Publications

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Last manual update (06/05/21) of work published since starting at Wash U:

  1. Lagunas Jr., T, Plassmeyer, S.P., Friedman, R.Z., Rieger, M.A., Fischer, A.D., Aguilar Lucero, A.F., An, J.-Y., Sanders, S.J., Cohen, B.A., and Dougherty, J.D. A Cre-dependent massively parallel reporter assay allows for cell-type specific assessment of the functional effects of genetic variants in vivo. Biorxiv (2021). doi: 2021.05.17.444514
  2. Nygaard, K.R., Swift, R.G., Glick, R.M., Wagner, R.E., Maloney, S.E., Gould, G.G., and Dougherty, J.D. Oxytocin receptor activation does not mediate associative fear deficits in a Williams Syndrome model. Genes, Brain, Behav (2021). doi: 10.1111/gbb.12750
  3. Lalli, M., Dong, F., Chen, X., Milbrandt, J., Dougherty, J.D., and Mitra, R. Measuring Transcription Factor Binding and Gene Expression using Barcoded Self-Reporting Transposon Calling Cards and Transcriptomes. Biorxiv (2021). doi: 10.1101/2021.04.15.439516
  4. Rahn, R.M, Brier, L.M., Bice, A.R., Reisman, M.D., Dougherty, J.D., and Culver, J.P. Functional connectivity of the developing mouse cortex. Biorxiv (2021). doi: 10.1101/2021.04.04.438377
  5. Rahn, R.M., Weichselbaum, C.T., Gutmann, D.H., Dougherty, J.D., and Maloney, S.E. Shared developmental gait disruptions across two mouse models of neurodevelopmental disorders. J. Neurodev Dis (2021). doi: 10.1186/s11689/021/09359-0
  6. Sakers, K., Liu, Y., Llaci, L., Lee, S.M., Vasek, M.J., Rieger, M.A., Brophy, S., Tycksen, E., Lewis, R., Maloney, S.E., and Dougherty, J.D. Loss of Quaking RNA binding protein disrupts the expression of genes associated with astrocyte maturation in mouse brain. Nat Comm (2021). doi: 10.1038/s41467-021-21703-5 (preprint doi: 10.1101/2020.03.13.991224)
  7. Mulvey, B., and Dougherty, J.D. Transcriptional-Regulatory Convergence Across Functional MDD Risk Variants Identified by Massively Parallel Reporter Assays. Biorxiv (2021). doi: 10.1101/2021.03.05.434177
  8. Luskin, A.T., Bhatti, D.L., Mulvey, B., Pedersen, C.E., Girven, K.S., Oden-Brunson, H., Kimbell, K., Blackburn, T., Sawyer, A., Gereau IV, R.W., Dougherty, J.D., and Bruchas, M.R. Extended amygdala-parabrachial circuits alter threat assessment to regulate feeding. Sci Adv. (2021). doi: 10.1126/sciadv.abd3666 (preprint: 10.1101/2020.03.03.975193)
  9. Minakova, E., Sarafinovska, S., Mikati, M.O., Barclay, K.M., McCullough, K.B., Dougherty, J.D., Al-Hasani, R., and Maloney, S.E. Ontogenetic Oxycodone Exposure Affects Early Life Communicative Behaviors, Sensorimotor Reflexes and Weight Trajectory in Mice. Frontiers in Behavioral Neuroscience (2021). doi: 10.3389/fnbeh.2021.615798
  10. Vasek, M.J., Deajon-Jackson, D.J., Liu, Y., Crosby, H.W., Yi, J., and Dougherty, J.D. Microglia perform local protein synthesis at perisynaptic and phagocytic structures. Biorxiv (2021). doi: 10.1101/2021.01.13.426577
  11. Rieger, M.A., King, D.M., Crosby, H., Liu, Y., Cohen, B.A., and Dougherty, J.D. CLIP and Massively Parallel Functional Analysis of CELF6 Reveal a Role in Destabilizing Synaptic Gene mRNAs through Interaction with 3’UTR Elements. Cell Reports (2020). doi: 10.1016/j.celrep.2020.108531
