|
Status |
Public on Jun 20, 2006 |
Title |
Su(Hw)-GFP_IP-EmbryoChromatin2a |
Sample type |
genomic |
|
|
Channel 1 |
Source name |
Control Sera IP
|
Organism |
Drosophila melanogaster |
Characteristics |
Chromatin from 0-20 hr Drosophila melanogaster embryos carrying GFP-tagged Su(Hw). Genotype- y[2]; P{su(Hw).GFP}; Df(3R)su(Hw)V, P{casX/K-RpII15} (Gerasimova, TI, Byrd, K and VG Corces (2000) Mol. Cell. 6:p1025) Immunopurified with normal rabbit serum.
|
Growth protocol |
Egg laying at 25oC
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Chromatin purified as described in Birch-Machin et al (2005) Genome Biology 6:R63, detailed protocol from http://www.flychip.org.uk/protocols/chip/
|
Label |
Cy5
|
Label protocol |
Enriched chromatin labelling as described in Birch-Machin et al (2005) Genome Biology 6:R63, detailed protocol from http://www.flychip.org.uk/protocols/chip/
|
|
|
Channel 2 |
Source name |
anti-GFP
|
Organism |
Drosophila melanogaster |
Characteristics |
Chromatin from 0-20 hr Drosophila melanogaster embryos carrying GFP-tagged Su(Hw). Genotype- y[2]; P{su(Hw).GFP}; Df(3R)su(Hw)V, P{casX/K-RpII15} (Gerasimova, TI, Byrd, K and VG Corces (2000) Mol. Cell. 6:p1025) Immunopurified with anti-GFP.
|
Growth protocol |
Egg laying at 25oC
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Chromatin purified as described in Birch-Machin et al (2005) Genome Biology 6:R63, detailed protocol from http://www.flychip.org.uk/protocols/chip/
|
Label |
Cy3
|
Label protocol |
Enriched chromatin labelling as described in Birch-Machin et al (2005) Genome Biology 6:R63, detailed protocol from http://www.flychip.org.uk/protocols/chip/
|
|
|
|
Hybridization protocol |
As described in Birch-Machin et al (2005) Genome Biology 6:R63, detailed protocol from http://www.flychip.org.uk/protocols/chip/
|
Scan protocol |
As described in Birch-Machin et al (2005) Genome Biology 6:R63, detailed protocol from http://www.flychip.org.uk/protocols/chip
|
Description |
Identification of in vivo Su(Hw) binding sites in Drosophila embryos.
|
Data processing |
VSN normalisation- VALUE is the VSN normalised ratio of Su(hw) enriched to control. All other data are raw un-normalised values.
|
|
|
Submission date |
Apr 20, 2006 |
Last update date |
May 05, 2006 |
Contact name |
Steve Russell |
E-mail(s) |
s.russell@gen.cam.ac.uk
|
Phone |
+44 (0) 1223 766929
|
Fax |
+44 (0) 1223 333992
|
Organization name |
University of Cambridge
|
Department |
Department of Genetics
|
Street address |
Downing Street
|
City |
Cambridge |
ZIP/Postal code |
CB2 3EH |
Country |
United Kingdom |
|
|
Platform ID |
GPL3689 |
Series (1) |
GSE4691 |
in vivo binding of su(Hw) in the Drosophila genome |
|
Data table header descriptions |
ID_REF |
|
VALUE |
VSN normalised ratio of anti-sh(Hw) to control sera |
fgMedian1 |
foreground (spot) median pixel intensity of channel 1 |
bgMedian1 |
background (local area around spot) median pixel intensity of channel 1 |
fgAdjMAD1 |
foreground (spot) pixel intensity variability of channel 1 |
bgAdjMAD1 |
background (local area around spot) pixel intensity variability of channel 1 |
fgMedian2 |
foreground (spot) median pixel intensity of channel 2 |
bgMedian2 |
background (local area around spot) median pixel intensity of channel 2 |
fgAdjMAD2 |
foreground (spot) pixel intensity variability of channel 2 |
bgAdjMAD2 |
background (local area around spot) pixel intensity variability of channel 2 |
fgN |
number of pixels in the foreground |
bgN |
number of pixels in the background |