Long, H. Yoshikawa, S. and Thomas J.B. (2016). Equivalent activities of repulsive axon guidance receptors. J. Neurosci. 36,1140-1150. [PMCID: PMC4728722].

Yoshikawa, S., Long, H. and Thomas J.B. (2016). A subset of interneurons required for Drosophila larval locomotion. Mol. Cell. Neurosci. 70, 22-29. [PMCID: PMC4698040].

Shen, R., Wang, B., Giribaldi, M.G., Ayres, J.S., Thomas, J.B. and Montminy, M. (2016). Neuronal energy-sensing pathway promotes energy balance by modulating disease tolerance. Proc. Natl. Acad. Sci. USA. 113, 3307-3314. [PMCID: PMC4988575].

Read, R. D., Fenton, T.R., Gomez, G.G, Wykosky, J., Vandenberg, S.R., Babic, I., Iwanami, A., Yang, H., Cavenee, W.K., Mischel, P.S., Furnari, F.B., and Thomas, J.B. (2013). A kinome-wide RNAi screen in Drosophila glia reveals that the RIO kinases mediate cell proliferation and survival through TORC2-Akt signaling in glioblastoma. PLoS Genet. 9, e1003253. [PMCID: PMC3573097].

Wang, B., Moya, N., Niessen, S., Hoover, Mihaylova, M.M., Shaw, R.J., Yates, J.R., Fischer, W.H., Thomas, J.B. and Montminy, M. (2011). A hormone-dependent module regulating energy balance. Cell 145, 596-606. [PMCID: PMC3129781].

Thomas, J.B. and Yoshikawa, S. (2010). Morphogens as chemoattractants and chemorepellants. In: Developmental Neurobiology. G. Lemke, ed. Elsevier, Oxford. pp. 460-465.

Sakurai, M, Aoki, T., Yoshikawa, S., Santschi, L.A., Saito, H., Endo, K., Ishikawa, K., Kimura, K., Tanaka, N., Ito, K., Thomas, J.B. and Hama, C. (2009). Differentially expressed Drl and Drl-2 play opposing roles in Wnt5 signaling during Drosophila olfactory system development. J. Neurosci. 29, 4972-4980. [PMCID: PMC2749065].

Read, R.D., Cavenee, W.K., Furnari, F.B. and Thomas, J.B. (2009). A Drosophila model for EGFR-Ras and PI3K dependent human glioma. PLoS Genet. 5, e1000374. [PMCID: PMC2636203].

Thomas, J.B. and Yoshikawa, S. (2009). Axon guidance: morphogens as chemoattractants and chemorepellants. In: Encyclopedia of Neuroscience. L.R. Squire, ed. Academic Press, Oxford. pp. 1087-1091.

Thomas, J.B. (2008). Axon guidance in Drosophila. In: The Legacy of Drosophila Genetics. E. Bier, ed. The Biomedical & Life Sciences Collection, Henry Stewart Talks Ltd., London. (Digital lecture series).

Wang, B., Goode, J., Best, J., Meltzer, J., Garza, D., Thomas, J.B. and Montminy, M. (2008). The insulin-regulated CREB coactivator, TORC, promotes stress resistance in Drosophila. Cell Metab. 7, 434-444. [PMCID: PMC3704161].

Inaki, M., Yoshikawa, S., Thomas, J.B., Aburatani, H. and Nose, A. (2007). Wnt4 is a local repulsive cue that determines synaptic target specificity. Current Biology 17, 1574-1579.

Hughes, C.L. and Thomas, J.B. (2007). A sensory feedback circuit coordinates muscle activity in Drosophila. Mol. Cell. Neurosci. 35, 383-396. [PMCID: PMC1978164].

Boyle, M., Nighorn, A. and Thomas, J.B. (2006). Drosophila Eph receptor guides specific axon branches of mushroom body neurons. Development 133, 1845-1854. [PMCID: PMC1794001].

Fradkin, L.G., Garriga, G., Salinas, P.C., Thomas, J.B., Yu, X. and Zou, Y. (2005). Wnt signaling in neural circuit development. J. Neurosci. 25, 10376-10378.

