[Genome] Drosophila ChIP/chip

[Mark Biggin]

Dear UCSC team, we wonder if you would be interested in including ChIP/ 
chip data produced by the Berkeley Drosophila Transcription Network  
Project as a track on your browser? For now we would suggest providing  
1% and 25% False Discovery Rate thresholded data for 7 sequence  
specific transcription factors and RNA polymerase. Wiggle files of the  
1% FDR data are at the links below, so you can get a sense of the  
data. (these are to Release 4 of the mel genome sequence). We could  
improve the appearance and add color if you agree to host these.

http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/bcd_1_012505-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/bcd_2_092005-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/cad_1_020107-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/gt_2_020107-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/hb_1_012505-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/hb_2_092305-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/kni_1_092706-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/kni_2_092706-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/kr_1_113005-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/kr_2_113005-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/polII_8WG16_092905-sym-1.wig
http://rana.lbl.gov/~smacarth/ChIPChip/Public_Release/wiggle/z_2_051504-sym-1.wig

Our data are particularly well justified and of high quality. In  
addition, our interpretation and analysis of the in vivo DNA binding  
data differ significantly from most others, emphasizing differences in  
the classes of region bound at different levels and showing that many  
weakly bound regions are likely to be non functional. This is  
explained in our recent PLoS Biology paper.
http://biology.plosjournals.org/perlserv/?request=get-document&doi=10.1371%2Fjournal.pbio.0060027

I'd be happy to provide any further information you may require. We  
have data on a further 14 factors that we hope to release by the summer.

sincerely

mark biggin


Mark Biggin
Genomics Division
Lawrence Berkeley National Laboratory
Berkeley CA 94720

Phone 	(510) 486 7606
Fax 		(510) 486 4229
email	mdbiggin at lbl.gov