Knox K, Leuenberger D, Penn AA, Baker JC. Global hormone profiling of murine placenta reveals Secretin expression. Placenta. 2011 Sep 23.

Yoon SJ, Wills AE, Chuong E, Gupta R, Baker JC. HEB and E2A function as SMAD/FOXH1 cofactors. Genes Dev. 2011 Aug 1;25(15):1654-61.

Kim SW, Yoon SJ, Chuong E, Oyolu C, Wills AE, Gupta R, Baker J. Chromatin and transcriptional signatures for Nodal signaling during endoderm formation in hESCs.  Dev Biol. 2011 Sep 15;357(2):492-504. Epub 2011 Jun 29.

Pan Y, Ouyang Z, Wong WH, Baker JC. A new FACS approach isolates hESC derived endoderm using transcription factors. PLoS One. 2011 Mar 9;6(3):e17536.

Brunner AL, Johnson DS, Kim SW, Valouev A, Reddy TE, Neff NF, Anton E, Medina C, Nguyen L, Chiao E, Oyolu CB, Schroth GP, Absher DM, Baker JC, Myers RM. Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver. Genome Res. 2009 Jun;19(6):1044-56.

Wills A, Dickinson K, Khokha M, Baker JC. Bmp signaling is necessary and sufficient for ventrolateral endoderm specification in Xenopus. Developmental Dynamics 2008 237(8): 2177-2186

Knox K, Baker JC. Genomic evolution of the placenta using co-option and duplication and divergence. Genome Res. 2008 May;18(5):695-705. Epub 2008 Mar 13.

Mitiku N, Baker JC. Genomic analysis of gastrulation and organogenesis in the mouse. Dev Cell. 2007 Dec;13(6):897-907.

Knox KS, Baker JC. Genome-wide expression profiling of placentas in the p57Kip2 model of pre-eclampsia. Mol Hum Reprod. 2007 Apr;13(4):251-63.

Fletcher, R. B., Baker, J. C., and R. M. Harland. 2006. FGF8 spliceforms mediate early mesoderm and posterior neural tissue formation in Xenopus. Development 133(9): 1703-1714.

Hufton, A., A. Vinayagam, S. Suhai, and J. C. Baker. 2006. Genomic Analysis of Xenopus Organizer Function. BMC Developmental Biology 6: 27-49.

Borchers, A., Y, Fonar, D. Frank, and J. C. Baker. 2006. XNF-ATc3 affects neural convergent extension. Development 133(9): 1745-1755.

Dickinson, K., J. Leonard, and J. C. Baker. 2006. Genomic profiling of Mixer and Sox17 targets during Xenopus endoderm development. Developmental Dynamics 235(2): 368-381.

Chiao, E., J. Leonard, K. Dickinson, and J. C. Baker. 2005. High-throughput functional screen of mouse gastrula cDNA libraries reveals new components of endoderm and mesoderm specification. Genome Research 15: 44-53.

Lu, X., A. G. M. Borchers, C. Jolicoeur, H. Rayburn, J. C. Baker, and M. Tessier-Lavigne. 2004. PTK7/CCK-4 is a novel regulator of planar cell polarity in vertebrates. Nature 430: 93-98.

Pomrehn-Myers, A., Corson, L. B., Rossant, J., and J. C. Baker. 2004. Characterization of Mouse Rsk4 as an Inhibitor of Fibroblast Growth Factor-RAS-Extracellular Signal-Regulated Kinase Signaling. Molecular and Cellular Biology 24(10): 4255-4266.

DeYoung, A. R, J. C. Baker, D. Cado, and A. Winoto. 2003. The orphan steroid receptor Nur77 family member Nor-1 is essential for   early mouse embryogenesis. Journal of Cell Biology 278(47): 47104-47109.

Borchers, A. G. M., A. L. Hufton, A. G. Eldridge, P. K. J. Jackson, R. M. Harland, and J. C. Baker. 2002. The E3 ubiquitin ligase GREUL1 anteriorizes ectoderm during Xenopus development. Developmental Biology 251(2):395-408.

Baker, J. C., R. S. Beddington and R. M. Harland. 1999. Wnt signaling in Xenopus embryos inhibits bmp4 expression and activates neural development. Genes and Development 13(23): 3149-3159.

Das, P., H. Inoue, J. C. Baker, H. Beppu, M. Kawabata, R. M. Harland, K. Miyazono, R. W. Padgett. 1999. Drosophila dSmad2 and Atr-I transmit activin/TGFbeta signals. Genes Cells 4(2): 123-134.

Baker, J. C. and R. M. Harland. 1997. From receptor to nucleus: the Smad pathway. Current Opinion in Genetics and Development 7(4): 467-473.

Baker, J., M. P. Hardy, J. Zhou, C. Bondy, F. Lupu, A. Bellve, and A. Efstratiadis. 1996. Effects of an Igf-1 gene null mutation on mouse reproduction. Molecular Endocrinology 10: 903-918.

Liu, F., A. Hata, J. C. Baker, J. Doody, J. Carcamo, R. M. Harland and J. Massague. 1996. A human Mad protein acting as a BMP-regulated transcriptional activator. Nature 381: 620-623.

Baker, J. C. and R. M. Harland. 1996. A novel mesoderm inducer, Madr2, functions in the activin signal transduction pathway. Genes and Development 10(15): 1880-1889.

Liu, J. P., J. Baker, A. S. Perkins, E. J. Robertson, and A. Efstratiadis. 1993. Mice encoding null mutations of the genes encoding insulin-like growth factor I and type 1 IGF receptor. Cell 75: 59-72.

Baker, J., J. P. Liu, E. J. Robertson, and A. Efstratiadis. 1993. Role of insulin-like growth factors in embryonic and postnatal growth. Cell 75: 73-82.

Thompson, E. W., J. C. Baker, S. A. Kamoss and W. H. Anderson. 1991. The severity of diabetes is a major determinant of myocardial damage in the rat. Proc. Soc. Exp. Biol. Med. 196 (2): 230-233.