  12. Christian, D.L., Wu, D.Y., Martin, J.R., Moore, J.R., Liu, Y.R., Clemens, A.W., Nettles, S.A., Kirkland, N.M., Papouin, T, Hill, C.A., Wozniak, D.F., Dougherty, J.D., and Gabel, H.W. DNMT3A Haploinsufficiency Results in Behavioral Deficits and Global Epigenomic Dysregulation Shared across Neurodevelopmental Disorders. Cell Reports (2020). doi: 10.1016/j.celrep.2020.108416
  13. Lalli, M.A., Avey, D., Dougherty, J.D., Milbrandt, J., and Mitra, R.D. High-throughput single-cell functional elucidation of neurodevelopmentald disease-associated genes reveals convergent mechanisms altering neuronal differentiation. Genome Res (2020). doi: 10.1101/gr.262295.120
  14. Moudgil, A., Wilkinson, M.N., Chen, X., He, J.,  Cammack, A.J., Vasek, M.J., Lagunas, T. Jr., Qi, Z., Lalli, M., Guo, C., Morris, S.A., Dougherty, J.D., and Mitra, R.D. Self-Reporting Transposons Enable Simultaneous Readout of Gene Expression and Transcription Factor Binding in Single Cells. Cell (2020). doi: 10.1016/j.cell.2020.06.037
  15. He, Y., Jang, H.S., Xing, X., Li, D., Vasek, M.J., Dougherty, J.D., and Wang, T. DeepH&M: Estimating single-CpG hydroxymethylation and methylation levels from enrichment and restriction enzyme sequencing methods. Sci Adv (2020). doi: 10.1126/sciadv.aba0521
  16. Cammack, A.J., Moudgil, A., Lagunas, T., Vasek, M.J, Shabsovich, M., He, J., Chen, X., Wilkinson, M.N., Miller, T.M., Mitra, R.D., and Dougherty, J.D. A viral toolkit for recording transcription factor-DNA interactions in live mouse tissues. PNAS (2020). doi:10.1073/pnas.1918241117
  17. Akula, S., McCullough, K.B., Weichselbaum, C., Dougherty, J.D., and Maloney, S.E. The trajectory of gait development in mice. Brain Behav. (2020). doi: 10.1002/brb3.1636
  18. Kopp, N.D., Nygaard, K.R., McCullough, K.B., Maloney, S.E., Gabel, H.W., and Dougherty, J.D. Functions of Gtf2i and Gtf2ird1 in the developing brain: transcription, DNA-binding, and long term behavioral consequences. Hum. Mol. Genet (2020). doi: 10.1093/hmg/ddaa070
  19. Anastasaki, C., Wegscheid, M.L., Haritgan, K., Papke, J.B., Kopp, N.D., Chen, J., Cobb, O., Dougherty, J.D., and Gutmann, D.H. Human iPSC-Derived Neurons and Cerebral Organoids Establish Differential Effects of Germline NF1 Gene Mutations. Stem Cell Rep (2020). doi: 10.1016/j.stemcr.2020.03.007
  20. Sapkota, D., Sakers, K., Liu, Y., Lake, A.M., Khazanchi, R., Khankan, R.R., Zhang, Y., and Dougherty, J.D. Activity Dependent Translation in Astrocytes. Biorxiv (2020). doi: 10.1101/2020.04.08.033027
  21. Pomper, N., Liu, Y., Hoye, M.L., Dougherty, J.D., and Miller, T.M. CNS microRNA Profiles: A Database for Cell Type Enriched microRNA Expression Across the Mouse Central Nervous System. Sci Rep (2020). doi: 10.1038/s41598-020-61307-5
  22. Mulvey, B., Lagunas, T., and Dougherty, J.D. Massively Parallel Reporter Assays: Defining Functional Psychiatric Genetic Variants across Biological Contexts. Biological Psychiatry (2020). doi: 10.1016/j.biopsych.2020.06.011
  23. Sapkota, D., and Dougherty, J.D. An inducible Cre mouse line to sparsely target nervous system cells, including Remak Schwann cells. Neural Development (2020). doi: 10.1186/s13064-020-00140-y
