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Sample GSM51357 Query DataSets for GSM51357
Status Public on Jun 15, 2005
Title H4 ORF replicate 1
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 GPL2046
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
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 Rē (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 Rē (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 Rē (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 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 Rē (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 Rē (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 Rē (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 1540 4030 200 142 151 75 143 152 73 17 4 0 93 104 130 93 97 48 9 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 0.727 2.118 1.987 3.936 4.908 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1323 -1 19 Error Error -1 0 0 0 8 11 0 0 -75 0
2 1800 4030 200 138 145 70 139 149 73 14 3 0 92 96 34 91 96 51 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -1 1.2 2 2.214 4.136 0.072 0.002 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1084 0 11 Error Error -1 1 0 0 6 5 0 0 -75 0
3 2050 4030 200 139 151 73 137 149 72 21 5 0 94 95 28 91 94 28 18 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.667 3.5 2.167 2.266 3.703 38.505 0.003 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1084 5 18 -0.585 Error Error 2 3 0 0 14 4 0 0 -75 0
4 2310 4030 200 139 153 75 139 150 70 21 8 0 91 94 30 90 95 48 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3.5 2.58 2.78 3.705 131.617 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1084 1 18 Error Error 0 1 0 0 14 4 0 0 -75 0
5 2560 4030 200 134 144 72 141 147 68 18 4 0 91 93 30 89 94 47 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -3.5 0.75 2.321 2.357 3.892 96.336 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1084 -5 7 Error Error -7 2 0 0 3 4 0 0 -75 0
6 2820 4030 200 128 141 73 141 148 70 17 4 0 92 96 30 89 93 29 20 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -4.333 0 2.5 2.828 4.304 0.012 0.001 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1084 -10 7 Error Error -13 3 0 0 0 7 0 0 -75 0
7 3070 4030 200 138 148 71 139 150 72 16 4 0 90 93 28 90 94 30 14 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100000 3 2.409 2.51 4.369 0.027 0.003 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1097 -1 12 Error Error -1 0 0 0 9 3 0 0 -75 0
8 3330 4030 200 130 143 73 141 149 71 15 3 0 92 99 58 91 93 27 19 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -11 0.25 2.75 2.385 3.98 52.471 0.001 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1122 -10 10 Error Error -11 1 0 0 2 8 0 0 -75 0
9 3580 4030 200 145 152 75 142 151 73 18 4 0 89 93 28 92 94 27 15 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -1 10 2.406 2.532 3.783 0.023 0.002 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1135 0 11 Error Error 3 -3 0 0 10 1 0 0 -75 0
10 3840 4030 200 144 155 76 139 149 72 22 5 0 90 94 30 91 94 29 15 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -5 5.333 2.698 2.372 4.342 0.01 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1135 4 19 Error Error 5 -1 0 0 16 3 0 0 -75 0
11 4090 4030 200 140 147 69 140 151 75 17 3 0 93 95 28 91 95 30 17 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.75 2.353 2.446 3.53 934.597 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1135 2 11 Error Error 0 2 0 0 7 4 0 0 -75 0
12 4350 4030 200 141 154 80 143 151 73 20 5 0 88 96 51 93 97 51 5 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4 3.667 2.361 2.241 4.934 13.126 0.001 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1135 -7 14 -1.322 Error Error -2 -5 0 0 11 3 0 0 -75 0
13 4600 4030 200 140 152 76 139 147 69 21 7 0 94 95 27 92 96 51 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.5 4.333 2.76 2.39 4.091 0.011 0.001 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1135 3 16 -1 Error Error 1 2 0 0 13 3 0 0 -75 0
14 4860 4030 200 137 148 66 143 149 70 17 2 0 89 93 30 92 95 29 15 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 5 2.054 2.41 4.196 699.602 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1211 -9 6 1 Error Error -6 -3 0 0 5 1 0 0 -75 0
15 5110 4030 200 144 149 69 143 149 68 16 4 0 95 96 27 90 94 31 16 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.2 1 2.313 2.362 3.932 35.568 0.002 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1345 6 12 -2.322 Error Error 1 5 0 0 6 6 0 0 -75 0
16 5370 4030 200 132 141 68 144 152 70 11 4 0 92 94 28 90 93 29 15 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -6 -0.75 2.765 2.449 3.772 32.905 0.004 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1401 -10 1 Error Error -12 2 0 0 -3 4 0 0 -75 0
17 5620 4030 200 141 148 69 141 154 79 13 2 0 91 93 29 90 105 514 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2.333 2.409 2.43 4.124 0.013 0.001 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1659 1 10 Error Error 0 1 0 0 7 3 0 0 -75 0
18 1540 4280 200 142 150 69 138 148 73 17 3 0 88 91 26 90 96 61 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -2 12 2.451 2.642 3.933 0.031 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 1160 2 13 Error Error 4 -2 0 0 12 1 0 0 -75 0
19 1800 4280 200 143 153 74 136 147 72 20 5 0 86 93 48 88 96 69 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -3.5 3.4 2.385 2.029 5.247 6.599 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 938 5 22 Error Error 7 -2 0 0 17 5 0 0 -75 0
20 2050 4280 200 139 148 69 137 148 75 15 2 0 90 92 28 89 93 35 13 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 3.667 2.5 2.086 3.739 0.005 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 316 900 3 14 1 Error Error 2 1 0 0 11 3 0 0 -75 0

Total number of rows: 13872

Table truncated, full table size 3419 Kbytes.




Supplementary file Size Download File type/resource
GSM51357.gpr.gz 1.1 Mb (ftp)(http) GPR

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