Furlong GroupPublications
Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development.
Bonn, S., Zinzen, R.P., Girardot, C., Gustafson, E.H., Perez-Gonzalez, A., Delhomme, N., Ghavi-Helm, Y., Wilczynski, B., Riddell, A. & Furlong, E.E.
Nat Genet. 2012 Jan 8. doi: 10.1038/ng.1064. PubMed
Analyzing transcription factor occupancy during embryo development using ChIP-seq.
Ghavi-Helm, Y. & Furlong, E.E.
Methods Mol Biol. 2012;786:229-45. PubMed
Molecular biology: A fly in the face of genomics.
Furlong, E.E.
Nature. 2011 Mar 24;471(7339):458-9. PubMed
The importance of being specified: cell fate decisions and their role in cell biology.
Furlong, E.E.
Mol Biol Cell. 2010 Nov 15;21(22):3797-8. PubMed
Dynamic CRM occupancy reflects a temporal map of developmental progression.
Wilczynski, B. & Furlong, E.E.
Mol Syst Biol. 2010 Jun 22;6:383. PubMed
Model-based method for transcription factor target identification with limited data.
Honkela, A., Girardot, C., Gustafson, E.H., Liu, Y.H., Furlong, E.E., Lawrence, N.D. & Rattray, M.
Proc Natl Acad Sci U S A. 2010 Apr 27;107(17):7793-8. Epub 2010 Apr 12. PubMed
Combinatorial binding leads to diverse regulatory responses: Lmd is a tissue-specific modulator of Mef2 activity.
Cunha, P.M., Sandmann, T., Gustafson, E.H., Ciglar, L., Eichenlaub, M.P. & Furlong, E.E.
PLoS Genet. 2010 Jul 1;6:e1001014. PubMed
Conservation and divergence in developmental networks: a view from Drosophila myogenesis.
Ciglar, L. & Furlong, E.E.
Curr Opin Cell Biol. 2009 Dec;21(6):754-60. Epub 2009 Nov 4. PubMed
Combinatorial binding predicts spatio-temporal cis-regulatory activity.
Zinzen, R.P., Girardot, C., Gagneur, J., Braun, M. & Furlong, E.E.
Nature. 2009 Nov 5;462(7269):65-70. PubMed
Challenges for modeling global gene regulatory networks during development: Insights from Drosophila.
Wilczynski, B. & Furlong, E.E.
Dev Biol. 2009 Oct 27. PubMed
A systematic analysis of Tinman function reveals Eya and JAK-STAT signaling as essential regulators of muscle development.
Liu, Y.H., Jakobsen, J.S., Valentin, G., Amarantos, I., Gilmour, D.T. & Furlong, E.E.
Dev Cell. 2009 Feb;16(2):280-91. PubMed
Dynamic regulation by polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila.
Oktaba, K., Gutierrez, L., Gagneur, J., Girardot, C., Sengupta, A.K., Furlong, E.E. & Muller, J.
Dev Cell. 2008 Dec;15(6):877-89. Epub 2008 Nov 6. PubMed
cis-Regulatory networks during development: a view of Drosophila.
Bonn, S. & Furlong, E.E.
Curr Opin Genet Dev. 2008 Dec;18(6):513-20. Epub 2008 Oct 16. PubMed
Divergence in cis-regulatory networks: taking the 'species' out of cross-species analysis.
Zinzen, R.P. & Furlong, E.E.
Genome Biol. 2008 Nov 4;9(11):240. PubMed
A topographical map of spatiotemporal patterns of gene expression.
Furlong, E.E.
Dev Cell. 2008 May;14(5):639-40. PubMed
Enhanced function annotations for Drosophila serine proteases: a case study for systematic annotation of multi-member gene families.
Shah, P.K., Tripathi, L.P., Jensen, L.J., Gahnim, M., Mason, C., Furlong, E.E., Rodrigues, V., White, K.P., Bork, P. & Sowdhamini, R.
Gene. 2008 Jan 15;407(1-2):199-215. Epub 2007 Oct 15. PubMed
Divergence in cis-regulatory transcriptional networks between species.
Zinzen, R. and Furlong, E.E.
Genome Biology (2008). 9(11):240. Review.
4DXpress: a database for cross-species expression pattern comparisons.
Haudry, Y., Berube, H., Letunic, I., Weeber, P.D., Gagneur, J., Girardot, C., Kapushesky, M., Arendt, D., Bork, P., Brazma, A., Furlong, E., Wittbrodt, J. & Henrich, T.