  24. Rahn, R.M., Maloney, S.E., Brier, L.M., Dougherty, J.D., and Culver, J.P. Maternal fluoxetine exposure alters cortical hemodynamic and calcium response of offspring to somatosensory stimuli. eNeuro (2019). doi: 10.1523/ENEURO.0238-19.2019
  25. Samara, A., Rahn, R., Neyman, O., Park, K.Y., Samara, A., Marshall, B., Dougherty, J.D., and Hershey, T. Developmental hypomyelination in Wolfram syndrome: new insights from neuroimaging and gene expression analyses. Orphanet J. Rare Dis. (2019). doi: 10.1186/s13023-019-1260-9
  26. Li, Z., Farias, F.G., Dube, U., Del-Aguila., J.L., Mihindukulasuriya, K.A.,Fernandez, M.V., Ibanez, L., Budde, J.P., Wang, F., Lake, A.M., Deming, Y., Perez, J., Yang, C., Bahena, J.A., Q, W., Bradley, J.L., Davenport, R., Bergmann, K., Morris, J.C., Perrin, R.J., Benitez, B.A., Dougherty, J.D., Harari, O., and Cruchaga, C. The TMEM106B rs1990621 protective variant is also associated with increased neuronal proportion. Acta Neuropathol. (2019). doi: 10.1007/s00401-019-02066-0
  27. Kopp, N.D., McCullough, K., Maloney, S.E., and Dougherty, J.D. Gtf2i and Gtf2ird1 mutation do not account for the full phenotypic effect of the Williams syndrome critical region in mouse models. Hum Mol Genet. (2019). doi: 10.1093/hmg/ddz176
  28. Frye, H.E., Williams, S.B., Trousdale, C.R., Nelson, E.C., Dougherty, J.D., and Morón, J.A. Cornichon Homolog-3 (CNIH3) Modulates Spatial Memory in Female Mice. Biorxiv (2019). doi: 10.1101/724104
  29. Parker, K.E., Pedersen, C.E., Gomez, A.M., Spangler, S.M., Walicki, M.C., Feng, S.Y., Stewart, S.L, Otis, J.M, Al-Hasani, R., McCall, J.G., Sakers, K., Bhatti, D.L., Copits, B.A., Gereau, R.W., Jhou, T., Kash, T.J, Dougherty, J.D., Stuber, G.D., and Bruchas, M.R. A Paranigral VTA Nociceptin Circuit that Constrains Motivation for Reward. Cell (2019). doi: 10.1016/j.cell.2019.06.034
  30. Nygaard, K.R., Maloney, S.E., and Dougherty, J.D. Erroneous inference based on a lack of preference within one group: autism, mice, and the Social Approach Task. Autism Res. (2019). doi: 10.1002/aur.2154
  31. Maloney, S.E., Rieger, M.A., Al-Hasani, R., Bruchas, M.R., Wozniak, D.F., and Dougherty, J.D. Loss of CELF6 RNA binding protein impairs cocaine conditioned place preference and contextual fear conditioning. Genes Brain Behavior (2019). doi: 10.1111/gbb.125933
  32. Del-Aguila, J.L., Li, Z., Dube, U., Mihindukulasuriya, K.A., Budde, J.P., Fernandez, M.V., Ibanez, L., Bradley, J., Wang, F., Bergmann, K., Davenport, R., Morris, J.C., Hotlzman, D.M., Perrin, R.J., Benitez, B.A., Dougherty, J.D., Cruchaga, C., and Harari, O. A single-nuclei RNA sequencing study of Mendelian and sporadic AD in the human brain. Biorxiv (2019). doi: 10.1101/593756 Associated single-nucleus RNAseq results browser: snuclRNA-seq
  33. Sapkota, D., Lake, A.M., Yang, W., Yang, C., Wesseling, H., Guise, A., Uncu, C., Dalal, J.S., Kraft, A.W., Lee, J-M., Sands, M.S., Steen, J.A., and Dougherty, J.D. Cell-Type-Specific Profiling of Alternative Translation Identifies Regulated Protein Isoform Variation in the Mouse Brain. Cell Reports (2019). doi: 10.1016/j.celrep.2018.12.077
