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Sample GSM128437 Query DataSets for GSM128437
Status Public on Nov 01, 2006
Title H3K36Ac in WT vs H3K36Ac in K36A ChIP chip replicate 2
Sample type genomic
 
Channel 1
Source name H3K36Ac in K36A ChIP DNA
Organism Saccharomyces cerevisiae
Characteristics ChIP DNA
Growth protocol BY4741 strain cells were grown to OD of 0.8-1, fixed and DNA was purified after reversing crosslinks
Extracted molecule genomic DNA
Label Cy3
Label protocol ChIP DNA was labeled using Cy3
 
Channel 2
Source name H3K36Ac in WT ChIP DNA
Organism Saccharomyces cerevisiae
Characteristics ChIP DNA
Extracted molecule genomic DNA
Label Cy5
 
 
Scan protocol Fluorescent array images were collected for both Cy3 and Cy5 with a GenePix 4000A fluorescent scanner and image intensity data were extracted and analyzed with GenePix Pro 5.0 analysi
Description Replicate 2 _array 089
Data processing After background correction and removal of flagged values, log base 2 expression ratios were median normalized
 
Submission date Aug 14, 2006
Last update date Aug 23, 2006
Contact name Jason D Lieb
E-mail(s) jlieb@bio.unc.edu
Phone 919-843-3228
Organization name UNC-Chapel Hill
Street address 203 Fordham Hall CB# 3280
City Chapel Hill
State/province NC
ZIP/Postal code 27599
Country USA
 
Platform ID GPL4075
Series (2)
GSE5541 H3K36Ac in WT vs H3K36Ac in K36A ChIP chip
GSE5544 H3K36Ac ChIP chips

Data table header descriptions
ID_REF
F635 Median
F635 Mean
F635 SD standard deviation
F635 CV
B635
B635 Median
B635 Mean
B635 SD
B635 CV
% > B635+1SD
% > B635+2SD
F635 % Sat.
F532 Median
F532 Mean
F532 SD
F532 CV
B532
B532 Median
B532 Mean
B532 SD
B532 CV
% > B532+1SD
% > B532+2SD
F532 % 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 R2 (635/532)
F Pixels
B Pixels
Circularity
Sum of Medians (635/532)
Sum of Means (635/532)
VALUE Median normalized Log2 Ratio (635/532)
F635 Median - B635
F532 Median - B532
F635 Mean - B635
F532 Mean - B532
F635 Total Intensity
F532 Total Intensity
SNR 635

