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Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline

Cris L Luengo Hendriks†, Soile VE Keränen†, Charless C Fowlkes, Lisa Simirenko, Gunther H Weber, Angela H DePace, Clara Henriquez, David W Kaszuba, Bernd Hamann, Michael B Eisen, Jitendra Malik, Damir Sudar, Mark D Biggin and David W Knowles*

Genome Biology 2006, 7:R123 doi:10.1186/gb-2006-7-12-r123

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BioMed Central: 5 citations

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Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions

Stewart MacArthur, Xiao-Yong Li, Jingyi Li, James B Brown, Hou Cheng Chu, Lucy Zeng, Brandi P Grondona, Aaron Hechmer, Lisa Simirenko, Soile VE Keränen, David W Knowles, Mark Stapleton, Peter Bickel, Mark D Biggin, Michael B Eisen Genome Biology 2009, 10:R80 (23 July 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | F1000 Biology | Editor’s summary

Distinct developmental fates in Drosophila melanogaster are specified by quantitative differences in transcription factor occupancy on a common set of bound regions.

Proceedings   Open Access

Semi-supervised learning for the identification of syn-expressed genes from fused microarray and in situ image data

Ivan G Costa, Roland Krause, Lennart Opitz, Alexander Schliep BMC Bioinformatics 2007, 8(Suppl 10):S3 (21 December 2007)

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Global analysis of patterns of gene expression during Drosophila embryogenesis

Pavel Tomancak, Benjamin P Berman, Amy Beaton, Richard Weiszmann, Elaine Kwan, Volker Hartenstein, Susan E Celniker, Gerald M Rubin Genome Biology 2007, 8:R145 (23 July 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | Editor’s summary

Embryonic expression patterns for 6,003 (44%) of the 13,659 protein-coding genes identified in the Drosophila melanogaster genome were documented, of which 40% show tissue-restricted expression.

Research   Open Access

Interactive processing and visualization of image data for biomedical and life science applications

Oliver G Staadt, Vijay Natarajan, Gunther H Weber, David F Wiley, Bernd Hamann BMC Cell Biology 2007, 8(Suppl 1):S10 (10 July 2007)

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Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution II: dynamics

Soile VE Keränen, Charless C Fowlkes, Cris L Luengo Hendriks, Damir Sudar, David W Knowles, Jitendra Malik, Mark D Biggin Genome Biology 2006, 7:R124 (21 December 2006)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | Editor’s summary

A new spatio-temporal coordinate framework for studying three-dimensional patterns of gene expression in the Drosophila blastoderm is presented that takes account of previously undetected morphological movements.

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