ZFIN Person: Haendel, Melissa A.

ZFIN ID: ZDB-PERS-000914-2

ZFIN ID: ZDB-PERS-000914-2

Haendel, Melissa A.

Email:	haendel@ohsu.edu
URL:
Affiliation:
Address:	Oregon Health & Science University 3181 SW Sam Jackson Park Rd. - LIB Portland, Oregon 97239-3098
Country:	United States
Phone:	(503) 407-5970
Fax:
ORCID ID:	0000-0001-9114-8737

BIOGRAPHY AND RESEARCH INTERESTS

PUBLICATIONS

Thessen, A.E., Marvel, S., Achenbach, J.C., Fischer, S., Haendel, M.A., Hayward, K., Klüver, N., Könemann, S., Legradi, J., Lein, P., Leong, C., Mylroie, J.E., Padilla, S., Perone, D., Planchart, A., Prieto, R.M., Muriana, A., Quevedo, C., Reif, D., Ryan, K., Stinckens, E., Truong, L., Vergauwen, L., Vom Berg, C., Wilbanks, M., Yaghoobi, B., Hamm, J. (2022) Implementation of Zebrafish Ontologies for Toxicology Screening. Frontiers in toxicology. 4:817999

Bone, W.P., Washington, N.L., Buske, O.J., Adams, D.R., Davis, J., Draper, D., Flynn, E.D., Girdea, M., Godfrey, R., Golas, G., Groden, C., Jacobsen, J., Köhler, S., Lee, E.M., Links, A.E., Markello, T.C., Mungall, C.J., Nehrebecky, M., Robinson, P.N., Sincan, M., Soldatos, A.G., Tifft, C.J., Toro, C., Trang, H., Valkanas, E., Vasilevsky, N., Wahl, C., Wolfe, L.A., Boerkoel, C.F., Brudno, M., Haendel, M.A., Gahl, W.A., Smedley, D. (2016) Computational evaluation of exome sequence data using human and model organism phenotypes improves diagnostic efficiency. Genetics in medicine : official journal of the American College of Medical Genetics. 18:608-17

Köhler, S., Schoeneberg, U., Czeschik, J.C., Doelken, S.C., Hehir-Kwa, J.Y., Ibn-Salem, J., Mungall, C.J., Smedley, D., Haendel, M.A., Robinson, P.N. (2014) Clinical interpretation of CNVs with cross-species phenotype data. Journal of Medical Genetics. 51(11):766-72

Haendel, M.A., Balhoff, J.P., Bastian, F.B., Blackburn, D.C., Blake, J.A., Bradford, Y., Comte, A., Dahdul, W.M., Dececchi, T.A., Druzinsky, R.E., Hayamizu, T.F., Ibrahim, N., Lewis, S.E., Mabee, P.M., Niknejad, A., Robinson-Rechavi, M., Sereno, P.C., Mungall, C.J. (2014) Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon. Journal of Biomedical Semantics. 5:21

Van Slyke, C.E., Bradford, Y.M., Westerfield, M., Haendel, M.A. (2014) The zebrafish anatomy and stage ontologies: representing the anatomy and development of Danio rerio. Journal of Biomedical Semantics. 5:12

Köhler, S., Doelken, S.C., Mungall, C.J., Bauer, S., Firth, H.V., Bailleul-Forestier, I., Black, G.C., Brown, D.L., Brudno, M., Campbell, J., Fitzpatrick, D.R., Eppig, J.T., Jackson, A.P., Freson, K., Girdea, M., Helbig, I., Hurst, J.A., Jähn, J., Jackson, L.G., Kelly, A.M., Ledbetter, D.H., Mansour, S., Martin, C.L., Moss, C., Mumford, A., Ouwehand, W.H., Park, S.M., Riggs, E.R., Scott, R.H., Sisodiya, S., Vooren, S.V., Wapner, R.J., Wilkie, A.O., Wright, C.F., Vulto-van Silfhout, A.T., Leeuw, N.D., de Vries, B.B., Washingthon, N.L., Smith, C.L., Westerfield, M., Schofield, P., Ruef, B.J., Gkoutos, G.V., Haendel, M., Smedley, D., Lewis, S.E., and Robinson, P.N. (2014) The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data. Nucleic acids research. 42(1):D966-74

Vasilevsky, N.A., Brush, M.H., Paddock, H., Ponting, L., Tripathy, S.J., Larocca, G.M., and Haendel, M.A. (2013) On the reproducibility of science: unique identification of research resources in the biomedical literature. PeerJ. 1:e148

Dahdul, W.M., Balhoff, J.P., Blackburn, D.C., Diehl, A.D., Haendel, M.A., Hall, B.K., Lapp, H., Lundberg, J.G., Mungall, C.J., Ringwald, M., Segerdell, E., Van Slyke, C.E., Vickaryous, M.K., Westerfield, M., and Mabee, P.M. (2012) A unified anatomy ontology of the vertebrate skeletal system. PLoS One. 7(12):e51070

Dahdul, W.M., Lundberg, J.G., Midford, P.E., Balhoff, J.P., Lapp, H., Vision, T.J., Haendel, M.A., Westerfield, M., and Mabee, P.M. (2010) The teleost anatomy ontology: anatomical representation for the genomics age. Systematic biology. 59(4):369-383

Washington, N.L., Haendel, M.A., Mungall, C.J., Ashburner, M., Westerfield, M., and Lewis, S.E. (2009) Linking Human Diseases to Animal Models Using Ontology-Based Phenotype Annotation. PLoS Biology. 7(11):e1000247