Data table
ID_REF F635 Median F635 Mean F635 SD F635 CV B635 B635 Median B635 Mean B635 SD B635 CV % > B635+1SD % > B635+2SD F635 % Sat. F532 Median F532 Mean F532 SD F532 CV B532 B532 Median B532 Mean B532 SD B532 CV % > B532+1SD % > B532+2SD F532 % 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 R2 (635/532) F Pixels B Pixels Circularity Sum of Medians (635/532) Sum of Means (635/532) VALUE F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 F635 Total Intensity F532 Total Intensity SNR 635
1 3061 2841 937 32 515 515 625 490 78 95 91 0 3593 3303 1049 31 1007 1007 1119 477 42 93 85 0 0.985 1.013 0.971 1.054 1.552 1.015 0.916 156 1020 100 5132 4622 -0.16 2546 2586 2326 2296 443183 515287 4.522
2 4649 4358 1510 34 542 542 670 525 78 98 96 0 4240 3932 1300 33 1061 1061 1193 522 43 95 89 0 1.292 1.329 1.316 1.387 1.383 1.282 0.923 156 873 100 7286 6687 0.233 4107 3179 3816 2871 679887 613445 7.025
3 2501 2449 907 37 550 550 618 413 66 94 85 0 3934 3613 1346 37 1111 1111 1220 550 45 87 83 0 0.691 0.759 0.736 0.788 1.611 0.739 0.899 156 834 100 4774 4401 -0.671 1951 2823 1899 2502 382101 563657 4.433
4 1956 2055 1388 67 634 634 1094 1074 98 53 30 0 2100 2579 1481 57 1205 1205 1790 1203 67 47 25 0 1.477 1.034 1.066 1.075 2.011 0.962 0.906 80 530 100 2217 2795 null 1322 895 1421 1374 164406 206348 0.895
5 1978 2022 679 33 588 588 883 872 98 81 25 0 2866 2774 731 26 1092 1092 1437 969 67 80 43 0 0.784 0.853 0.824 0.872 1.573 0.907 0.833 156 958 100 3164 3116 null 1390 1774 1434 1682 315366 432710 1.306
6 2902 2894 1123 38 574 574 719 621 86 91 81 0 3325 3134 1125 35 996 996 1198 712 59 87 72 0 1 1.085 1.04 1.098 1.502 1.019 0.919 208 1061 100 4657 4458 null 2328 2329 2320 2138 602029 651922 3.502
7 751 952 612 64 650 650 895 824 92 18 3 0 1214 1372 671 48 1148 1148 1462 924 63 15 3 0 1.53 1.348 0.981 0.862 3.05 0.862 0.885 80 502 100 167 526 null 101 66 302 224 76122 109788 0.069
8 8515 7787 2924 37 627 627 945 1249 132 95 91 0 7130 6472 2462 38 1069 1069 1389 1106 79 92 87 0 1.301 1.325 1.333 1.402 1.484 1.309 0.963 156 952 100 13949 12563 0.242 7888 6061 7160 5403 1214711 1009686 5.478
9 2987 2887 983 34 589 589 909 1240 136 83 46 0 3572 3430 1032 30 993 993 1296 1090 84 87 66 0 0.93 0.943 0.933 0.935 1.424 1.036 0.927 208 974 100 4977 4735 null 2398 2579 2298 2437 600409 713359 1.595
10 5806 5908 1925 32 601 601 844 913 108 99 96 0 5928 5869 1759 29 1017 1017 1276 931 72 97 95 0 1.06 1.094 1.107 1.113 1.343 1.084 0.959 208 934 100 10116 10159 -0.053 5205 4911 5307 4852 1228936 1220661 5.547
11 2255 2130 690 32 627 627 890 1615 181 50 0 0 2906 2701 784 29 1041 1041 1278 924 72 83 50 0 0.873 0.905 0.933 0.901 1.428 0.952 0.912 208 1016 100 3493 3163 null 1628 1865 1503 1660 443047 561840 0.768
12 1909 1840 608 33 620 620 739 488 66 87 63 0 2724 2509 727 28 1006 1006 1148 511 44 91 73 0 0.75 0.812 0.791 0.797 1.47 0.84 0.85 208 978 100 3007 2723 null 1289 1718 1220 1503 382662 521780 2.256
13 2310 2250 698 31 617 617 757 760 100 88 59 0 2979 2809 811 28 957 957 1140 1003 87 83 51 0 0.837 0.882 0.856 0.859 1.501 0.898 0.891 208 900 100 3715 3485 null 1693 2022 1633 1852 468049 584282 1.964
14 1507 1433 447 31 643 643 772 546 70 70 26 0 2364 2221 615 27 965 965 1165 606 52 83 65 0 0.618 0.629 0.657 0.638 1.68 0.741 0.777 156 885 100 2263 2046 null 864 1399 790 1256 223623 346469 1.211
15 1875 1845 597 32 632 632 760 452 59 87 70 0 2655 2577 765 29 971 971 1174 585 49 87 73 0 0.738 0.755 0.759 0.72 1.803 0.757 0.85 156 892 100 2927 2819 -0.576 1243 1684 1213 1606 287779 402043 2.4
16 3070 2964 1024 34 631 631 736 429 58 94 89 0 3946 3682 1164 31 959 959 1121 551 49 94 85 0 0.817 0.857 0.865 0.891 1.521 0.852 0.921 156 900 100 5426 5056 -0.429 2439 2987 2333 2723 462327 574342 5.193
17 1385 1404 611 43 645 645 743 424 57 70 42 0 2398 2264 955 42 970 970 1122 527 46 76 60 0 0.518 0.587 0.561 0.559 1.704 0.667 0.836 156 891 100 2168 2053 -1.086 740 1428 759 1294 219074 353199 1.559
18 2737 2756 938 34 658 658 804 599 74 94 82 0 3174 3070 994 32 1008 1008 1183 611 51 91 79 0 0.96 1.017 1.011 1.033 1.78 0.994 0.911 208 938 100 4245 4160 -0.196 2079 2166 2098 2062 573254 638589 3.259
19 1819 1798 631 35 658 658 819 584 71 81 49 0 2764 2678 822 30 1012 1012 1232 685 55 85 70 0 0.663 0.684 0.668 0.642 1.545 0.769 0.859 156 756 100 2913 2806 null 1161 1752 1140 1666 280526 417731 1.676
20 2902 2812 1020 36 673 673 871 635 72 89 80 0 3885 3563 1238 34 1033 1033 1316 821 62 89 76 0 0.782 0.845 0.826 0.821 1.498 0.815 0.917 156 971 100 5081 4669 null 2229 2852 2139 2530 438672 555764 3.057

Total number of rows: 19200

Table truncated, full table size 3751 Kbytes.




Supplementary file Size Download File type/resource
GSM128437.gpr.gz 1.9 Mb (ftp)(http) GPR

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