  34. Ouwenga, R., Lake, A.M., Aryal, S., Lagunas, T., Dougherty, J.D. The differences in local translatome across distinct neuron types is mediated by both baseline cellular differences and post-transcrptional mechanisms. eNeuro (2019). doi: 10.1523/ENEURO.0320-18.2018
  35. Coe, B.P., Stessman, H.A.F., Sulovari, A., Geisheker, M.R., Bakken, T.E., Lake, A.M., Dougherty, J.D., Lein, E.S., Hormozdiari, F., Bernier, R.A., and Eichler, E.E. Neurodevelopmental disease genes implicated by de novo mutation and copy number variation morbidity. Nature Genetics (2019). doi: 10.1038/s41588-018-0288-4
  36. Cheng, C., Deng, P.Y., Ikeuchi, Y., Yuede, C., Li, D., Rensing, N., Huang, J., Baldridge, D., Maloney, S.E., Dougherty, J.D., Constantino, J., Jahani-Asl, A., Wong, M., Wozniak, D.F., Wang, T., Klyachko, V.A., Bonni, A. Characterization of a Mouse Model of Börjeson-Forssman-Lehmann Syndrome. Cell Reports (2018). doi: 10.1016/j.celrep.2018.10.043
  37. Medvedeva, V.P., Rieger, M.A., Vieth, B., Mombereau, C., Ziegenhain, C., Ghosh, T., Cressant, A., Enard, W., Granon, S., Dougherty, J.D., and Groszer, M. Altered social behavior in mice carrying a cortical Foxp2 deletion.  Human Molecular Genetics (2018). doi: 10.1093/hmg/ddy372
  38. Maloney, S.E., Akula, S., Rieger, M.A., McCullough, K.B., Chandler, K., Corbett A.M., McGowin, A.E., and Dougherty, J.D.  Examining the Reversibility of Long-Term Behavioral Disruptions in Progeny of Maternal SSRI Exposure. eNeuro (2018). doi: 10.1523/ENEURO.0120-18.2018
  39. Kopp, N.D., Parrish, P.C.R., Lugo, M., Dougherty, J.D., and Kozel, B.A. Exome sequencing of 85 Williams-Beuren syndrome cases rules out coding variation as a major contributor to remaining variance in social behavior. Molecular Genetics & Genomic Medicine (2018). doi: 10.1002/mgg3.429
  40. Hoye, M.L., Regan, M.R., Jensen, L.A., Lake A.M., Reddy, L.V., Vidensky, S., Richard, J.P., Maragakis, N.J., Rothstein, J.D., Dougherty, J.D., and Miller, T.M. Motor neuron-derived microRNAs cause astrocyte dysfunction in amyotrophic lateral sclerosis. Brain (2018). doi: 10.1093/brain/awy182.
  41. Li, Z., Del-Aguila, J.L., Dube, U., Budde, J., Martinez, R., Black, K., Xiao, Q., Cairns, N.J.; Dominantly Inherited Alzheimer Network (DIAN), Dougherty, J.D., Lee, J.M., Morris, J.C., Bateman, R.J., Karch, C.M., Cruchaga, C., and Harari, O. Genetic variants associated with Alzheimer’s disease confer different cerebral cortex cell-type population structure. Genome Medicine (2018). doi: 10.1186/s13703-018-0551-4
  42. Mulvey, B., Bhatti, D.L., Gyawali, S., Lake, A.M., Kriaucionis, S., Ford, C.P., Bruchas, M.R., Heintz, N., and Dougherty, J.D. Molecular and Functional Sex Differences of Noradrenergic Neurons in the Mouse Locus Coeruleus. Cell Reports (2018). doi: 10.1016/j.celrep.2018.04.054
  43. Avetisyan, M., Rood, J.E., Huerta Lopez, S., Sengupta, R., Wright-Jin, E., Dougherty, J.D., Behrens, E.M., and Heuckeroth, R.O. Muscularis macrophage development in the absence of an enteric nervous system. PNAS (2018). doi: 10.1073/pnas.1802490115
