Koromila T and Stathopoulos A. Broadly expressed repressors integrate patterning across orthogonal axes in embryos. PNAS. 2017 June 23; vol. 114 no. 31: 8295-8300
Bae YK, *Macabenta F, *Curtis HL, and Stathopoulos A. Comparative analysis of gene expression profiles for several migrating cell types identifies cell migration regulators. Mechanisms of Development.In Press. Available online 18 April 2017
*Stepanik V, *Dunipace L, Bae Y-K, Macabenta F, Sun J, Trisnadi N, and Stathopoulos A. The migrations of Drosophila muscle founders and primordial germ cells are interdependent. Development. 2016 September 1; 143: 3206-3215
Sandler JE and Stathopoulos A. Step-wise progression of embryonic patterning. Trends in Genetics. 2016 June 14;(32)7:432-443
Sandler JE and Stathopoulos A. Quantitative Single-Embryo Profile of Drosophila Genome Activation and the Dorsal-Ventral Patterning Network. Genetics. 2016 Feb 19;DOI: 10.1534/genetics.116.186783
Irizarry J and Stathopoulos A. FGF signaling supports Drosophila fertility by regulating development of ovarian muscle tissues. Developmental Biology. 2015 Aug 1;404(1):1-13.
Trisnadi N and Stathopoulos A. Ectopic expression screen identifies genes affecting Drosophila mesoderm development including the HSPG Trol. G3. Epub 2014 Dec 23.
Ozdemir A, Ma L, White KP, and Stathopoulos A. Su(H)-Mediated Repression Positions Gene Boundaries along the Dorsal-Ventral Axis of Drosophila Embryos. Dev Cell. 2014 Oct 13; 31(1):100-113.
Stathopoulos A and Iber D. Studies of morphogens: keep calm and carry on. Development. 2013 Oct; 140(20):4119-4124.
Dunipace L, Saunders A, Ashe HL, and Stathopoulos A. Autoregulatory Feedback Controls Sequential Action of cis-Regulatory Modules at the brinker Locus. Dev Cell. 2013 Sep 16; 26(5):536-43.
Garcia M, Nahmad M, Reeves GT, and Stathopoulos A. Size-dependent regulation of dorsal-ventral patterning in the early Drosophila embryo. Dev Biol. 2013 Sep 1; 381(1):286-99. Epub 2013 Jun 22.
Jin H, Stojnic R, Adryan B, Ozdemir A, Stathopoulos A, and Frasch M. Genome-Wide Screens for In Vivo Tinman Binding Sites Identify Cardiac Enhancers with Diverse Functional Architectures. PLoS Genet. Epub 2013 Jan 10.
Trisnadi N, Altinok A, Stathopoulos A, and Reeves GT. Image analysis and empirical modeling of gene and protein expression. Methods. 2013 Jul 15;62(1):68-78. Epub 2012 Oct 24.
*Bae Y-K, *Trisnadi N, Kadam S, and Stathopoulos A. The role of FGF signaling in guiding coordinate movement of cell groups. Cell Adhesion & Migration. 2012 Sep-Oct; 6(5):397-403. Epub 2012 Sep 1. Review.
*Reeves GT, *Trisnadi N, Truong TV, Nahmad M, Katz S, and Stathopoulos A. Dorsal-Ventral Gene Expression in the Drosophila Embryo Reflects the Dynamics and Precision of the Dorsal Nuclear Gradient. Dev Cell. 22(3)544-557. Epub Feb 14.
Kadam S, Ghosh S, and Stathopoulos A. Synchronous and symmetric migration of Drosophila caudal visceral mesoderm cells requires dual input by two FGF ligands. Development. 139(4). Epub Jan 4.
Garcia M and Stathopoulos A. Lateral Gene Expression in Drosophila Early Embryos Is Supported by Grainyhead-Mediated Activation and Tiers of Dorsally-Localized Repression. PLoS ONE. Dec 22; 6(12):e29172.
Ozdemir A and Stathopoulos A. Exciting times: bountiful data to faciliate studies of cis-regulatory control. Nature Methods. Nov 29;8(12):1016-7.
Dunipace L, Ozdemir A, and Stathopoulos A. Complex interactions between cis-regulatory modules in native conformation are critical for Drosophila snail expression. Development. Sep;138(18):4075-84. Epub Aug 3.
*Ozdemir A, *Fisher-Aylor KI, Pepke S, Samanta M, Dunipace L, McCue K, Zeng L, Ogawa N, Wold BJ, and Stathopoulos A. High resolution mapping of Twist to DNA in Drosophila embryos: Efficient functional analysis and evolutionary conservation. Genome Res. Epub Mar 7.
Tulin S and Stathopoulos A. Extending the family table: Insights from beyond vertebrates into the regulation of embryonic development by FGFs. Birth Defects Res C Embryo Today. Sep; 90(3):214-27.
