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Scholarly Interest Report
         
Jim Dannemiller
Professor
Lynette S. Autrey Professor of Psychology
 
e-mail:dannemil@rice.edu
 
  • B.S. Psychology (1974) Northwestern University, Evanston, IL
  • Ph.D. Developmental Psychology (1983) The University of Texas at Austin, Austin, TX
 
Primary Department
   Department of Psychology
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Department Affiliations
 
  • Department of Psychology
  •  
    Other Affiliations
     
  • University of Texas Medical School at Houston
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    Websites
     Dannemiller Lab
     Dannemiller Lab
     Neuroscience at Rice
     Dannemiller Invision Lab
     Dannemiller Invision Lab
     Dannemiller Lab
     
    Research Areas
     Molecular Genetics
     

    Molecular Genetic Mechanisms in Gene Associations Studies

     

    I have begun to focus my research on the impact of certain molecular genetic mechanisms on gene association studies. I am using primarily simulation (using Markov Chain Monte Carlo, MCMC, and other methods) and formal mathematical and statistical modeling to understand how these mechainisms might affect the magnitudes of the genotype/phenotype associations found in these studies. For example, one such mechanism is called allele specific expression (ASE). The two alleles of a given gene are usually expressed (make their proteins) in a 1:1 ratio. In ASE, however, one of the two alleles is expressed at a level significantly above that of the other allele. Our current methods of doing gene associations studies do not allow for the possibility of ASE. I have been able to show that the presence of ASE can significantly alter the apparent association between genotype and phenotype, mostly reducing the magnitude of the measured association. This work has been presented at the last two conferences of the American Society of Human Genetics and is currently under revision.


    I am now beginning also to explore the possibility that ASE could explain some of the reduced penetrance seen for various gentically-influenced disorders. Reduced penetrance refers to the phenomenon of an apparently Mendelian (i.e., single-gene) disorder affecting less than 100% of those who inherit the disease-causing allele(s). ASE could explain reduced penetrance if the disease-causing allele(s) was in partial linkage disequilibrium (LD) with another allele that regulated in cis the expression of the disease-causing allele(s). LD refers to the fact that genes and regions of genes that are near each other on the same chromosome tend to be inherited together (i.e., there is little or no recombination between these regions). Having a regulatory allele that could produce ASE in partial LD with the disease-causing allele(s) could result in some members of the population having the mutant allele expressed at normal levels and thereby expressing the disorder while other have it underexpressed resulting in little or no change to the wild-type phenotype despite the presence of the disease-causing allele. I have begun to model and simulate the role of ASE in explaining reduced penetrance.

     
    Teaching Areas
     Genes and Cognition, Vision, Visual Attention, Statistics
     
    Selected Publications
     Abstracts
     

    Dannemiller, J. (October, 2016). Modeling the effects of linkage disequilibrium and allele specific expression on genotype/phenotype relations. Annual Meeting of the American Society for Human Genetics, Vancouver, BC, CA.


    http://www.ashg.org/2016meeting/pdf/ASHG2016_Program_complete.pdf
     
     

    Dannemiller, J. L. "Allele Specific Expression Can Substantially Limit Genotype/Phenotype Associations." Annual Conference of the American Society of Human Genetics (2015)

     
     

    Lundwall, R. A., Schmidt, N. L., Van Hulle, C. A., Dannemiller, J. L., & Goldsmith, H. H. "Different Genes Contribute to Aggression in Boys and Girls."  (2015)

     
     

    Dannemiller, J. L. (October, 2014). Allele Specific Expression Can Reduce Apparent Genotype/Phenotype Relations: A Simulation Study. Annual meting of the American Society for Human Genetics, San Diego, CA. 

     
     

    Lundwall, R., Schmidt, N., Van Hulle, C., Dannemiller, J., & Goldsmith, H. (March, 2015). Different genes contribute to aggression in boys and girls. Submitted (2014) to the Bi-ennial meeting of the Society for Research in Child Development, Philadelphia, PA. 

     
     

    Lundwall, R. A., & Dannemiller, J.. L. (2013, June). Visual Attention: Longitudinal Associations in Infancy & Childhood. Oral presentation at the annual meeting of the Child Vision Research Society, Waterloo, Ontario, Canada. 

     
     

    Dannemiller, J. (2012) A gene x gene interaction between COMT and DAT1 in the attentional cost of an invalid visual cue. Journal of Vision, 12(9): 671doi:10.1167/12.9.671

     
     

    Dannemiller, J. L., & Hamel. M. (May, 2009). Perturbations of element orientations reveal grouping processes in contour integration. Annual Meeting of the Vision Sciences Society, Naples, FL.

