Genome Biology
Volume 8
Issue 2

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Vavouri T
Walter K
Gilks WR
Lehner B
Elgar G

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Parallel evolution of conserved non-coding elements that target a common set of developmental regulatory genes from worms to humans

Tanya Vavouri¹^,2 , Klaudia Walter³ , Walter R Gilks⁴ , Ben Lehner^*⁵ and Greg Elgar^*²

¹Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK

²School of Biological and Chemical Sciences, Queen Mary, University of London, London E1 4NS, UK

³MRC Biostatistics Unit, Institute of Public Health, Cambridge CB2 2SR, UK

⁴Department of Statistics, University of Leeds, Leeds LS2 9JT, UK

⁵EMBL/CRG Systems Biology Unit, Centre for Genomic Regulation (CRG), UPF, C/Dr. Aiguader 88, Barcelona 08003, Spain

author email corresponding author email* Contributed equally

Genome Biology 2007, 8:R15doi:10.1186/gb-2007-8-2-r15


Published:	2 February 2007

Subject areas: Genetics, Evolution, Molecular biology

Additional files

Additional data file 1:

Distribution of wCNEs along each chromosome.

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Additional data file 2:

Distribution of distances between CNEs in both the C. elegans and the H. sapiens genomes and for randomized CNE locations.

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Additional data file 3:

Distribution of distances between intergenic wCNEs and their nearest genes.

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Additional data file 4:

Top-level InterPro protein domains significantly enriched in CNE-associated genes compared to the rest of the genes in the (a) H. sapiens and (b) C. elegans genomes.

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Additional data file 5:

Enrichment for transcription factors among wCNE-associated genes, using two different collections of predicted transcription factors from the C. elegans genome.

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Additional data file 6:

wCNEs overlapping known cis-regulatory elements.

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Additional data file 7:

Annotation features from WormBase that were used to annotate wCNEs.

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Additional data file 8:

Sequences of the 2,084 wCNEs.

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Additional data file 9:

Coordinates of the wCNEs in the C. elegans genome, their nearest genes and their human orthologs.

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Additional data file 10:

Coordinates of the human CNEs from Woolfe et al. [4] with their nearest genes assigned using the same method as for the wCNEs.

Format: XLS Size: 104KB Download file

This file can be viewed with: Microsoft Excel Viewer