Articles in journals

• Clifford, MA., Kanwal, J., Dzakpasu, R., and Donoghue, MJ. "EphA4 expression promotes network activity and spine maturation in cortical neuronal cultures." Neural Development 6.21 (2011).
• North, HA, Karim, A, Jacquin, M., and Donoghue, MJ. "EphA4 is necessary for spatially selective peripheral somatosensory topography." Developmental Dynamics 239 (2010): 630-8.
• North HA, Zhao X., Kolk, SM., Clifford MA., and Donoghue, MJ. "Promotion of Proliferation in the Developing Cerebral Cortex by EphA4 Forward Signaling." Development 136 (2009): 2467-2476.
• Miller, KJ., Kolk, SM., and Donoghue, MJ.. "EphA7-ephrin-A5 Signaling in Somatosensory Cortex: Developmental Restriction of Molecular Domains and Postnatal Maintenance of Functional Compartments. ." Journal of Comparative Neurology 49 (2006): 627-42.
• Kolk, SM, Whitman, MC, Yun, ME, Shete, P, and Donoghue, MJ. . ". A Dynamic Subpopulation of Deep Layer Neurons in the Developing Cerebral Cortex Identified by Tbrain-1-Regulated Transgene Expression. ." Molecular and Cellular Neuroscience 30 (2005): 538-51.
• Yun, ME., Johnson, RR., Antic, A., and Donoghue, MJ. . "EphA family gene expression in the developing mouse neocortex: regional patterns reveal intrinsic programs and extrinsic influence. ." Journal of Comparative Neurology 456 (2003): 203-216.
• Ogunshola OO., Antic A., Donoghue MJ., Fan SY., Kim H., Stewart WB., Madri JA., Ment LR. . "Paracrine and autocrine functions of neuronal vascular endothelial growth factor (VEGF) in the central nervous system. ." Journal of Biological Chemistry 277 (2002): 11410-11415.
• Sestan, N., Rakic, P., and Donoghue, MJ. . "Independent parcellation of the embryonic visual cortex and thalamus revealed by combinatorial Eph/ephrin gene expression. ." Current Biology 116 (2001): 39-43.
• Donoghue, MJ. and Rakic, P. . "Molecular Evidence for the early specification of presumptive functional domains in the embryonic primate cerebral cortex. ." Journal of Neuroscience 19 (1999): 5967-5979.
• Donoghue, MJ. and Rakic, P. . "Molecular gradients and compartments in the embryonic primate cerebral cortex. ." Cerebral Cortex 9 (1999): 586-600.
• Rao, MV., Donoghue, MJ., Merlie, JP., and Sanes, JR. . "Distinct regulatory elements control muscle-specific, fiber type-selective, and axially-graded expression of a myosin light chain gene in transgenic mice. ." Molecular and Cellular Biology 16 (1996): 3909-3922.
• Donoghue, MJ., Lewis, RM., Merlie, JP. and Sanes, JR. . "The Eph ligand AL-1 is expressed by rostral muscles and inhibits outgrowth from caudal neurons. ." Molecular and Cellular Neuroscience 88 (1996): 185-198.
• Donoghue, MJ. and Sanes, JR.. "All muscles are not created equal. ." Trends in Genetics 10 (1994): 396-401.
• Donoghue, MJ., Patton, BL., Sanes, JR. and Merlie, JP. . "An axial gradient of transgene methylation in murine skeletal muscle: genomic imprint of rostrocaudal position. ." Development 116 (1992): 1101-1112.
• Donoghue, MJ., Morris-Valero, R., Johnson, YJ., Merlie, JP., and Sanes, JR. . "Mammalian muscle cells bear a cell-autonomous, heritable memory of their rostrocaudal position. ." Cellular and Molecular Biology of Muscle Development 69 (1992): 67-77.
• Donoghue, MJ., Alvarez, JD., Merlie, JP., and Sanes, JR. . "Fiber type- and position-dependent expression of a myosin light chain-CAT transgene detected with a novel histochemical stain for CAT. ." Journal of Cell Biology 115 (1991): 423-434.
• Wentworth, B., Donoghue, M., Engert, J., Berglund, E. and Rosenthal, N. . "Paired MyoD binding sites regulate myosin light chain gene expression. ." Proceedings of the National Academy of Sciences 88 (1990): 1242-1246.
• Rosenthal, N., Berglund, E., Wentworth, B., Donoghue, M., Winter, B., Bober, E., Braun, T. and Arnold, H. . "A highly conserved enhancer downstream of the human MLC1/3 locus is a target for multiple myogenic determination factors. ." Nucleic Acids Research 18 (1990): 6239-6246.
• Donoghue, MJ., Merlie JP., Rosenthal, N., and Sanes, JR. 1990. . "A rostrocaudal gradient of transgene expression in adult skeletal muscle. ." Proceedings of the National Academy of Sciences 88 (1990): 5847-5851.
• . Rosenthal, N., Kornhauser, J., Donoghue, M., Rosen, K., and Merlie, J. . "Myosin light chain enhancer activates muscle-specific, developmentally regulated gene expression in transgenic mice. ." Proceedings of the National Academy of Sciences 86 (1989): 7780-7784.
• Donoghue, M., Ernst, H., Wentworth, B., Nadal-Ginard, B., and Rosenthal, N. . "A muscle-specific enhancer is located at the 3’ end of the myosin light chain 1/3 gene locus. ." Genes and Development 2 (1988): 1779-1790.

Articles in books

• Sanes, JR., Donoghue, MJ., and Merlie, JP. . "Positional differences among adult skeletal muscle fibers." Neuromuscular Development and Disease. Ed. Kelly, A.M. and Blau, H., M.. : Raven, 1992: 195-210
• Sanes, JR., Donoghue, MJ., Wallace, MC. and Merlie, JP. "Rostrocaudal differences among muscles revealed by a transgene: graded expression at low copy number. ." Cold Spring Harbor Symposia on Quantitative Biology 57. Ed. CSH. : CSH, 1992: 451-460
• Rosenthal, N., Donoghue, MJ., Ernst, HM., and Wentworth, B. . "Characterization of a muscle-specific enhancer downstream of the myosin light chain 1/3 locus. ." Cellular and Molecular Biology of Muscle Development . Ed. Alan Liss. : Raven, 1989: ), 725-733

In press

• North, HA, Clifford, MA, and Donoghue, MJ.. "‘Til Eph do us part: Intercellular signaling via Eph receptors and ephrin ligands guides cerebral cortical development from birth through maturation." Cerebral Cortex: Oxford University press, to appear in 2012.