     
     

    Lundwall, R. A, & Dannemiller, J. L. (November, 2009). Bilateral Visual Orienting with Adults Using a Modified Posner Paradigm and a Candidate Gene Study. Armadillo, Houston, TX.

     
     Refereed articles
     

    Dannemiller, J. L. Allele specific expression and genotype–phenotype associations. In revision for submission to: Statistical Applications in Genetics and Molecular Biology

     
     

    Lundwall, R. A., & Dannemiller, J. L. (2015). Genetic contributions to attentional response time slopes across repeated trials. BMC Neuroscience, 16, 66-88.

     
     

    Lundwall, R. A., Dannemiller, J. L., & Goldsmith, H. H. (2015). Genetic associations with the development of reflexive visual attention. Developmental Science, 1-21.

     
     

    Dannemiller, J. L. Embodied Experience: Tracing Environmental Effects Through the Body's Genes and Biological Pathways. Invited submission: Current Directions in Psychological Science. To be submitted by February 27, 2015.

     
     
    1. Dannemiller, J. L. Implications of allele specific expression for genetic association studies. Submitted to Statistical Applications in Genetics and Molecular Biology

     
     
    1. Lundwall, R. A., & Dannemiller, J. L. Genetic contributions to attentional response time slopes across repeated trials. Submitted to Brain and Cognition

     
     
    1. Lundwall, R. A., Dannemiller, J. L., & Goldsmith, H. H. Genetic associations with the development of reflexive visual attention. Submnitted to Developmental Science

     
     

    Lundwall, R.A,, Guo, D.-C., Dannemiller, J.L. (2012). Exogenous Visual Orienting Is Associated with Specific Neurotransmitter Genetic Markers: A Population- Based Genetic Association Study. PLoS ONE, 7(2): e30731. doi:10.1371/journal.pone.0030731

     
     

    Lundwall, R. A., Guo, D., & Dannemiller, J. L. (in revision). Visual orienting is associated with specific neurotransmitter genetic markers. Journal of Cognitive Neuroscience.

     
     

    Williams, A. L., Lasky, R. E., Dannemiller, J. L., Andrei, A-M., & Thomas, E.J. (2010). Teamwork behaviors and errors during neonatal resuscitation. Quality and Safety in Health Care, 19, 60-64. doi:10.1136/qshc.2007.025320

     
     1.Dannemiller, J. L., & Serlin, R. C. (under review). Some implications of factoring cost into power calculations. Psychological Methods.
     
     1.Schmuckler, M. A., Collimore, L. A., & Dannemiller, J. L. (2007). Infants' reactions to object collision on hit and miss trajectories. Infancy, 12, 105-118.
     
     

    Dannemiller, J. L. (2005). "Evidence against a maximum response model of exogenous visual orienting during early infancy and support for a dimensional switching model." Developmental Science, 8: 567-582.

     
     

    Dannemiller, J. L. (2005). "Motion pop-out in selective visual orienting at 4.5 but not at 2 months in human infants." Infancy, 8: 201-206.

     
     

    Lunsford, M. & Dannemiller, J. L. (2006). "Additive effects in a Rod-and-Frame illusion estimated by Response Classification." Journal of VisionIn Revision

     
     

    Dannemiller, J. L. "Variations in birth weight within in the normal range are related to visual orienting in infancy for boys but not for girls." Infant Behavior and Development, 27 (2004) : 204-215.

     
     

    Petersik, J. T. & Dannemiller, J. L. "Factors influencing the ability to detect motion reversals in rotation simulations." Spatial Vision, 17 (2004) : 201-234.

     
     Articles
     

    Williams, A. L., Lasky, R. E., Dannemiller, J. L., Andrei, A-M., & Thomas, E.J. (In Press). Teamwork behaviors and errors during neonatal resuscitation. Quality and Safety in Health Care.

     
     Dannemiller, J. L., & Brauer, A. (in revision). Dual uninformative cues that differ in intensity produce graded response facilitation. Perception & Psychophysics.
     
     Williams, A. L., Lasky, R. E., Dannemiller, J. L., Andrei, A-M., & Thomas, E.J. (In Press). Teamwork behaviors and errors during neonatal resuscitation. Quality and Safety in Health Care.
     
     Dannemiller, J. L., & Brauer, A. Dual uninformative cues that differ in intensity produce graded response facilitation.
     
     Lunsford, M., & Dannemiller, J. L. (2006). Additive effects in a Rod-and-Frame illusion estimated by Response Classification. Journal of Vision, 6, 366-378.
     
