Research
Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura
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* Corresponding author: Michael B Eisen mbeisen@lbl.gov
- † Equal contributors
1 Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
2 Berkeley Drosophila Genome Project, Genome Sciences Department, Life Sciences Division, Lawrence Orlando Berkeley National Laboratory, Berkeley, CA 94720, USA
3 Howard Hughes Medical Institute, Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
4 The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20878, USA
5 Genome Sciences Department, Genomics Division, Lawrence Orlando Berkeley National Laboratory, Berkeley, CA 94720, USA
6 Center for Integrative Genomics, University of California, Berkeley, CA 94720, USA
Genome Biology 2004, 5:R61 doi:10.1186/gb-2004-5-9-r61
Published: 20 August 2004Additional files
Additional data file 1:
The binding site densities (column 1), aligned site densities (column 2), and aligned plus preserved site densities (column 3) for individual transcription factors
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Additional data file 2:
Expression patterns of 65 genes adjacent to 122 pCRMs identified by eCIS-ANALYST
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Additional data file 3:
Discrimination of positive and negative pCRMs. Comparisons of the number of predicted binding sites in D. melanogaster pCRMs to the number of aligned sites (top panel) and aligned plus preserved sites (bottom panel)
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Additional data file 4:
New pCRMs
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Additional data file 5:
The primers used to amplify pCRMs for transgenics
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Additional data file 6:
Additional information from Table 2
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Additional data file 7:
All new pCRMs from genome-wide eCIS-ANALYST located within 20 kb of annotated transcript
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Additional data file 8:
All new pCRMs from genome-wide eCIS-ANALYST located more than 20 kb from annotated transcript
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Additional data file 9:
Genes with anterior-posterior patterns and the source of the information
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Additional data file 10:
All new pCRMs from genome-wide eCIS-ANALYST located within 20 kb of gene with anterior-posterior pattern
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Additional data file 11:
All new pCRMs from genome-wide eCIS-ANALYST located between 20 kb and 50 kb from gene with anterior-posterior pattern
Format: PDF Size: 53KB Download file
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