  44. Maloney, S.E., Creeley, C., Hartman, R.E., Yuede, C.M., Zorumski, C.F., Jevtovic-Todorovic, V., Dikranian, K., Noguchi, K.K., and Farber, N.B. Using animal models to evaluate the functional consequences of anesthesia during early neurodevelopment. Neurobiology of Learning and Memory (2018). doi: 10.1016/j.nlm.2018.03.014
  45. Mulvey, B. and Dougherty, J.D. Weaving New Insights for the Genetic Regulation of Human Cognitive Phenotypes. Cell (2018). doi: 10.1016/j.cell.2017.12.037
  46. Barnes, T.D., Rieger, M.A., Dougherty, J.D., and Holy, T.E. Group and Individual Variability in Mouse Pup Isolation Calls Recorded on the Same Day Show Stability. Frontiers in Behavioral Neuroscience (2017). doi: 10.3389/fnbeh.2017.00243
  47. Dougherty, J.D. The Expanding Toolkit of Translating Ribosome Affinity Purification. Journal of Neuroscience (2017). doi: 10.1523/JNEUROSCI.1929-17.2017
  48. Dougherty, J.D., Yang, C., and Lake, A.M. Systems in the Central Nervous System: A Brief Perspective on Essential Recent Advancements. Current Opinions in Systems Biology (2017). doi: 10.1016/j.coisb.2017.04.011
  49. Abernathy D.G., Kim, W.K, McCoy, M.J, Lake, A.M., Ouwenga, R., Lee, S.W., Xing, X., Li, D., Lee, H.J., Heuckeroth, R.O., Dougherty, J.D., Wang, T., and Yoo, A.S. MicroRNAs Induce a Permissive Chromatin Environment that Enables Neuronal Subtype-Specific Reprogramming of Adult Human Fibroblasts. Cell: Stem Cell (2017). doi: 10.1016/j.stem.2017.08.002
  50. Thompson, S.E., Lake, A.M., Kenny, P., Saunders, M., Sakers, K., Iyer, N., Dougherty, J.D., and Sakiyama-Elbert, S.E. Different Mixed Astrocyte Populations Derived from Embryonic Stem Cells have Variable Neuronal Growth Support Capacities. Stem Cells and Development (2017). doi: 10.1089/scd.2017.0121
  51. Maloney, S.E., Chandler, K.C., Anastasaki, C., Rieger, M.A., Gutmann, D.H., and Dougherty, J.D. Characterization of early communicative behavior in mouse models of neurofibromatosis type 1. Autism Research (2017). doi: 10.1002/aur.1853
  52. Ouwenga, R., Lake, A.M., O’Brien, D., Mogha, A., Dani, A., and Dougherty, J.D. Transcriptomic Analysis of Ribosome-Bound mRNA in Cortical Neurites In Vivo. Journal of Neuroscience (2017). doi: 10.1523/JNEUROSCI.3044-16.2017
  53. Dougherty, J.D. Generation and characterization of a mouse line for monitoring translation in dopaminergic neurons. Scientific Reports (2017). doi: 10.1038/s41598-017-08618-2
  54. Chen, W.V., Nwakeze, C.L., Denny, C.A., O’Keeffe, S., Rieger, M.A., Mountoufaris, G., Kimer, A., Dougherty, J.D., Hen, R., Wu, Q., and Maniatis, T. Pcdhαc2 is required for axonal tiling and assembly of serotonergic circuitries in mice. Science (2017). doi: 10.1126/science.aal3231
  55. Sakers, K., Lake, A.M., Khazanchi, R., Ouwenga, R., Vasek, M.J., Dani, A., and Dougherty, J.D. Astrocytes locally translate transcripts in their peripheral processes. Proceedings of the National Academy of Sciences (2017). doi: 10.1073/pnas.1617782114
  56. Hoye, M.L, Koval E.D., Wegener, A.J., Hyman, T.S., Yang, C., O’Brien, D.R., Miller R.L., Cole, T., Schoch, K.M., Shen, T., Kunikata, T., Richard, J.P., Gutmann D.H., Maragakis N.J., Kordasiewicz, H.B., Dougherty, J.D., and Miller, T.M. microRNA profiling reveals marker of motor neuron disease in ALS models. Journal of Neuroscience (2017). doi: 10.1523/JNEUROSCI.3582-16.2017