Nucleic Acids Res. 2007 Oct 4;. PubMed
Temporal ChIP-on-chip reveals Biniou as a universal regulator of the visceral muscle transcriptional network.
Jakobsen, J.S., Braun, M., Astorga, J., Gustafson, E.H., Sandmann, T., Karzynski, M., Carlsson, P. & Furlong, E.E.
Genes Dev. 2007 Oct 1;21(19):2448-60. PubMed
CoCo: a web application to display, store and curate ChIP-on-chip data integrated with diverse types of gene expression data.
Girardot, C., Sklyar, O., Grosz, S., Huber, W. & Furlong, E.E.
Bioinformatics. 2007 Mar 15;23(6):771-3. Epub 2007 Jan 17. PubMed
A core transcriptional network for early mesoderm development in Drosophila melanogaster.
Sandmann, T., Girardot, C., Brehme, M., Tongprasit, W., Stolc, V. & Furlong, E.E.
Genes Dev. 2007 Feb 15;21(4):436-49. PubMed
Identification of tightly regulated groups of genes during Drosophila melanogaster embryogenesis.
Hooper, S.D., Boue, S., Krause, R., Jensen, L.J., Mason, C.E., Ghanim, M., White, K.P., Furlong, E.E. & Bork, P.
Mol Syst Biol. 2007;3:72. Epub 2007 Jan 16. PubMed
Genomics and development: Taking developmental biology to new heights.
Spitz, F. & Furlong, E.E.
Dev Cell. 2006 Oct;11(4):451-7. PubMed
A temporal map of transcription factor activity: mef2 directly regulates target genes at all stages of muscle development.
Sandmann, T., Jensen, L.J., Jakobsen, J.S., Karzynski, M.M., Eichenlaub, M.P., Bork, P. & Furlong, E.E.
Dev Cell. 2006 Jun;10(6):797-807. PubMed
Developmental control of nuclear size and shape by Kugelkern and Kurzkern.
Brandt, A., Papagiannouli, F., Wagner, N., Wilsch-Brauninger, M., Braun, M., Furlong, E.E., Loserth, S., Wenzl, C., Pilot, F., Vogt, N., Lecuit, T., Krohne, G. & Grosshans, J.
Curr Biol. 2006 Mar 21;16(6):543-52. Epub 2006 Feb 2. PubMed
ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos.
Sandmann, T., Jakobsen, J.S. & Furlong, E.E.
Nat Protoc. 2006;1(6):2839-55. PubMed
A functional genomics approach to identify new regulators of Wnt signaling.
Furlong, E.E.
Dev Cell 2005 May;8(5):624-6. PubMed
Myofilin, a protein in the thick filaments of insect muscle.
Qiu, F., Brendel, S., Cunha, P.M., Astola, N., Song, B., Furlong, E.E., Leonard, K.R. & Bullard, B.
J Cell Sci 2005 Apr 1;118(Pt 7):1527-36. Epub 2005 Mar 15. PubMed
Creation of a minimal tiling path of genomic clones for Drosophila: provision of a common resource.
Hollich, V., Johnson, E., Furlong, E.E., Beckmann, B., Carlson, J., Celniker, S.E. & Hoheisel, J.D.
Biotechniques 2004 Aug;37(2):282-4. PubMed
Integrating transcriptional and signalling networks during muscle development.
Furlong, E.E.
Curr Opin Genet Dev 2004 Aug;14(4):343-50. PubMed
Notch and Ras signaling pathway effector genes expressed in fusion competent and founder cells during Drosophila myogenesis.
Artero, R., Furlong, E.E., Beckett, K., Scott, M.P. & Baylies, M.
Development 2003 Dec;130(25):6257-72. PubMed
Gene expression during the life cycle of Drosophila melanogaster.
Arbeitman, M.N., Furlong, E.E., Imam, F., Johnson, E., Null, B.H., Baker, B.S., Krasnow, M.A., Scott, M.P., Davis, R.W. & White, K.P.
Science 2002 Sep 27;297(5590):2270-5. PubMed
Patterns of gene expression during Drosophila mesoderm development.
Furlong, E.E., Andersen, E.C., Null, B., White, K.P. & Scott, M.P.
Science 2001 Aug 31;293(5535):1629-33. PubMed
Automated sorting of live transgenic embryos.
Furlong, E.E., Profitt, D. & Scott, M.P.
Nat Biotechnol 2001 Feb;19(2):153-6. PubMed
10 years of the human genome
EMBL scientists mark a decade since the first draft human genome sequence. Click on the image to play.
Duration: 6 mins.