Sprague, J., Bayraktaroglu, L., Bradford, Y., Conlin, T., Dunn, N., Fashena, D., Frazer, K., Haendel, M., Howe, D.G., Knight, J., Mani, P., Moxon, S.A., Pich, C., Ramachandran, S., Schaper, K., Segerdell, E., Shao, X., Singer, A., Song, P., Sprunger, B., Van Slyke, C.E., and Westerfield, M. (2008) The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes. Nucleic acids research. 36:D768-772

Takayama, S., Hostick, U., Haendel, M., Eisen, J., and Darimont, B. (2008) An F-domain introduced by alternative splicing regulates activity of the zebrafish thyroid hormone receptor alpha. General and comparative endocrinology. 155(1):176-189

Mabee, P.M., Arratia, G., Coburn, M., Haendel, M., Hilton, E.J., Lundberg, J.G., Mayden, R.L., Rios, N., and Westerfield, M. (2007) Connecting evolutionary morphology to genomics using ontologies: a case study from Cypriniformes including zebrafish. Journal of experimental zoology. Part B, Molecular and developmental evolution. 308(5):655-668

Mabee, P.M., Ashburner, M., Cronk, Q., Gkoutos, G.V., Haendel, M., Segerdell, E., Mungall, C., and Westerfield, M. (2007) Phenotype ontologies: the bridge between genomics and evolution. Trends in Ecology & Evolution. 22(7):345-350

Chen, X., Moorman, S.J., Wallace, K.N., Pack, M., and Haendel, M.A. (2007) ZFIN Anatomy Working Group: Digestive System. Manually curated data.

Mabee, P.M., Haendel, M.A., Arratia, G., Coburn, M.M., Hilton, E.J, Lundberg, J.G, Mayden, R.L. (2006) ZFIN Anatomy Working Group: Skeletal System. Manually curated data.

Sive, H., Mueller, T., Wullimann, M.F., Kuwada, J.Y., Moorman, S.J., Haendel, M.A. (2006) ZFIN Anatomy Working Group: Nervous System. Manually curated data.

Sprague, J., Bayraktaroglu, L., Clements, D., Conlin, T., Fashena, D., Frazer, K., Haendel, M., Howe, D.G., Mani, P., Ramachandran, S., Schaper, K., Segerdell, E., Song, P., Sprunger, B., Taylor, S., Van Slyke, C.E., and Westerfield, M. (2006) The Zebrafish Information Network: the zebrafish model organism database. Nucleic acids research. 34:D581-585

Haendel, M.A., Tilton, F., Bailey, G.S., and Tanguay, R.L. (2004) Developmental Toxicity of the Dithiocarbamate Pesticide Sodium Metam in Zebrafish. Toxicological sciences : an official journal of the Society of Toxicology. 81(2):390-400

Reyes, R., Haendel, M., Grant, D., Melançon, E., and Eisen, J.S. (2004) Slow degeneration of zebrafish Rohon-Beard neurons during programmed cell death. Developmental Dynamics : an official publication of the American Association of Anatomists. 229(1):30-41

NON-ZEBRAFISH PUBLICATIONS
Haendel, M.A., Vasilevsky, N.A., Wirz, J.A. 2012. Dealing with Data: A Case Study on Information and Data Management Literacy. Plos Biology 10(5): e1001339. doi:10.1371/journal.pbio.1001339

Vasilevsky N, Johnson T, Corday K, Torniai C, Brush M, Segerdell E, Wilson M, Shaffer C, Robinson D, Haendel M. 2012. Research resources: curating the new eagle-i discovery system. Database (Oxford). Mar 20;2012:bar067.

Day-Richter, J., Harris, M.A., Haendel, M.A., The Gene Ontology OBO-Edit Working Group and Lewis, S. 2007. OBO-Edit - An Ontology Editor for Biologists. Bioinformatics.

Haendel, M.A., F. Neuhaus, D.S. Osumi-Sutherland, P.M. Mabee, J.L.V. Mejino, C.J. Mungall and B. Smith. 2007. CARO - The Common Anatomy Reference Ontology. In: Anatomy Ontologies for Bioinformatics: Principles and Practice, A. Burger, D. Davidson and R. Baldock (eds).

Metcalfe S.M., Muthukumarana P.A., Thompson H.L., Haendel M.A., Lyons G.E. 2005. Leukaemia inhibitory factor (LIF) is functionally linked to axotrophin and both LIF and axotrophin are linked to regulatory immune tolerance. FEBS Lett. 579(3):609-14.

Lyons, G.E., Swanson, B.J., Haendel, M.A., and Daniels, J. 2000. Gene trapping in embryonic stem cells in vitro to identify novel developmentally regulated genes in the mouse. Methods Mol Biol. 136:297-307.

Hunter, P.J., Swanson, B.S., Haendel, M.A., Lyons, G.E., and Cross, J.C. 1999. Mrj encodes a DnaJ-related chaperone that is essential for murine placental development. Development. 126:1247-1258.

Yamakawa, K., Huo, Y.K. Haendel, M. A., Huber., R., Cehn, X.N., Lyons, G.E., and Korenburg, J. R. 1998. DS-CAM: A novel member of the immunoglobulin superfamily maps in a Down Syndrome region and is involved in the development of the nervous system. Hum Mol Genet. 7(2):227-37.

Baker*, R.K., Haendel*, M.A., Swanson*, B.J., Shcambaugh, J.C., Micales, B.K., and Lyons, G.E. 1997. In vitro preselection of gene-trapped embryonic stem cell clones for characterizing novel developmentally regulated genes in the mouse. Dev Biol. 185(2):201-214.
*These authors contributed equally to this manuscript.

Haendel, M.A., Bollinger, K.E., and Baas, P.W. 1996. Cytoskeletal changes during neurogenesis in cultures of avian neural crest cells. J Neurocytol. 25:289-301.