  57. Dalal, J.S., Yang, C. Sapkota, D., Lake, A.M., O’Brien, D.R., and Dougherty, J.D. Quantitative Nucleotide Level Analysis of Regulation of Translation in Response to Depolarization of Cultured Neural Cells. Frontiers in Molecular Neuroscience (2017). doi: 10.3389/fnmol.2017.00009
  58. Maricque, B.B, Dougherty, J.D., and Cohen, B.A. A genome-integrated massively parallel reporter assay reveals DNA sequence determinants of cis-regulatory activity in neural cells. Nucleic Acids Research (2016). doi: 10.1093/nar/gkw942
  59. Deming, Y., Black, K., Carrell, D., Cai, Y., Del-Aguila, J.L., Fernandez M.V., Budde, J., Ma, S., Saef, B., Howells, B., Bertelsen, S., Huang, K.L., Sutphen, C.L., Tarawneh, R., Fagan, A.M., Holtzman, D.M., Morris, J.C., Goate, A.M., Dougherty, J.D., and Cruchaga, C. Chitinase-3-like 1 protein (CHI3L1) locus influences cerebrospinal fluid levels of YKL-40. BMC Neurology (2017). doi:10.1186/s12883-016-0742-9
  60. Rieger, M.A. and Dougherty, J.D. Analysis of within Subjects Variability in Mouse Ultrasonic Vocalization: Pups Exhibit Inconsistent, State-Like Patterns of Call Production. Frontiers in Behavioral Neuroscience (2016). doi:10.3389/fnbeh.2016.00182
  61. O’Connor, S.D., Cabrera, O.H., Dougherty, J.D., Singh, S., Swiney, B.S.,Salinas-Contreras, P., Farber, N.B., and Noguchi, K.K. Dexmedetominidine Protects Against Glucocorticoid Induced Progenitor Cell Apoptosis in Neonatal Mouse Cerebellum. The Journal of Maternal-Fetal & Neonatal Medicine (2016). doi:10.1080/14767058.2016.1241763
  62. Reddy, A.S., O’Brien, D., Pisat, N., Weichselbaum, C.T., Sakers, K., Lisci, M., Dalal, J.S., and Dougherty, J.D. A Comprehensive Analysis of Cell Type-Specific Nuclear RNA From Neurons and Glia of the Brain. Biological Psychiatry (2016). doi:10.1016/j.biopsych.2016.02.021
  63. Usui, N., Co, M., Harper, M., Rieger, M.A., Dougherty, J. D., and Konopka, G. Sumoylation of FOXP2 Regulates Motor Function and Vocal Communication Through Purkinje Cell Development. Biological Psychiatry (2016). doi:10.1016/j.biopsych.2016.02.008
  64. Wells, A., Kopp, N., Xu, X., O’Brien, D.R., Yang, W., Nehorai, A., Adair-Kirk, T.L., Kopan, R., and Dougherty, J.D. The Anatomical Distribution of Genetic Associations. Nucleic Acids Research (2015). doi:10.1093/nar/gkv1262
  65. Kopp, N., Climer, S., and Dougherty, J.D. Moving From Capstones Toward Cornerstones: Successes and Challenges in Applying Systems Biology to Identify Mechanisms of Autism Spectrum Disorders. Frontiers in Genetics (2015). doi:10.3389/fgene.2015.00301
  66. Araujo, D.J., Anderson, A.G., Berto, S., Runnels, W., Harper, M., Ammanuel, S., Rieger, M.A., Huang, H.-C., Rajkovich, K., Loerwald, K.W., Dekker, J.D., Tucker, H.O., Dougherty, J.D., Gibson, J.R., and Konopka, G. FoxP1 Orchestration of ASD-Relevant Signaling Pathways in the Striatum. Genes & Development (2015). doi:10.1101/gad.267989.115