     Book chapters
     

    Dannemiller, J. L. (2009). Perceptual development: color and contrast. In E. B. Goldstein (Ed.), Encyclopedia of Perception. Thousand Oaks, CA: Sage.

     
     Dannemiller, J. L. (in press). Perceptual development: color and contrast. In E. B. Goldstein (Ed.), Encyclopedia of Perception. Thousand Oaks, CA: Sage.
     
     Iliescu, B., & Dannemiller, J. L. (2008). Brain-behavior relationships in early visual development. In C. A. Nelson, & M. Luciana (Eds.), Handbook of developmental cognitive neuroscience, 2nd Edition, pp 221-236. Cambridge: MIT Press.
     
     Iliescu, B., & Dannemiller, J. L. (in press). Brain-behavior relationships in early visual development. In C. A. Nelson, & M. Luciana (Eds.), Handbook of developmental cognitive neuroscience,2nd Edition. Cambridge: MIT Press.
     
     Refereed conference papers
     

    Lundwall, R. A. & Dannemiller, J. L. (2010). Bilateral visual orienting with adults using a modified Posner paradigm and a candidate gene study. Journal of Vision, 10(7): 88.

     
    Creative Works
     Performances - "Come Angels on Wings Above Water"
     A piece of music that I wrote to remember the victims of Hurricane Katrina. You can hear the song and download an mp3 file here: Come Angels on Wings Above Water, Jim Dannemiller, Various folk music venues, (Numerous performances around Houston)
     
     Other - Using Amazon EC-2 Cloud Computing for Research Collaboration
     Set up an linux machine to facilitate a research collaboration with colleagues at UC-Berkeley, James L. Dannemiller, ec2-75-101-157-147.compute-1.amazonaws.com (2008)
     
     Other - Wrote linux shell scrip to have stolen Nokia Internet Tablet report its location via GPS and the internet. Useful for trying to locate a stolen Nokia.
     Have stolen Nokia Internet Tablet automatically "call home" with its location, James L. Dannemiller,
     
     Other - Automatic grading of multiple choice and numerical answer questions using an awk script with text input.
     Collaborated on awk script to do automatic grading, Robert Urquhart & James L. Dannemiller, Rice University & Austin TX (Fall, 2007)
     
    Presentations
     Invited Talks
     

    Lundwall, R. A., & Dannemiller, J.. L. (2013, June). Visual Attention: Longitudinal Associations in Infancy & Childhood. Oral presentation at the annual meeting of the Child Vision Research Society, Waterloo, Ontario, Canada. 

     
     

    Dannemiller, J. L. (June, 2012). Genetic Associations with Visual Orienting in Adults. Invited Seminar: John D. Wiley Seminar Series, Waisman Center, University of Wisconsin - Madison, Madison, WI.

     
     

    "Molecular Genetics of Visual Attention - Invited by Provost Gene Levy to make a presentation to the Rice Academic Affairs Advisory Committee.." (March 23, 2010)

     
     

    "Pollution and Psychological Devlopment." Environmental Health ENST/SOSC 314, Rice University. (October 6, 2009)

     
     Dannemiller, J. L. (December, 2006). Birth weight and infant visual orienting. Developmental Forum, Ben Gurion University, Be'er Sheva, Israel.
     
     Dannemiller, J. L. (November, 2006). Contrast and element density effects in infant visual orienting. Zlotowski Neuroscience Center, Ben Gurion University, Be'er Sheva, Israel.
     
     Dannemiller, J. L. (November, 2006). Modeling visual orienting in human infants. Department of Psychology, Ben Gurion University, Be'er Sheva, Israel.
     
     

    "Competition and Models of Exogenous Orienting by Human Infants." Department of Psychology - Cognoscenti, Texas A & M University. (November 21, 2005)

     
     

    Presented.  "Modeling exogenous orienting in human infants." Department of Neurobiology and Anatomy, UT Medical School Houston. (March 4, 2004)

     
     

    Presented.  "Modeling orienting to multi-element displays in human infants." Optometry School, University of Houston. (October 13, 2004)

     
     Lectures
     

    Guest Lecturer.  "The Publication Process." Mikki Hebl, (02/07/2008)

     
     Panelist
     

    One of two faculty editor panelists.  "An editor's perspective on publishing social science research." Rice Undergraduate Scholars Program, Duncan Hall. (October 5, 2004)

     
     Posters
     

    Dannemiller, J. (October, 2016). Modeling the effects of linkage disequilibrium and allele specific expression on genotype/phenotype relations. Annual Meeting of the American Society for Human Genetics, Vancouver, BC, CA.

