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Sample GSM128876 Query DataSets for GSM128876
Status Public on Nov 01, 2006
Title H3K36Ac in WT vs genomic DNA replicate 3
Sample type genomic
 
Channel 1
Source name Genomic DNA
Organism Saccharomyces cerevisiae
Characteristics Genomic 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 Genomic 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 3 _array 099
Data processing After background correction and removal of flagged values, log base 2 expression ratios were median normalized
 
Submission date Aug 15, 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)
GSE5540 H3K36Ac vs input 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 4577 4133 2008 48 931 931 975 354 36 83 82 0 3749 3273 1600 48 1289 1289 1325 346 26 80 77 0 1.482 1.614 1.463 1.338 1.992 1.528 0.74 156 898 100 6106 5186 0.223 3646 2460 3202 1984 644707 510619 8.921
2 4865 4272 2694 63 884 884 934 390 41 78 74 0 3737 3336 1942 58 1293 1293 1327 332 25 73 71 0 1.629 1.658 1.597 1.337 2.467 1.585 0.735 156 794 100 6425 5431 0.36 3981 2444 3388 2043 666456 520423 8.559
3 4621 4628 3012 65 854 854 888 263 29 82 78 0 3353 3650 2266 62 1294 1294 1316 267 20 78 75 0 1.83 1.602 1.474 1.468 2.499 1.524 0.755 156 873 100 5826 6130 0.527 3767 2059 3774 2356 721937 569325 14.221
4 5151 5066 3141 62 822 822 868 301 34 86 84 0 4163 4313 2430 56 1302 1302 1331 281 21 87 83 0 1.513 1.409 1.341 1.393 2.193 1.396 0.802 156 890 100 7190 7255 0.252 4329 2861 4244 3011 790346 672816 13.947
5 5328 4600 2550 55 863 863 927 469 50 80 78 0 4192 3919 2079 53 1341 1341 1392 415 29 78 76 0 1.566 1.45 1.34 1.229 2.436 1.384 0.765 156 958 100 7316 6315 0.302 4465 2851 3737 2578 717580 611419 7.832
6 4959 4588 2548 55 965 965 1103 769 69 80 76 0 4984 4485 2379 53 1354 1354 1491 635 42 79 76 0 1.1 1.157 1.063 1.065 2.432 1.178 0.77 120 716 100 7624 6754 -0.208 3994 3630 3623 3131 550610 538202 4.532
7 4482 8743 9621 110 1010 1010 1108 527 47 65 61 0 7071 17234 19630 113 1423 1423 1498 498 33 67 65 0 0.615 0.489 0.593 0.515 4.216 0.426 0.629 120 716 100 9120 23544 null 3472 5648 7733 15811 1049166 2068128 14.488
8 10714 8743 5718 65 1201 1201 1206 624 51 75 73 0 6307 5404 3459 64 1478 1478 1514 500 33 72 70 0 1.97 1.921 1.752 1.581 2.098 1.878 0.753 120 694 100 14342 11468 0.633 9513 4829 7542 3926 1049154 648527 12.079
9 8373 7470 4303 57 1118 1118 1162 567 48 82 79 0 8113 7664 4074 53 1505 1505 1525 445 29 85 84 0 1.098 1.031 1.044 0.941 2.196 1.049 0.785 208 1115 100 13863 12511 -0.209 7255 6608 6352 6159 1553773 1594150 11.125
10 21535 19667 11797 59 1044 1044 1405 2148 152 79 78 0 13696 12000 7735 64 1485 1485 1751 1508 86 75 73 0 1.678 1.771 1.574 1.749 3.914 1.771 0.77 156 887 100 32702 29138 0.402 20491 12211 18623 10515 3068049 1872025 8.502
11 7311 6196 3960 63 1362 1362 1746 2241 128 67 62 0 5801 4981 3191 64 1688 1688 1981 1586 80 67 61 0 1.446 1.468 1.349 1.377 2.632 1.399 0.826 156 953 100 10062 8127 0.188 5949 4113 4834 3293 966627 777046 1.986
12 6467 5409 3696 68 1166 1166 1371 1084 79 70 66 0 5072 4314 2792 64 1534 1534 1685 799 47 69 65 0 1.498 1.526 1.256 1.136 2.36 1.44 0.809 156 915 100 8839 7023 0.239 5301 3538 4243 2780 843829 673036 3.725
13 8602 6737 4490 66 936 936 986 417 42 72 71 0 6139 5211 3457 66 1424 1424 1456 325 22 72 71 0 1.626 1.532 1.358 1.248 2.254 1.464 0.835 208 969 100 12381 9588 0.356 7666 4715 5801 3787 1401363 1083963 13.791
14 3947 3729 2816 75 863 863 917 434 47 68 66 0 3403 3200 2247 70 1386 1386 1436 402 27 67 66 0 1.529 1.58 1.27 1.081 2.46 1.401 0.764 156 828 100 5101 4680 0.268 3084 2017 2866 1814 581771 499215 6.479
15 3542 3528 2485 70 861 861 920 454 49 75 68 0 4156 3815 2412 63 1394 1394 1450 438 30 70 67 0 0.971 1.102 0.987 0.886 2.946 1.076 0.771 156 822 100 5443 5088 -0.386 2681 2762 2667 2421 550347 595178 5.744
16 5802 5630 3669 65 812 812 869 447 51 84 77 0 5339 4762 2729 57 1351 1351 1403 374 26 78 75 0 1.251 1.412 1.321 1.069 2.514 1.42 0.795 156 857 100 8978 8229 -0.022 4990 3988 4818 3411 878347 742939 10.651
17 3220 3367 2516 74 753 753 803 412 51 76 71 0 4919 4609 3002 65 1323 1323 1351 325 24 75 73 0 0.686 0.795 0.675 0.702 2.052 0.801 0.769 156 833 100 6063 5900 -0.889 2467 3596 2614 3286 525206 719080 6.223
18 9344 8310 6049 72 763 763 820 448 54 75 73 0 6023 5291 3578 67 1320 1320 1360 338 24 72 71 0 1.825 1.901 1.612 1.18 2.891 1.914 0.775 156 913 100 13284 11518 0.523 8581 4703 7547 3971 1296361 825377 16.719
19 3626 4056 2879 70 787 787 926 827 89 76 66 0 4220 4166 2716 65 1323 1323 1442 731 50 72 67 0 0.98 1.15 0.997 0.966 2.325 1.137 0.842 156 936 100 5736 6112 -0.373 2839 2897 3269 2843 632692 649889 3.785
20 7103 6925 4294 62 797 797 888 725 81 80 79 0 6104 5516 3303 59 1312 1312 1415 687 48 78 76 0 1.316 1.458 1.301 1.187 2.387 1.408 0.824 156 1030 100 11098 10332 0.051 6306 4792 6128 4204 1080297 860508 8.327

Total number of rows: 19200

Table truncated, full table size 3939 Kbytes.




Supplementary file Size Download File type/resource
GSM128876.gpr.gz 2.0 Mb (ftp)(http) GPR

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