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Sample GSM51355 Query DataSets for GSM51355
Status Public on Jun 15, 2005
Title H4 intergenic replicate 2
Sample type genomic
 
Channel 1
Source name cy3 total DNA
Organism Saccharomyces cerevisiae
Extracted molecule genomic DNA
 
Channel 2
Source name cy5 immunoprecipitated DNA
Organism Saccharomyces cerevisiae
Extracted molecule genomic DNA
 
 
Description Labeled total DNA (cy3) and immunoprecipitated DNA (cy5) were mixed and allowed to hybridize at 45 C overnight in hybridization buffer (3x SSC, 0.1% SDS, 25% formamide, Salmon sperm DNA to 300ng/ul).
 
Submission date May 13, 2005
Last update date May 29, 2005
Contact name Kevin Struhl
E-mail(s) CBaisden@hms.harvard.edu
Phone 617-432-2034
Fax 617-432-2529
Organization name Harvard Medical School
Department Biological Chemistry and Molecular Pharmacology
Lab Struhl
Street address 240 Longwood Ave.
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL2045
Series (1)
GSE2659 Intrinsic histone-DNA interactions and low nucleosome density are important for accessibility of promoters in yeast

Data table header descriptions
ID_REF
ID_
X
Y
Dia.
F635 Median
F635 Mean
F635 SD
B635 Median
B635 Mean
B635 SD
% > B635+1SD
% > B635+2SD
F635 % Sat.
F532 Median
F532 Mean
F532 SD
B532 Median
B532 Mean
B532 SD
% > B532+1SD
% > B532+2SD
F532 % Sat.
F3 Median
F3 Mean
F3 SD
B3 Median
B3 Mean
B3 SD
% > B3+1SD
% > B3+2SD
F3 % Sat.
F4 Median
F4 Mean
F4 SD
B4 Median
B4 Mean
B4 SD
% > B4+1SD
% > B4+2SD
F4 % Sat.
Ratio of Medians (635/532)
Ratio of Means (635/532)
Median of Ratios (635/532)
Mean of Ratios (635/532)
Ratios SD (635/532)
Rgn Ratio (635/532)
Rgn R? (635/532)
Ratio of Medians (Ratio/2)
Ratio of Means (Ratio/2)
Median of Ratios (Ratio/2)
Mean of Ratios (Ratio/2)
Ratios SD (Ratio/2)
Rgn Ratio (Ratio/2)
Rgn R? (Ratio/2)
Ratio of Medians (Ratio/3)
Ratio of Means (Ratio/3)
Median of Ratios (Ratio/3)
Mean of Ratios (Ratio/3)
Ratios SD (Ratio/3)
Rgn Ratio (Ratio/3)
Rgn R? (Ratio/3)
F Pixels
B Pixels
Sum of Medians
Sum of Means
VALUE
Log Ratio (Ratio/2)
Log Ratio (Ratio/3)
F635 Median - B635
F532 Median - B532
F3 Median - B3
F4 Median - B4
F635 Mean - B635
F532 Mean - B532
F3 Mean - B3
F4 Mean - B4
Flags
Normalize