     
     

    Dannemiller, J. L. (2015). Allele Specific Expression Can Substantially Limit Genotype/Phenotype Associations. Presentation at the Annual Conference of the American Society of Human Genetics, Baltimore, MD, October 6 - 10, 2015.

     
     

    Lundwall, R. A., Schmidt, N. L., Van Hulle, C. A., Dannemiller, J. L., & Goldsmith, H. H. (2015). Different Genes Contribute to Aggression in Boys and Girls. Presentation at the Society for Research in Child Development, Philadelphia, PA, March 19 – 21, 2015.

     
     

    Dannemiller, J. L. (May, 2012). A Gene X Gene Interaction in the Attentional Cost of an Invalid Visual Cue. Annual Meeting of the Vision Sciences Society, Naples, FL

     
     

    Lundwall, R., Guo, D. & Dannemiller, J. (April, 2011). Visual orienting is associated with specific neuroptransmitter genetic markers. Presented at the Annual Meeting of the Cognitive Neuroscience Society, April, 2011, San Francisco.

     
     

    Lundwall, R. A. & Dannemiller, J. L. (2010). Bilateral visual orienting with adults using a modified Posner paradigm and a candidate gene study. Annual Meeting of the Vision Sciences Society, Napels, FL, May 10, 2010.

     
     

    Thesis Advisor.  "Element grouping with semicircular contours." Annual Meeting of the Vision Sciences Society, Sarasota, FL. (May, 2007) With Melanie Hamel

     
     

    Post-doc advisor.  "Opposite directions of motion enhance the perception of stereoscopic depth." Annual Meeting of the Vision Sciences Society, Sarasota, FL. (May, 2007) With Bogdan Illiescu

     
     

    Thesis advisor.  "The effects of unattended congruency on attended targets." Annual Meeting of the Vision Sciences Society, Sarasota, FL. (May, 2007) With Jennider Boyer

     
     Braun, A., & Dannemiller, J. L. (May, 2006). Dual uninformative cues and graded facilitation. Annual Meeting of the Vision Sciences Society, Sarasota, FL.
     
     Dannemiller, J. L., & Lunsford, M. (May, 2006). Perceptual integration with parabolic contours. Annual Meeting of the Vision Sciences Society, Sarasota, FL.
     
     

    "A contrast polarity heterogeneity effect in infant visual orienting." Vision Sciences Society, Sarasota, FL. (May, 2005)

     
     Seminar Speaker
     

    "Dopaminergic Genes are Associated with Costs in Exogenous Orienting." Cog Tea, Sewall Hall. (December 2, 2009) With Lundwall, Rebecca, A.

     
    Editorial Positions
     Member of the Editorial Board, Infant and Child Development. Wiley Interscience. (2009 - 2009)

     Member of the Editorial Board, Infant and Child Development. John Wiley & Sons Ltd. (2015 - 2015)

     Member of the Editorial Board, Infant and Child Development. Wiley/Blackwell. (2012 - 2012)

     Member of the Editorial Board, Infant and Child Development. Wiley. (2011 - 2011)

     Member of the Editorial Board, Infant and Child Development. Wiley-Blackwell. (2013 - 2014)

     Member of the Editorial Board, Infant and Child Development. Wiley Interscience. (2010 - 2010)

     Editor, Developmental Psychology. American Psychological Association. (2004 - 2004)

     Member of the Editorial Board, Infant and Child Development. (2008 - 2008)

     Member of the Editorial Board, Infant and Child Development. Wiley InterScience. (2006 - 2006)

     Member of the Editorial Board, Infant and Child Development. Wiley Interscience. (2007 - 2007)

     Other, Journal of Experimental Child Psychology. (2008 - 2008)

     Other, (Being Considered for Editor) Monographs of the Society for Research in Child Development. Blackwell. (2004 - 2004)

     Other, Infancy. (2008 - 2008)

     Other, Journal of Vision. (2008 - 2008)

     Other, Investigative Ophthalmology and Vision Science. (2008 - 2008)

    Supervised Theses & Dissertations
     Jennifer Boyer, Masters The influence of unattended information on attended information. (2006) (Thesis Director)

     Chen Sun, First Year Research Project The motion/position illusion in human infants. (2006) (Thesis Director)

     Ruth Wallace, PhD Vibrotactile Perception .... (2007) (Thesis Co-Director)

     Heather Lugar, Masters Reading and fMRI. (2007) (Thesis Co-Director)

     Frank Tamborello, PhD Visual Displays and Visual Salience. (2007) (Thesis Committee Member)

     Mary Portillo, PhD Gestalt and Topological Relations in Oddity Detection. (2007) (Thesis Committee Member)