Labrador, J.P., O’Keefe, D.D., Yoshikawa, S., McKinnon, R.D., Thomas, J.B. and Bashaw, G.J. (2005). The homeobox transcription factor Even-skipped regulates Netrin receptor expression to control dorsal/ventral motor axon projections in Drosophila. Current Biol. 15, 1413-1419.

Yoshikawa, S. and Thomas, J.B. (2004). Secreted cell signaling molecules in axon guidance. Curr. Opin. Neurobiol. 14, 45-50.

Imondi, R. and Thomas, J.B. (2003). The ups and downs of Wnt signaling. Science 302, 1903-1904.

Yoshikawa S, McKinnon RD, Kokel M, Thomas JB. Wnt-mediated axon guidance via the Drosophila Derailed receptor. Nature. 2003 Apr 10;422(6932):583-8. Epub 2003 Mar 16.

van Meyel DJ, Thomas JB, Agulnick AD. Ssdp proteins bind to LIM-interacting co-factors and regulate the activity of LIM-homeodomain protein complexes in vivo.Development. 2003 May;130(9):1915-25.

Herzig MC, Thor S, Thomas JB, Reichert H, Hirth F. Expression and function of the LIM homeodomain protein Apterous during embryonic brain development of Drosophila. Dev Genes Evol. 2001 Dec;211(11):545-54. Epub 2001 Nov 20.

Diagana TT, Thomas U, Prokopenko SN, Xiao B, Worley PF, Thomas JB. Mutation of Drosophila homer disrupts control of locomotor activity and behavioral plasticity. J Neurosci. 2002 Jan 15;22(2):428-36.

O’Keefe DD, Thomas JB. Drosophila wing development in the absence of dorsal identity. Development. 2001 Mar;128(5):703-10.

Yoshikawa S, Bonkowsky JL, Kokel M, Shyn S, Thomas JB. The derailed guidance receptor does not require kinase activity in vivo. J Neurosci. 2001 Jan 1;21(1):RC119.

van Meyel DJ, O’Keefe DD, Thor S, Jurata LW, Gill GN, Thomas JB. Chip is an essential cofactor for apterous in the regulation of axon guidance in Drosophila.Development. 2000 May;127(9):1823-31.

Jurata LW, Thomas JB, Pfaff SL. Transcriptional mechanisms in the development of motor control. Curr Opin Neurobiol. 2000 Feb;10(1):72-9. Review.

Bonkowsky JL, Yoshikawa S, O’Keefe DD, Scully AL, Thomas JB. Axon routing across the midline controlled by the Drosophila Derailed receptor. Nature. 1999 Dec 2;402(6761):540-4.

Lilly B, O’Keefe DD, Thomas JB, Botas J. The LIM homeodomain protein dLim1 defines a subclass of neurons within the embryonic ventral nerve cord of Drosophila. Mech Dev. 1999 Nov;88(2):195-205.

van Meyel DJ, O’Keefe DD, Jurata LW, Thor S, Gill GN, Thomas JB. Chip and apterous physically interact to form a functional complex during Drosophila development.Mol Cell. 1999 Aug;4(2):259-65.

Scully AL, McKeown M, Thomas JB. Isolation and characterization of Dek, a Drosophila eph receptor protein tyrosine kinase. Mol Cell Neurosci. 1999 May;13(5):337-47.

Bonkowsky JL, Thomas JB. Cell-type specific modular regulation of derailed in the Drosophila nervous system. Mech Dev. 1999 Apr;82(1-2):181-4.

Thor S, Andersson SG, Tomlinson A, Thomas JB. A LIM-homeodomain combinatorial code for motor-neuron pathway selection. Nature. 1999 Jan 7;397(6714):76-80.

Oates AC, Bonkovsky JL, Irvine DV, Kelly LE, Thomas JB, Wilks AF. Embryonic expression and activity of doughnut, a second RYK homolog in Drosophila. Mech Dev. 1998 Nov;78(1-2):165-9.

