Publications – Autism and neuroscience

Home »  Publications – Autism and neuroscience



79. Gazestani, V.H., Pramparo, T., Nalabolu, S., Kellman, B.P., Murray, S., Lopez, L., Pierce, K., Courchesne, E., Lewis, N.E. Transcriptional organization of autism spectrum disorder and its connection to ASD risk genes and phenotypic variationNature Neuroscience, accepted (2019). bioRxiv: 10.1101/435917

75. Gazestani, V.H., Lewis, N.E. From Genotype to Phenotype: Augmenting Deep Learning with Networks and Systems BiologyCurrent Opinion in Systems Biology, 15:68-73 (2019). DOI: 10.1016/j.coisb.2019.04.001


66. Lombardo, M.V., Pramparo, T., Gazestani, V., Warrier, V.,  Bethlehem, R.AI., Barnes, C.C., Lopez, L., Lewis, N.E., Eyler, L., Pierce, K., Courchesne, E. Large-scale associations between the leukocyte transcriptome and BOLD responses to speech differ in autism early language outcome subtypesNature Neuroscience, 21, 1680–1688 (2018). DOI: 10.1038/s41593-018-0281-3

59. Courchesne, E., Pramparo, T., Gazestani, V.H., Lombardo, M.V., Pierce, K., Lewis, N.E. (2018) The ASD living biology: From cell proliferation to clinical phenotypeMolecular Psychiatry, 24:88-107. DOI: 10.1038/s41380-018-0056-y 


47. Lombardo, M.V., Courchesne, E., Lewis, N.E., Pramparo, T. Hierarchical cortical transcriptome disorganization in autismMolecular Autism, 8:29 (2017). DOI: 10.1186/s13229-017-0147-7


38. Pramparo, T., Campbell, K., Barnes, C.C., Marinero, S., Solso, S., Young, J., Mayo, M., Dale, A., Ahrens-Barbeau, C., Murray, S.S., Lopez, L., Lewis, N.E., Pierce, K., Courchesne, E. Cell Cycle Networks link Gene Expression Dysregulation, Mutation and Brain Maldevelopment in Autistic ToddlersMolecular Systems Biology,  11: 841 (2015). DOI:10.15252/msb.20156108


30. Busskamp, V.*, Lewis, N.E.*, Guye, P.*, Ng, A.H.M., Shipman, S.L., Byrne, S.M., Sanjana, N.E., Murn, J., Li, Y., Li, S., Stadler, M., Weiss, R., Church, G.M. Rapid neurogenesis through transcriptional activation in human stem cellsMolecular Systems Biology, 10:760 (2014). DOI: 10.15252/msb.20145508. * equal contribution


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9. Lewis, N.E., Schramm, G., Bordbar, A., Schellenberger, J., Andersen, M.P., Cheng, J.K., Patel, N., Yee, A., Lewis, R.A., Eils, R., König, R., Palsson, B.Ø. Large-scale in silico modeling of metabolic interactions between cell types in the human brainNature Biotechnology, 28:1279–1285 (2010). Paper highlighted by Nature Methods (January 2011).

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Patents and patent applications

4. Lewis, N.E., Gazestani, V., Pramparo, T., Courchesne, E. Expression-based diagnosis, prognosis, and treatment of complex diseases. Patent pending – provisional.