     Chen Sun, Masters The Motion-Position Illusion. (2007) (Thesis Director)

     Yi Guo, Masters Reading and phonological regularity. (2007) (Thesis Committee Member)

     Wen Zhou, Masters Olfaction and Sexual Sweat. (2007) (Thesis Committee Member)

     Jennifer Boyer, Master, PhD Visual Attention and Crowding. (2007) (Thesis Director)

     Melanie Lunsford, PhD Contour Integration and Response Classification. (2007) (Thesis Director)

     Daniel Glaser, Masters Foraging for Words. (2007) (Thesis Director)

     Rebecca Lundwall, PhD Bilateral Visual Orienting Using a Modified Posner Paradigm and a Candidate Gene Study with Adults.. (2008) (Thesis Director)

     Clayton Stanley, Masters Processes Influencing Visual Search Efficiency in Search Tasks: Spatial, Temporal, and Attentional Dependencies. (2008) (Thesis Committee Member)

     Frank Tamborello, PhD Visual Displays and Visual Salience. (2008) (Thesis Committee Member)

     Ruth Wallace, PhD Visual Influences on Electrotactile Processing: Localizing and Sequencing Crossmodal Interactions. (2008) (Thesis Co-Director)

     Heather Lugar, Masters Gender Specific Neural Correlates of Emotion and Cognition. (2008) (Thesis Director)

     Mary Portillo, PhD Gestalt and Topological Relations in Oddity Detection. (2008) (Thesis Committee Member)

     Yi Guo, Masters Reading and phonological regularity. (2008) (Thesis Committee Member)

     Wen Zhou, Masters Olfaction and Sexual Sweat. (2008) (Thesis Committee Member)

     Jennifer Boyer, PhD Visual Attention and Crowding. (2008) (Thesis Director)

     Melanie Lunsford, PhD Contour Integration and Response Classification. (2008) (Thesis Director)

     Daniel Glaser, Masters Foraging for Words. (2008) (Thesis Director)

     Anna I. Stupina, MS Perceptual Organization in Vision: Emergent Features in Two-Line Space . (2009) (Thesis Committee Member)

     Mary C. Portillo, PhD Grouping and Search Efficiency in Emergent Features and Topological Properties in Human Vision. (2009) (Thesis Committee Member)

     Denise Harvey, MS The Effect of Visual Form on Object Priming in the Fusiform Cortex: Exploring the Roles of Task-Demands and Visual Similarity in Object Recognition. (2009) (Thesis Committee Member)

     Wen Zhou, PhD Human Olfactory Perception and Olfactory Communications of Social Information. (2009) (Thesis Committee Member)

     Sara Haber, PhD Memory and fMRI. (2011) (Thesis Committee Member)

     Ashely Meyer, PhD Testing Effects and Memory. (2011) (Thesis Committee Member)

     Denise Harvey, Masters Object Priming in the Fusiform Cortex: Exploring Effects of Task and Visual Similarity. (2013) (Thesis Committee Member)

     Rebbeca A. Lundwall, Ph.D. Genes and the development of reflexive visual attention. (2013) (Thesis Director)

     Rebecca A. Lundwall, PhD Molecular Genetics of Visual Attention. (2013) (Thesis Director)

     Anna Stupina, Masters Perceptual Organization in Vision: Emergent Features in Two-Line Space. (2013) (Thesis Committee Member)

     Jennifer Chen, Ph. D. Olfactory Perception. (2013) (Thesis Co-Director)

     Rebecca A. Lundwall, Ph. D. Molecular Genetics and the Development of Reflexive Visual Attention. (2013) (Thesis Director)

     Debshila Basu Mallick, Ph.D. An Investigation of Audiovisual Speech Perception as Measured by the McGurk Effect. (2016) (Thesis Co-Director)

     Debshila Basu Mallick, Masters Audiovisual Phonetic Identification Training Improves Multisensory Speech Perception and Increases fMRI Responses in the Superior Temporal Sulcus (STS). (Thesis Co-Director)

     Yu-Hsuan Chang, Masters Chess Performance under Time Pressure: Evidence for the Slow Processes in Speed Chess. (Thesis Committee Member)

    Awards, Prizes, & Fellowships
     Distinguished Visitor - Ben Gurion University, Ben Gurion University (Nov. 13 - Dec. 17, 2006)

    Positions Held
     Lynette S. Autrey Chair in Social Science, Rice University. (2011 - 2011)

     College of Reviewers, NSF. (2015 - 2015)

     Lynette S. Autry Chair in Psychology, Rice University. (2005 - 2005)