  67. Gockley, J., Willsey, A.J., Dong, S., Dougherty, J.D., Constantino, J.N., and Sanders, S.J. The Female Protective Effect in Autism Spectrum Disorder Is Not Mediated by a Single Genetic Locus. Molecular Autism (2015). doi: 10.1186/s13229-015-0014-3
  68. Maloney, S.E., Khangura, E., and Dougherty, J.D. The RNA-Binding Protein Celf6 Is Highly Expressed in Diencephalic Nuclei and Neuromodulatory Cell Populations of the Mouse Brain. Brain Structure and Function (2015). doi:10.1007/s00429-015-1005-z
  69. Tupal, S., Rieger, M.A., Ling, G, Park, T.J., Dougherty, J.D., Goodchild, A.K., and Gray, P.A. Testing the role of preBötzinger Complex somatostatin neurons in respiratory and vocal behaviors. European Journal of Neuroscience (2015). doi:10.1111/ejn.12669
  70. Yuan, H. and Dougherty, J.D. Investigation of Maternal Genotype Effects in Autism by Genome-Wide Association. Autism Research (2014). doi: 10.1002/aur.1363
  71. Xu, X., Wells, A.B., O’Brien, D.R., Nehorai, A. and Dougherty, J.D. Cell type-specific expression analysis to identify putative cellular mechanisms for neurogenetic disorders. Journal of Neuroscience (2014). 10.1523/JNEUROSCI.4488-13.2014
  72. Maloney, S.E., Rieger, M.A., Dougherty, J.D. Identifying essential cell types and circuits in Autism. International Review of Neurobiology (2013). doi: 10.1016/B978-0-12-418700-9.00003-4
  73. Gorlich, A., Antolin-Fontes, B., Ables, J.L., Frahm, S., Slimak, M.A., Dougherty, J.D., and Ibanez-Tallon, I. Reexposure to nicotine during withdrawal increases the pacemaking activity of cholinergic habenular neurons. Proceedings of the National Academy of Sciences (2013). doi: 10.1073/pnas.1313103110
  74. Foo, L.C. and Dougherty, J.D. Aldh1L1 is expressed by postnatal neural stem cells in vivo. Glia (2013). doi: 10.1002/glia.22539
  75. Dalal J., Roh J.H., Maloney S.E., Akuffo A., Shah S., Yuan H., Wamsley B., Jones W.B., Strong C.D., Gray P.A., Holtzman D.M., Heintz N., and Dougherty J.D. Translational Profiling of Hypocretin Neurons Identifies Candidate Molecules for Sleep Regulation. Genes & Development (2013). doi: 10.1101/gad.207654.112
  76. Dougherty J.D., Maloney S.E., Wozniak D.F., Rieger M.A., Sonnenblick, L., Coppola, G., Mahieu, N.G., Zhang, J., Cai, J., Patti, G.J., Abrahams, B.S., Geschwind, D.H., and Heintz, N. The disruption of Celf6, a gene identified by translational profiling of serotonergic neurons, results in autism-related behaviors. Journal of Neuroscience (2013). doi: 10.1523/JNEUROSCI.4762-12.2013
  77. Tryon, R.C., Pisat, N., Johnson, S.L., and Dougherty J.D. Development of translating ribosome affinity purification for zebrafish. Genesis (2013). doi: 10.1002/dvg.22363
  78. Dougherty, J.D., Fomchenko, E.I., Afua A. Akuffo, Schmidt, E., Helmy, K.Y., Bazzoli, E., Brennan, C.W., Holland, E.C., and Milosevic, A. Candidate pathways for promoting differentiation and quiescence in of oligodendrocyte progenitor-like cells in glioblastoma. Cancer Research (2012). doi: 10.1158/0008-5472.CAN-11-2632
  79. Dougherty, J.D. Cellomics: Characterization of neural subtypes by high-throughput methods and transgenic mouse models. In: Coppola G (Ed). OMICs in Neuroscience (2013). Oxford University Press.