Data table
ID_REF ID_ X Y Dia. F635 Median F635 Mean F635 SD B635 Median B635 Mean B635 SD % > B635+1SD % > B635+2SD F635 % Sat. F532 Median F532 Mean F532 SD B532 Median B532 Mean B532 SD % > B532+1SD % > B532+2SD F532 % Sat. F3 Median F3 Mean F3 SD B3 Median B3 Mean B3 SD % > B3+1SD % > B3+2SD F3 % Sat. F4 Median F4 Mean F4 SD B4 Median B4 Mean B4 SD % > B4+1SD % > B4+2SD F4 % Sat. Ratio of Medians (635/532) Ratio of Means (635/532) Median of Ratios (635/532) Mean of Ratios (635/532) Ratios SD (635/532) Rgn Ratio (635/532) Rgn R? (635/532) Ratio of Medians (Ratio/2) Ratio of Means (Ratio/2) Median of Ratios (Ratio/2) Mean of Ratios (Ratio/2) Ratios SD (Ratio/2) Rgn Ratio (Ratio/2) Rgn R? (Ratio/2) Ratio of Medians (Ratio/3) Ratio of Means (Ratio/3) Median of Ratios (Ratio/3) Mean of Ratios (Ratio/3) Ratios SD (Ratio/3) Rgn Ratio (Ratio/3) Rgn R? (Ratio/3) F Pixels B Pixels Sum of Medians Sum of Means VALUE Log Ratio (Ratio/2) Log Ratio (Ratio/3) F635 Median - B635 F532 Median - B532 F3 Median - B3 F4 Median - B4 F635 Mean - B635 F532 Mean - B532 F3 Mean - B3 F4 Mean - B4 Flags Normalize
1 1710 4570 200 49 50 13 49 51 22 6 0 0 42 43 7 42 44 23 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1.857 1.558 3.185 0.843 0.446 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1474 0 2 Error Error 0 0 0 0 1 1 0 0 -75 0
2 1960 4570 200 49 51 14 49 51 22 8 0 0 43 46 42 42 44 24 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.5 1.571 1.65 3.305 71.784 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1383 1 6 Error Error 0 1 0 0 2 4 0 0 -75 0
3 2220 4570 200 48 51 15 49 51 14 19 4 0 42 42 7 42 43 11 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 100000 1.764 1.927 3.285 43.618 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1355 -1 2 Error Error -1 0 0 0 2 0 0 0 -75 0
4 2470 4570 200 49 51 14 49 51 15 16 4 0 42 43 7 42 43 15 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 1.818 1.945 3.31 44.127 0.001 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1201 0 3 Error Error 0 0 0 0 2 1 0 0 -75 0
5 2730 4570 200 49 50 13 49 51 14 13 3 0 42 43 9 42 42 15 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1.6 1.528 3.777 21.866 0.003 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1118 0 2 Error Error 0 0 0 0 1 1 0 0 -75 0
6 2980 4570 200 49 50 14 49 51 16 14 4 0 41 43 20 42 43 16 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1.528 1.64 3.287 0.433 0.058 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1104 -1 2 Error Error 0 -1 0 0 1 1 0 0 -75 0
7 3240 4570 200 51 53 15 51 53 15 17 3 0 42 43 9 42 43 20 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 1.765 1.683 3.695 0.165 0.042 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1119 0 3 Error Error 0 0 0 0 2 1 0 0 -75 0
8 3490 4570 200 50 53 15 50 51 14 17 6 0 42 42 8 42 43 23 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 2 1.993 3.521 0.01 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1179 0 3 Error Error 0 0 0 0 3 0 0 0 -75 0
9 3750 4570 200 49 50 13 50 52 14 13 2 0 42 43 7 42 43 19 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 0 1.817 1.5 3.715 0.054 0.002 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1372 -1 1 Error Error -1 0 0 0 0 1 0 0 -75 0
10 4000 4570 200 50 53 15 50 52 15 17 6 0 43 43 7 42 43 9 12 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 2 1.816 3.115 21.823 0.002 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1337 1 4 Error Error 0 1 0 0 3 1 0 0 -75 0
11 4260 4570 200 51 52 15 50 53 15 17 4 0 43 44 8 42 44 15 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 1.792 1.731 3.42 1.935 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1188 2 4 0 Error Error 1 1 0 0 2 2 0 0 -75 0
12 4510 4570 200 50 52 14 51 53 15 15 2 0 43 43 7 43 49 165 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 100000 1.6 1.768 3.378 0.013 0.026 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1143 -1 1 Error Error -1 0 0 0 1 0 0 0 -75 0
13 4760 4570 200 51 53 15 51 53 14 19 5 0 43 44 7 43 49 155 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 1.536 1.771 3.495 0.014 0.008 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1296 0 3 Error Error 0 0 0 0 2 1 0 0 -75 0
14 5020 4570 200 53 53 14 51 53 14 16 4 0 44 78 452 43 45 10 9 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0.057 1.817 1.706 3.327 0.003 0.003 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1379 3 37 1 Error Error 2 1 0 0 2 35 0 0 -75 0
15 5270 4570 200 51 53 15 51 53 14 19 5 0 42 43 7 43 44 11 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 1.964 1.874 3.367 31.757 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1398 -1 2 Error Error 0 -1 0 0 2 0 0 0 -75 0
16 5530 4570 200 50 52 15 51 53 14 17 4 0 43 45 15 43 44 11 9 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 0.5 1.789 1.651 3.401 12.326 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1416 -1 3 Error Error -1 0 0 0 1 2 0 0 -75 0
17 5780 4570 200 53 54 15 51 53 14 19 5 0 43 45 17 43 44 8 17 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 1.5 2 2.047 3.042 3.105 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1647 2 5 Error Error 2 0 0 0 3 2 0 0 -75 0
18 6430 1710 4820 200 52 53 16 49 51 15 21 6 0 49 50 13 42 44 15 23 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.429 0.5 1.125 1.097 3.243 0.248 0.006 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1501 10 12 -1.222 Error Error 3 7 0 0 4 8 0 0 -50 0
19 6427 1950 4830 100 59 61 16 48 50 16 37 12 0 81 81 18 42 44 11 97 81 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.282 0.333 0.436 0.385 3.177 0.308 0.022 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 525 50 52 -1.826 Error Error 11 39 0 0 13 39 0 0 0 0
20 6424 2210 4840 140 53 54 16 50 52 16 19 5 0 81 84 21 42 44 16 94 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.077 0.095 0.322 0.3 2.829 0.024 0.001 0 0 0 0 0 0 0 0 0 0 0 0 0 0 156 901 42 46 -3.7 Error Error 3 39 0 0 4 42 0 0 0 0

Total number of rows: 13872

Table truncated, full table size 3270 Kbytes.




Supplementary file Size Download File type/resource
GSM51355.gpr.gz 933.7 Kb (ftp)(http) GPR

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