Nahmad M and Stathopoulos A. Establishing positional information through gradient dynamics: A lesson from the Hedgehog signaling pathway. Fly (Austin) 4(4):1-5. Oct 15 [Epub ahead of print].
Tulin S and Stathopoulos A. Analysis of Thisbe and Pyramus functional domains reveals evidence for cleavage of Drosophila FGFs. BMC Dev Biol 10:83. Aug 5.
McMahon A, Reeves GT, Supatto W, and Stathopoulos A. Mesoderm migration in Drosophila is a multi-step process requiring FGF signaling and integrin activity. Development 137:2167-2175.
Liberman LM, *Reeves GT, and Stathopoulos A. Quantitative imaging of the Dorsal nuclear gradient reveals limitations to threshold-dependent patterning in Drosophila. Proc Natl Acad Sci USA 106(52): 22317-22322. 2009 Dec 29. doi:10.1073/pnas.0906227106.
Nahmad M and Stathopoulos A. Dynamic Interpretation of Hedgehog Signaling in the Drosophila Wing Disc. PLoS Biol 7(9): e1000202. 2009 Sep 29. doi: 10.1371/journal.pbio.1000202.
Supatto W, McMahon A, Fraser SE, and Stathopoulos A. Quantitative imaging of collective cell migration during Drosophila gastrulation: multiphoton microscopy and computational analysis. Nat Protoc 4(10):1397-412. Epub 2009 Sep 10.
Reeves GT and Stathopoulos A. Graded Dorsal and Differential Gene Regulation in the Drosophila Embryo. Cold Spring Harbor Laboratory Press. Cold Spring Harb Perspect Biol, "Perspectives on Generation and Interpretation of Morphogen Gradients." Briscoe J, Lawrence P, Vincent J-P, eds. doi: 10.1101/cshperspect.a000836.
Kadam S, McMahon A, Tzou P, and Stathopoulos A.FGF ligands in Drosophila have distinct activities required to support cell migration and differentiation. Development 136(5):739-47. Epub 2009 Jan 21.
Liberman LM and Stathopoulos A. Design flexibility in cis-regulatory control of gene expression: Synthetic and comparative evidence. Developmental Biology 327(2):578-89. Epub 2008 Dec 25.
*McMahon A, *Supatto W, Fraser SE, Stathopoulos A. Dynamic Analyses of Drosophila Gastrulation Provide Insights into Collective Cell Migration. Science. 322(5907):1546-1550.
up to 2005
Stathopoulos A and Levine M. (2005) Genomic regulatory networks and animal development. Dev Cell 9:449-62.
Stathopoulos A and Levine M. (2005) Localized repressors delineate the neurogenic ectoderm in the early Drosophila embryo. Developmental Biology 280: 482-493.
Stathopoulos A and Levine M. (2004) Whole-genome analysis of Drosophila gastrulation. Curr Opin Genet Dev 14: 477-484.
Markstein M, Zinzen R, Markstein P, Yee K-P, Erives A, Stathopoulos A, and Levine M. (2004) A regulatory code for neurogenic gene expression in the Drosophila embryo. Development 131: 2387-2394.
Stathopoulos A, Tam B, Ronshaugen M, Frasch M, and Levine M. (2004) pyramus and thisbe: FGF genes that pattern the mesoderm of Drosophila embryos. Genes and Development 18: 687-699
Stathopoulos A, Van Drenth M, Erives A, Markstein M, and Levine M. (2002) Whole-Genome Analysis of Dorsal-Ventral Patterning in the Drosophila Embryo. Cell 111: 687-701.
Stathopoulos A and Levine M. (2002) Whole-genome expression profiles identify gene batteries in Drosophila. Developmental Cell 3: 464-465.
Calhoun VC, Stathopoulos A, and Levine M. (2002) Promoter-proximal tethering elements regulate enhancer-promoter specificity in the Drosophila Antennapedia complex. PNAS 99:9243-9247.
Stathopoulos A and Levine M. (2002) Linear signaling in the Toll-Dorsal pathway of Drosophila: activated Pelle kinase specifies all threshold outputs of gene expression while the bHLH protein Twist specifies a subset. Development 129: 3411-3419.
Stathopoulos A and Levine M. (2002) Dorsal gradient networks in the Drosophila embryo. Developmental Biology 246: 57-76.
Stathopoulos-Gerontides A, Guo JJ, and Cyert MS. (1999) Yeast calcineurin regulates nuclear localization of the Crz1p transcription factor through dephosphorylation. Genes and Development 13: 798-803.
Stathopoulos AM and Cyert MS. (1997) Calcineurin acts through the CRZ1/TCN1-encoded transcription factor to regulate gene expression in yeast. Genes and Development 24:3432-44.