  80. Dougherty, J.D., Zhang, J., Feng, H., Gong, S., and Heintz, N. (2012). Mouse transgenesis in a single locus with independent regulation for multiple fluorophores. PLoS One (2012). doi: 10.1371/journal.pone.0040511
  81. Tien, A.C., Tsai, H.H., Molofsky, A.V., McMahon, M., Foo, L.C., Kaul, A., Dougherty, J.D., Heintz, N., Gutmann, D.H., Barres, B.A., and Rowitch, D.A.. Regulated temporal-spatial astrocyte precursor cell proliferation involves BRAF signalling in mammalian spinal cord. Development (2012). doi: 10.1242/dev.077214
  82. Fomchenko, E.I., Dougherty, J.D., Helmy, K.Y., Katz, A.M., Pietras, A., Brennan, C. Husel, J.T., Milosevic, A., and Holland, E.C. Recruited cells can become transformed and overtake PDGF-induced murine gliomas in vivo during tumor progression.  PLoS One (2011). doi: 10.1371/journal.pone.0020605

Joe’s work pre-dating the lab:

  1. Dougherty, J. D., Schmidt, E.F., Nakajima, M., and Heintz, N. (2010). Analytical approaches to RNA profiling data for the identification of genes enriched in specific cells. Nucleic Acids Res. 38, 4218-4320.
  2. Doyle J. P.*, Dougherty J.D*, Heiman M., Schmidt E. F., Stevens T. R., Ma G., Bupp S., Shrestha P., Shah R. D., Doughty M. L., Gong S., Greengard P., Heintz N. (2008) Application of a translational profiling approach for the comparative analysis of CNS cell types. Cell. 135, 749-62.
  3. Nakano, I.*, Dougherty, J.D.*, Kim, K., Klement, I., Geschwind, D. H., and Kornblum, H. I. (2007). Phosphoserine phosphatase is expressed in the neural stem cell niche and regulates neural stem and progenitor cell proliferation. Stem Cells 25, 1975-1984.
  4. Groszer, M., Erickson, R., Scripture-Adams, D. D., Dougherty, J. D., Le Belle, J., Zack, J. A., Geschwind, D. H., Liu, X., Kornblum, H. I., and Wu, H. (2006). PTEN negatively regulates neural stem cell self-renewal by modulating G0-G1 cell cycle entry. Proc Natl Acad Sci U S A 103, 111-116.
  5. Dougherty, J. D., Garcia, A. D., Nakano, I., Livingstone, M., Norris, B., Polakiewicz, R., Wexler, E. M., Sofroniew, M. V., Kornblum, H. I., and Geschwind, D. H. (2005). PBK/TOPK, a proliferating neural progenitor-specific mitogen-activated protein kinase kinase. J Neurosci 25, 10773-10785.
  6. Underwood, J. G., Boutz, P. L., Dougherty, J. D., Stoilov, P., and Black, D. L. (2005). Homologues of the Caenorhabditis elegans Fox-1 protein are neuronal splicing regulators in mammals. Mol Cell Biol 25, 10005-10016.
  7. Nakano, I., Paucar, A. A., Bajpai, R., Dougherty, J. D., Zewail, A., Kelly, T. K., Kim, K. J., Ou, J., Groszer, M., Imura, T., et al. (2005). Maternal embryonic leucine zipper kinase (MELK) regulates multipotent neural progenitor proliferation. J Cell Biol 170, 413-427.
  8. Fox, I. J., Paucar, A. A., Nakano, I., Mottahedeh, J., Dougherty, J. D. & Kornblum, H. I. Developmental expression of glial fibrillary acidic protein mRNA in mouse forebrain germinal zones–implications for stem cell biology. Brain research. Developmental brain research 153, 121-125, (2004).
  9. Easterday MC, Dougherty J.D., Jackson RL, Ou J, Nakano I, Paucar AA, Roobini B, Dianati M, Irvin DK, Weissman IL, Terskikh AV, Geschwind DH, Kornblum HI (2003) Neural progenitor genes. Germinal zone expression and analysis of genetic overlap in stem cell populations. Dev Biol 264:309-322.
  10. Geschwind, D. H., Ou, J., Easterday, M. C., Dougherty, J. D, Jackson, R. L., Chen, Z., Antoine, H., Terskikh, A., Weissman, I. L., Nelson, S. F., and Kornblum, H. I. (2001). A genetic analysis of neural progenitor differentiation. Neuron 29, 325-339