Benveniste RJ, Thor S, Thomas JB, Taghert PH. Cell type-specific regulation of the Drosophila FMRF-NH2 neuropeptide gene by Apterous, a LIM homeodomain transcription factor. Development. 1998 Dec;125(23):4757-65.

O’Keefe DD, Thor S, Thomas JB. Function and specificity of LIM domains in Drosophila nervous system and wing development. Development. 1998 Oct;125(19):3915-23.

Thomas JB. Axon guidance: crossing the midline. Curr Biol. 1998 Jan 29;8(3):R102-4.

Thor S, Thomas JB. The Drosophila islet gene governs axon pathfinding and neurotransmitter identity. Neuron. 1997 Mar;18(3):397-409.

Callahan CA, Bonkovsky JL, Scully AL, Thomas JB. derailed is required for muscle attachment site selection in Drosophila. Development. 1996 Sep;122(9):2761-7.

Callahan CA, Muralidhar MG, Lundgren SE, Scully AL, Thomas JB. Control of neuronal pathway selection by a Drosophila receptor protein-tyrosine kinase family member. Nature. 1995 Jul 13;376(6536):171-4.

Lundgren SE, Callahan CA, Thor S, Thomas JB. Control of neuronal pathway selection by the Drosophila LIM homeodomain gene apterous. Development. 1995 Jun;121(6):1769-73.

Blair SS, Brower DL, Thomas JB, Zavortink M. The role of apterous in the control of dorsoventral compartmentalization and PS integrin gene expression in the developing wing of Drosophila. Development. 1994 Jul;120(7):1805-15.

Callahan CA, Thomas JB. Tau-beta-galactosidase, an axon-targeted fusion protein. Proc Natl Acad Sci U S A. 1994 Jun 21;91(13):5972-6.

Muralidhar MG, Thomas JB. The Drosophila bendless gene encodes a neural protein related to ubiquitin-conjugating enzymes. Neuron. 1993 Aug;11(2):253-66.

Muralidhar MG, Callahan CA, Thomas JB. Single-minded regulation of genes in the embryonic midline of the Drosophila central nervous system. Mech Dev. 1993 May;41(2-3):129-38.

Bourgouin C, Lundgren SE, Thomas JB. Apterous is a Drosophila LIM domain gene required for the development of a subset of embryonic muscles. Neuron. 1992 Sep;9(3):549-61.

Thomas JB, Crews ST. Molecular genetics of neuronal development in the Drosophila embryo. FASEB J. 1990 May;4(8):2476-82. Review.

Crews ST, Thomas JB, Goodman CS. The Drosophila single-minded gene encodes a nuclear protein with sequence similarity to the per gene product. Cell. 1988 Jan 15;52(1):143-51.

Thomas JB, Crews ST, Goodman CS. Molecular genetics of the single-minded locus: a gene involved in the development of the Drosophila nervous system. Cell. 1988 Jan 15;52(1):133-41.

Goodman CS, Bastiani MJ, Doe CQ, du Lac S, Helfand SL, Kuwada JY, Thomas JB. Cell recognition during neuronal development. Science. 1984 Sep 21;225(4668):1271-9.

Thomas JB, Bastiani MJ, Bate M, Goodman CS. From grasshopper to Drosophila: a common plan for neuronal development. Nature. 1984 Jul 19-25;310(5974):203-7.

Thomas JB, Wyman RJ. Duplicated neural structure in bithorax mutant Drosophila.Dev Biol. 1984 Apr;102(2):531-3.

Thomas JB, Wyman RJ. Mutations altering synaptic connectivity between identified neurons in Drosophila. J Neurosci. 1984 Feb;4(2):530-8.

Thomas JB, Wyman RJ. A mutation in Drosophila alters normal connectivity between two identified neurones. Nature. 1982 Aug 12;298(5875):650-1. No abstract available.

Koto M, Tanouye MA, Ferrus A, Thomas JB, Wyman RJ. The morphology of the cervical giant fiber neuron of Drosophila. Brain Res. 1981 Sep 28;221(2):213-7.