# Selected Publications **Please find** [**here**](https://www.ncbi.nlm.nih.gov/pubmed/?term=Macklis%20JD) **a link to a list of all publications on pubmed.** - Tillman DE, Durak O, Veeraraghavan P, Froberg JE, Wheeler G, Budnik B, Macklis JD. **Sequestration of growth cone surface proteins by cytoplasmic Lrrtm2 introduces** ***de novo*** **amydgala innervation by cerebral cortex associative neurons.** *BioRxiv preprint*. 9 April 2026. [DOI:10.64898/2026.04.08.716720](https://doi.org/10.64898/2026.04.08.716720) - Ozkan A, Padmanabhan HK, Shipman SL, Azim E, Kumar P, Sadegh S, Basak AN, Macklis JD. *2026*. **Directed differentiation of functional corticospinal-like neurons from endogenous SOX6+/NG2+ cortical progenitors.** *eLife*. [DOI:10.7554/eLife.100340](https://doi.org/10.7554/eLife.100340) - Veeraraghavan P, Engmann AK, Hatch JJ, Itoh Y, Nguyen D, Addison T, Macklis JD. *2025*. **Dynamic subtype- and context-specific subcellular RNA regulation in growth cones of developing neurons of the cerebral cortex.** *Nature Neuroscience*. [DOI:10.1038/s41593-025-02173-0](https://doi.org/10.1038/s41593-025-02173-0) - Durak, O\*, Kim, JY\*, Tillman, DE, Itoh, Y, Wettstein, M, Greig, LC, Macklis, JD. *2022*. **ASD gene Bcl11a regulates subcellular RNA localization, associative circuitry, and social behavior.** *bioRxiv*. [DOI:10.1101/2022.10.06.511159](https://doi.org/10.1101/2022.10.06.511159) - Tran TP, Budnik B, Froberg JE, Macklis JD. *2025*. **Cortical projection neurons with distinct axonal connectivity employ ribosomal complexes with distinct protein compositions.** *eLife*. [DOI:10.7554/eLife.107488.1](https://doi.org/10.7554/eLife.107488.1) - Veeraraghavan P, Tillman DE, Ross MI, Macklis JD. *2025*. **Developmental dynamics and axonal transport of cerebral cortex projection neuron mRNAs in vivo.** *bioRxiv*. [DOI:10.1101/2025.04.23.650263](https://doi.org/10.1101/2025.04.23.650263) - Poulopoulos A, Davis P, Brandenburg C, Itoh Y, Galazo MJ, Greig LC, Romanowski AJ, Budnik B, Macklis JD. *2024*. **Symmetry in levels of axon-axon homophilic adhesion establishes topography in the corpus callosum and development of connectivity between brain hemispheres.** *bioRxiv.* [Pubmed: 38585721](https://www.ncbi.nlm.nih.gov/pubmed/38585721) [DOI:10.1101/2024.03.28.587108](https://doi.org/10.1101/2024.03.28.587108) - Itoh Y, Woodworth MB, Greig LC, Engmann AK, Tillman DE, Hatch JJ, Macklis JD. *2025*. **Bcl11b orchestrates subcerebral projection neuron axon development via cell-autonomous, non-cell-autonomous, and subcellular mechanisms.** *eLife*. [DOI:10.7554/eLife.105678.1](https://doi.org/10.7554/eLife.105678.1) - Greig LC, Woodworth MB, Poulopoulos A, Lim S, Macklis JD. *2024*. **BEAM: A combinatorial recombinase toolbox for binary gene expression and mosaic genetic analysis.** *Cell reports.* 43(8):114650. [Pubmed: 39159043](https://www.ncbi.nlm.nih.gov/pubmed/39159043) [DOI:S2211-1247(24)01001-5](https://doi.org/S2211-1247(24)01001-5) - Froberg JE, Durak O, Macklis JD. *2023*. **Development of nanoRibo-seq enables study of regulated translation by cortical neuron subtypes, showing uORF translation in synaptic-axonal genes.** *Cell reports*. 42(9):112995. [Pubmed: 37624698](https://www.ncbi.nlm.nih.gov/pubmed/37624698) [DOI:S2211-1247(23)01006-9](https://doi.org/S2211-1247(23)01006-9) - Galazo MJ, Sweetser DA, Macklis JD. *2023*. **Tle4 controls both developmental acquisition and early post-natal maturation of corticothalamic projection neuron identity.** *Cell reports*. 42(8):112957. [Pubmed: 37561632](https://www.ncbi.nlm.nih.gov/pubmed/37561632) [DOI:S2211-1247(23)00968-3](https://doi.org/S2211-1247(23)00968-3) - Itoh Y, Sahni V, Shnider SJ, McKee H, Macklis JD. *2023*. **Inter-axonal molecular crosstalk via Lumican proteoglycan sculpts murine cervical corticospinal innervation by distinct subpopulations.** *Cell reports*. 42(3):112182. [Pubmed: 36934325](https://www.ncbi.nlm.nih.gov/pubmed/36934325) [DOI:S2211-1247(23)00193-6](https://doi.org/S2211-1247(23)00193-6) - Song JHT, Ruven C, Patel P, Ding F, Macklis JD\*, Sahni V\*. *2022*. **Cbln1 directs axon targeting by corticospinal neurons specifically toward thoraco-lumbar spinal cord.