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Sample GSM128873 Query DataSets for GSM128873
Status Public on Nov 01, 2006
Title H3K36Ac in WT vs genomic DNA replicate 2
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 2 _array 023
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 5178 5190 1776 34 1549 1549 1718 1186 69 89 80 0 4880 4589 1585 34 2214 2214 2365 1095 46 83 63 0 1.361 1.533 1.438 1.389 1.942 1.418 0.803 156 1087 100 6295 6016 -0.041 3629 2666 3641 2375 809715 715898 2.927
2 5796 5681 3035 53 1495 1495 1552 410 26 84 81 0 4675 4525 1999 44 2173 2173 2218 378 17 84 80 0 1.719 1.78 1.645 1.597 1.953 1.767 0.759 156 809 100 6803 6538 0.296 4301 2502 4186 2352 886299 705950 10.071
3 4406 4018 2143 53 1533 1533 1639 578 35 78 75 0 4125 3807 1921 50 2209 2209 2283 465 20 75 73 0 1.499 1.555 1.306 1.224 1.916 1.308 0.777 156 854 100 4789 4083 0.099 2873 1916 2485 1598 626852 593819 4.116
4 5183 5165 2936 56 1562 1562 1685 618 36 80 78 0 4777 4674 2407 51 2239 2239 2320 496 21 78 75 0 1.427 1.48 1.292 1.313 1.954 1.373 0.785 120 726 100 6159 6038 0.027 3621 2538 3603 2435 619858 560869 5.631
5 5565 5102 2464 48 1522 1522 1745 998 57 81 78 0 5106 4727 2004 42 2230 2230 2379 753 31 81 78 0 1.406 1.434 1.343 1.33 2.287 1.361 0.807 156 827 100 6919 6077 0.006 4043 2876 3580 2497 795877 737450 3.364
6 5203 5100 2925 57 1527 1527 1825 1142 62 76 71 0 5846 5443 2870 52 2269 2269 2556 1348 52 77 69 0 1.028 1.126 1.009 0.972 1.719 1.081 0.827 156 958 100 7253 6747 -0.446 3676 3577 3573 3174 795545 849064 2.868
7 3938 10240 11681 114 1525 1525 1672 922 55 60 52 0 6008 13934 13916 99 2251 2251 2479 1543 62 57 50 0 0.642 0.746 0.664 0.654 4.064 0.758 0.639 80 490 100 6170 20398 -1.123 2413 3757 8715 11683 819214 1114735 9.293
8 11280 9922 5271 53 1513 1513 1707 1063 62 82 80 0 6910 6200 3106 50 2255 2255 2357 623 26 82 77 0 2.098 2.132 1.915 1.753 1.924 2.021 0.841 156 820 100 14422 12354 0.584 9767 4655 8409 3945 1547797 967221 7.728
9 8042 7702 3624 47 1522 1522 2071 2273 109 83 76 0 7157 6893 2840 41 2237 2237 2600 1440 55 85 80 0 1.325 1.327 1.281 1.23 2.016 1.435 0.845 156 862 100 11440 10836 -0.08 6520 4920 6180 4656 1201481 1075263 2.477
10 18899 18945 9782 51 1487 1487 2961 4884 164 86 81 0 10440 10142 4644 45 2189 2189 2958 2474 83 87 77 0 2.11 2.195 2.041 1.806 2.043 2.219 0.878 156 887 100 25663 25411 0.592 17412 8251 17458 7953 2955359 1582076 3.273
11 6446 5844 2549 43 1467 1467 2790 4472 160 62 0 0 5670 5069 2093 41 2154 2154 2837 2218 78 80 20 0 1.416 1.502 1.371 1.248 1.756 1.924 0.878 156 970 100 8495 7292 0.016 4979 3516 4377 2915 911623 790834 0.683
12 5621 4969 2773 55 1481 1481 2187 1838 84 72 55 0 5272 4672 2473 52 2179 2179 2636 1240 47 75 65 0 1.339 1.399 1.261 1.062 2.207 1.389 0.78 120 746 100 7233 5981 -0.065 4140 3093 3488 2493 596298 560588 1.514
13 7781 7241 2707 37 1439 1439 1748 1150 65 88 87 0 6404 5795 2217 38 2150 2150 2361 802 33 86 85 0 1.491 1.592 1.476 1.435 1.622 1.514 0.853 208 955 100 10596 9447 0.091 6342 4254 5802 3645 1506091 1205435 4.777
14 3828 4711 8046 170 1415 1415 1761 1746 99 61 21 0 3956 4748 7160 150 2107 2107 2387 1433 60 58 24 0 1.305 1.248 1.235 1.177 2.314 1.192 0.918 316 1433 100 4262 5937 -0.102 2413 1849 3296 2641 1488660 1500269 1.69
15 4196 3712 1453 39 1373 1373 1474 528 35 85 79 0 4685 4086 1574 38 2023 2023 2118 512 24 85 80 0 1.06 1.134 1.081 0.902 2.248 1.065 0.801 120 683 100 5485 4402 -0.402 2823 2662 2339 2063 445385 490323 4.239
16 3921 3802 1832 48 1424 1424 1525 475 31 83 82 0 3623 3415 1595 46 2074 2074 2148 449 20 78 69 0 1.612 1.773 1.55 1.376 2.413 1.434 0.672 156 945 100 4046 3719 0.203 2497 1549 2378 1341 593074 532776 4.794
17 4112 3789 1679 44 1473 1473 1574 548 34 82 79 0 4854 4369 1751 40 2115 2115 2182 440 20 85 82 0 0.963 1.028 0.989 0.973 1.696 0.994 0.762 156 821 100 5378 4570 -0.54 2639 2739 2316 2254 591122 681595 4.042
18 7649 7683 2700 35 1512 1512 1771 1146 64 92 90 0 5747 5679 1885 33 2211 2211 2368 735 31 91 87 0 1.736 1.779 1.75 1.678 2.194 1.727 0.845 156 879 100 9673 9639 0.31 6137 3536 6171 3468 1198571 885863 5.159
19 3827 3603 1702 47 1573 1573 1875 1213 64 74 43 0 4282 4021 1665 41 2288 2288 2483 825 33 80 60 0 1.13 1.171 1.12 1.051 1.872 1.298 0.727 156 910 100 4248 3763 -0.309 2254 1994 2030 1733 562091 627233 1.425
20 7859 7621 3420 44 1560 1560 1829 1067 58 89 88 0 6022 5936 2407 40 2303 2303 2528 870 34 87 83 0 1.694 1.668 1.574 1.535 2 1.603 0.836 156 941 100 10018 9694 0.275 6299 3719 6061 3633 1188928 926065 5.428

Total number of rows: 19200

Table truncated, full table size 3930 Kbytes.




Supplementary file Size Download File type/resource
GSM128873.gpr.gz 1.9 Mb (ftp)(http) GPR

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