubMed]
  13. Shaw JR, et al. Role of glucocorticoid receptor in acclimation of killifish (Fundulus heteroclitus) to seawater and effects of arsenic. Am J Physiol Regul Integr Comp Physiol. 2007 Feb;292(2):R1052-60. [PubMed]
  14. Stanton CR, et al. Arsenic inhibits CFTR-mediated chloride secretion by killifish (Fundulus heteroclitus) opercular membrane. Cell Physiol Biochem. 2006;17(5-6):269-78. [PubMed]
  15. Villalobos AR, Renfro JL. Trimethylamine oxide suppresses stress-induced alteration of organic anion transport in choroid plexus. J Exp Biol. 2007 Feb;210(Pt 3):541-52. [PubMed]
  16. Weber GJ, et al. Mercury and zinc differentially inhibit shark and human CFTR orthologues: involvement of shark cysteine 102. Am J Physiol Cell Physiol. 2006 Mar;290(3):C793-801. [PubMed]