** *bioRxiv*. [DOI:https://doi.org/10.1101/2022.04.06.487184](https://doi.org/https://doi.org/10.1101/2022.04.06.487184) - Engmann AK, Hatch JJ, Nanda P, Veeraraghavan P, Ozkan A, Poulopoulos A, Murphy AJ, Macklis JD. *2022*. **Neuronal subtype-specific growth cone and soma purification from mammalian CNS via fractionation and fluorescent sorting for subcellular analyses and spatial mapping of local transcriptomes and proteomes.** *Nature protocols*. 17(2):222-251. [Pubmed: 35022617](https://www.ncbi.nlm.nih.gov/pubmed/35022617) [DOI:10.1038/s41596-021-00638-7](https://doi.org/10.1038/s41596-021-00638-7) - Sahni V, Itoh Y, Shnider SJ, Macklis JD. *2021*. **Crim1 and Kelch-like 14 exert complementary dual-directional developmental control over segmentally specific corticospinal axon projection targeting.** *Cell reports.* 37(3):109842. [Pubmed: 34686337](https://www.ncbi.nlm.nih.gov/pubmed/34686337) [DOI:S2211-1247(21)01306-1](https://doi.org/S2211-1247(21)01306-1) - Sahni V, Shnider SJ, Jabaudon D, Song JHT, Itoh Y, Greig LC, Macklis JD. *2021*. **Corticospinal neuron subpopulation-specific developmental genes prospectively indicate mature segmentally specific axon projection targeting.** *Cell reports.* 37(3):109843. [Pubmed: 34686320](https://www.ncbi.nlm.nih.gov/pubmed/34686320) [DOI:S2211-1247(21)01307-3](https://doi.org/S2211-1247(21)01307-3) - Diaz JL, Siththanandan VB, Lu V, Gonzalez-Nava N, Pasquina L, MacDonald JL, Woodworth MB, Ozkan A, Nair R, He Z, Sahni V, Sarnow P, Palmer TD, Macklis JD, Tharin S. *2020*. **An evolutionarily acquired microRNA shapes development of mammalian cortical projections.** *Proceedings of the National Academy of Sciences of the United States of America.* 117(46):29113-29122. [Pubmed: 33139574](https://www.ncbi.nlm.nih.gov/pubmed/33139574) [DOI:10.1073/pnas.2006700117](https://doi.org/10.1073/pnas.2006700117) - Poulopoulos A, Murphy AJ, Ozkan A, Davis P, Hatch J, Kirchner R, Macklis JD. *2019*. **Subcellular transcriptomes and proteomes of developing axon projections in the cerebral cortex.** *Nature*. 565(7739):356-360. [Pubmed: 30626971](https://www.ncbi.nlm.nih.gov/pubmed/30626971) [DOI:10.1038/s41586-018-0847-y](https://doi.org/10.1038/s41586-018-0847-y) - Wuttke TV, Markopoulos F, Padmanabhan H, Wheeler AP, Murthy VN, Macklis JD. *2018*. **Developmentally primed cortical neurons maintain fidelity of differentiation and establish appropriate functional connectivity after transplantation.** *Nature neuroscience.* 21(4):517-529. [Pubmed: 29507412](https://www.ncbi.nlm.nih.gov/pubmed/29507412) [DOI:10.1038/s41593-018-0098-0](https://doi.org/10.1038/s41593-018-0098-0) - Galazo MJ, Emsley JG, Macklis JD. *2016*. **Corticothalamic Projection Neuron Development beyond Subtype Specification: Fog2 and Intersectional Controls Regulate Intraclass Neuronal Diversity.** *Neuron*. 91(1):90-106. [Pubmed: 27321927](https://www.ncbi.nlm.nih.gov/pubmed/27321927) [DOI:S0896-6273(16)30203-3](https://doi.org/S0896-6273(16)30203-3) - Greig LC, Woodworth MB, Greppi C, Macklis JD. *2016*. **Ctip1 Controls Acquisition of Sensory Area Identity and Establishment of Sensory Input Fields in the Developing Neocortex.** *Neuron*. 90(2):261-77. [Pubmed: 27100196](https://www.ncbi.nlm.nih.gov/pubmed/27100196) [DOI:S0896-6273(16)00187-2](https://doi.org/S0896-6273(16)00187-2) - Woodworth MB, Greig LC, Liu KX, Ippolito GC, Tucker HO, Macklis JD. *2016*. **Ctip1 Regulates the Balance between Specification of Distinct Projection Neuron Subtypes in Deep Cortical Layers.** *Cell reports.* 15(5):999-1012. [Pubmed: 27117402](https://www.ncbi.nlm.nih.gov/pubmed/27117402) [DOI:S2211-1247(16)30335-7](https://doi.org/S2211-1247(16)30335-7) - Greig LC, Woodworth MB, Galazo MJ, Padmanabhan H, Macklis JD. *2013*. **Molecular logic of neocortical projection neuron specification, development and diversity.** *Nature reviews. Neuroscience.* 14(11):755-69. [Pubmed: 24105342](https://www.ncbi.nlm.nih.gov/pubmed/24105342) [DOI:10.1038/nrn3586](https://doi.org/10.1038/nrn3586) - Czupryn A, Zhou YD, Chen X, McNay D, Anderson MP, Flier JS, Macklis JD. *2011*. **Transplanted hypothalamic neurons restore leptin signaling and ameliorate obesity in db/db mice.** *Science (New York, N.Y.).* 334(6059):1133-7. [Pubmed: 22116886](https://www.ncbi.nlm.nih.gov/pubmed/22116886) [DOI:10.1126/science.1209870](https://doi.org/10.1126/science.1209870)