A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm. Export

@article{citeulike:2805224, abstract = {To fully understand animal transcription networks, it is essential to accurately measure the spatial and temporal expression patterns of transcription factors and their targets. We describe a registration technique that takes image-based data from hundreds of Drosophila blastoderm embryos, each costained for a reference gene and one of a set of genes of interest, and builds a model VirtualEmbryo. This model captures in a common framework the average expression patterns for many genes in spite of significant variation in morphology and expression between individual embryos. We establish the method's accuracy by showing that relationships between a pair of genes' expression inferred from the model are nearly identical to those measured in embryos costained for the pair. We present a VirtualEmbryo containing data for 95 genes at six time cohorts. We show that known gene-regulatory interactions can be automatically recovered from this data set and predict hundreds of new interactions.}, address = {Berkeley Drosophila Transcription Network Project, University of California, Irvine, CA 92697, USA.}, author = {Fowlkes, C. C. and Hendriks, C. L. and Ker\"{a}nen, S. V. and Weber, G. H. and R\"{u}bel, O. and Huang, M. Y. and Chatoor, S. and DePace, A. H. and Simirenko, L. and Henriquez, C. and Beaton, A. and Weiszmann, R. and Celniker, S. and Hamann, B. and Knowles, D. W. and Biggin, M. D. and Eisen, M. B. and Malik, J.}, citeulike-article-id = {2805224}, citeulike-linkout-0 = {http://dx.doi.org/10.1016/j.cell.2008.01.053}, citeulike-linkout-1 = {http://linkinghub.elsevier.com/retrieve/pii/S009286740800281X}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/18423206}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=18423206}, citeulike-linkout-4 = {http://www.sciencedirect.com/science/article/B6WSN-4S9G1SD-R/1/0975f7c6efdac5c8e9fd81eda9db67c6}, day = {18}, doi = {10.1016/j.cell.2008.01.053}, issn = {1097-4172}, journal = {Cell}, keywords = {drosophila, spatiotemporal}, month = {April}, number = {2}, pages = {364--374}, posted-at = {2008-05-16 13:45:37}, priority = {2}, title = {A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm.}, url = {http://dx.doi.org/10.1016/j.cell.2008.01.053}, volume = {133}, year = {2008} }

TY - JOUR ID - citeulike:2805224 L3 - citeulike-article-id:2805224 N2 - To fully understand animal transcription networks, it is essential to accurately measure the spatial and temporal expression patterns of transcription factors and their targets. We describe a registration technique that takes image-based data from hundreds of Drosophila blastoderm embryos, each costained for a reference gene and one of a set of genes of interest, and builds a model VirtualEmbryo. This model captures in a common framework the average expression patterns for many genes in spite of significant variation in morphology and expression between individual embryos. We establish the method's accuracy by showing that relationships between a pair of genes' expression inferred from the model are nearly identical to those measured in embryos costained for the pair. We present a VirtualEmbryo containing data for 95 genes at six time cohorts. We show that known gene-regulatory interactions can be automatically recovered from this data set and predict hundreds of new interactions. IS - 2 JF - Cell SN - 1097-4172 AD - Berkeley Drosophila Transcription Network Project, University of California, Irvine, CA 92697, USA. EP - 374 TI - A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm. VL - 133 SP - 364 KW - drosophila KW - spatiotemporal AU - Fowlkes, CC AU - Hendriks, CL AU - Keränen, SV AU - Weber, GH AU - Rübel, O AU - Huang, MY AU - Chatoor, S AU - DePace, AH AU - Simirenko, L AU - Henriquez, C AU - Beaton, A AU - Weiszmann, R AU - Celniker, S AU - Hamann, B AU - Knowles, DW AU - Biggin, MD AU - Eisen, MB AU - Malik, J PY - 2008/04/18/ UR - http://dx.doi.org/10.1016/j.cell.2008.01.053 ER -