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Sample GSM109330 Query DataSets for GSM109330
Status Public on May 22, 2006
Title H3K4Me3_gastrula_3_Slide2
Sample type genomic
 
Channel 1
Source name IP H3K4Me3
Organism Danio rerio
Characteristics Zebrafish Gastrula
Extracted molecule genomic DNA
Label Cy3
 
Channel 2
Source name Whole Cell Extract
Organism Danio rerio
Characteristics Control Whole Cell Extract
Extracted molecule genomic DNA
Label Cy5
 
 
Description IPed H3K4Me3 versus Control Whole Cell Extract Replicate 3
Data processing None; Raw Data files
 
Submission date May 18, 2006
Last update date May 22, 2006
Contact name Elizabeth Herbolsheimer
E-mail(s) herbolsheimer@wi.mit.edu
Organization name Whitehead Institute
Lab Young Lab
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02140
Country USA
 
Platform ID GPL3767
Series (1)
GSE4863 Zebrafish promoter microarrays identify actively transcribed embryonic genes

Data table header descriptions
ID_REF ID reference to platfrom
VALUE raw data files; no processed value (dummy Column)
MetaColumn placement on array MetaColumn
MetaRow Placement on array MetaRow
Column Placement on array Column
Row Placement on array Row
Name Name of Probe
AID Agilent ID
B635 B635
B635 Median B635 Median
B635 Mean B635 Mean
B635 SD B635 SD
F532 Median F532 Median
F532 Mean F532 Mean
F532 SD F532 SD
Ratio of Medians (635/532) Ratio of Medians (635/532)
Ratio of Means (635/532) Ratio of Means (635/532)
Median of Ratios (635/532) Median of Ratios (635/532)
Mean of Ratios (635/532) Mean of Ratios (635/532)
Ratios SD (635/532) Ratios SD (635/532)
Sum of Medians (635/532) Sum of Medians (635/532)
Sum of Means (635/532) Sum of Means (635/532)
Log Ratio (635/532) Log Ratio (635/532)
F635 Median - B635 F635 Median - B635
F532 Median - B532 F532 Median - B532
F635 Mean - B635 F635 Mean - B635
F532 Mean - B532 F532 Mean - B532
F635 Total Intensity F635 Total Intensity
F532 Total Intensity F532 Total Intensity
Flags Flags

Data table
ID_REF VALUE MetaColumn MetaRow Column Row Name AID B635 B635 Median B635 Mean B635 SD F532 Median F532 Mean F532 SD Ratio of Medians (635/532) Ratio of Means (635/532) Median of Ratios (635/532) Mean of Ratios (635/532) Ratios SD (635/532) Sum of Medians (635/532) Sum of Means (635/532) Log Ratio (635/532) F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 F635 Total Intensity F532 Total Intensity Flags
1 null 1 1 430 103 BrightCorner Pro25G_T10_Pro25G 34 34 33 4 1686 1563 517 0.004 0.005 0.005 0.005 2.49 1654 1532 -8.102 6 1648 7 1525 3272 125041 0
2 null 1 1 430 102 BrightCorner Pro25G_T10_Pro25G 34 34 33 4 1540 1398 501 0.004 0.004 0.005 0.005 3.002 1508 1366 -7.968 6 1502 6 1360 3218 111831 0
3 null 1 1 430 101 3xSLv1 (-)3xSLv1 33 33 33 4 54 56 11 0.063 0.111 0.2 0.186 2.822 17 20 -4 1 16 2 18 1802 2923 0
4 null 1 1 430 100 Dr_0604_4_8299601+60 WH_07_P0060909 33 33 33 4 65 65 15 0.185 0.185 0.247 0.211 2.771 32 32 -2.433 5 27 5 27 3036 5176 0
5 null 1 1 430 99 Dr_0604_Un_19520004-60 WH_07_P0050678 33 33 33 4 147 145 46 0.4 0.407 0.417 0.397 1.573 154 152 -1.322 44 110 44 108 6165 11639 0
6 null 1 1 430 98 Dr_0604_5_38199913+60 WH_07_P0067569 33 33 33 4 162 158 43 0.408 0.413 0.431 0.414 1.427 176 171 -1.293 51 125 50 121 6644 12679 0
7 null 1 1 430 97 Dr_0604_NA_227407957+60 WH_07_P0078407 34 34 34 4 103 104 26 0.439 0.433 0.426 0.417 1.802 95 96 -1.186 29 66 29 67 5042 8329 0
8 null 1 1 430 96 Dr_0604_5_21232891+60 WH_07_P0066809 34 34 34 4 79 81 20 0.905 0.841 0.911 0.871 1.851 80 81 -0.144 38 42 37 44 5660 6478 0
9 null 1 1 430 95 Dr_0604_9_32119804+60 WH_07_P0065203 34 34 34 4 56 56 10 0.056 0.056 0.2 0.222 2.895 19 19 -4.17 1 18 1 18 1823 2925 0
10 null 1 1 430 94 Dr_0604_NA_35611477-60 WH_07_P0070238 33 33 33 4 67 70 17 0.333 0.273 0.303 0.297 2.331 40 42 -1.585 10 30 9 33 2187 3657 0
11 null 1 1 430 93 Dr_0604_Un_50230764-60 WH_07_P0052074 33 33 33 4 102 107 20 6.569 6.086 5.813 6.317 1.297 492 496 2.716 427 65 426 70 23846 5544 0
12 null 1 1 430 92 Dr_0604_NA_40599708-60 WH_07_P0070438 34 34 34 5 168 168 27 1.046 1.031 1.022 1.04 1.248 266 264 0.065 136 130 134 130 8734 8726 0
13 null 1 1 430 91 3xSLv1 (-)3xSLv1 33 33 33 4 59 61 11 0.136 0.125 0.25 0.215 2.408 25 27 -2.874 3 22 3 24 1868 3178 0
14 null 1 1 430 90 Dr_0604_2_12186747+60 WH_07_P0047471 33 33 33 4 902 893 146 0.235 0.239 0.236 0.239 1.131 1067 1059 -2.09 203 864 204 855 12318 46420 0
15 null 1 1 430 89 Dr_0604_5_40971371-60 WH_07_P0067818 33 33 33 5 367 359 56 1.076 1.09 1.092 1.103 1.184 685 673 0.105 355 330 351 322 19989 18691 0
16 null 1 1 430 88 Gene_desert_5-39 WH_07_P8000557 34 34 33 4 110 110 22 0.31 0.324 0.325 0.316 1.796 93 94 -1.69 22 71 23 71 2979 5712 0
17 null 1 1 430 87 Dr_0604_2_40726050+60 WH_07_P0049061 33 33 34 4 55 57 11 0.235 0.263 0.254 0.292 3.009 21 24 -2.087 4 17 5 19 1202 1825 0
18 null 1 1 430 86 Dr_0604_NA_227237000-60 WH_07_P0078400 33 33 33 5 196 202 30 0.399 0.372 0.372 0.37 1.311 221 225 -1.327 63 158 61 164 4872 10511 0
19 null 1 1 430 85 Dr_0604_3_26570052+60 WH_07_P0043703 33 33 34 4 232 230 50 5.378 5.466 5.498 5.661 1.325 1231 1235 2.427 1038 193 1044 191 56008 11943 0
20 null 1 1 430 84 Dr_0604_Un_161187278-60 WH_07_P0056182 33 33 33 5 167 156 46 0.313 0.333 0.329 0.334 1.657 168 156 -1.678 40 128 39 117 5759 12494 0

Total number of rows: 44290

Table truncated, full table size 6395 Kbytes.




Supplementary data files not provided

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