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Sample GSM4649 Query DataSets for GSM4649
Status Public on Mar 28, 2003
Title BMM_C3H/HeJ_time0h
Sample type RNA
 
Channel 1
Source name Total RNA from bone marrow derived macrophage from C3H/HeJ mice
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name Total RNA from C57BL6/J 17.5 days whole embryo
Organism Mus musculus
Extracted molecule total RNA
 
 
Description Total RNA was extracted using Qiagen RNeasy midi-kit from bone marrow macrophages in-vitro differentiated using human colony stimulator factor-1 (CSF-1) or from C57BL6/J 17.5 whole embryo.
The cDNA derived from the total RNA was labeled using the amino-alyll indirect labeling with Cy3 mono-reactive dye.
 
Submission date Feb 28, 2003
Last update date Nov 21, 2005
Contact name Timothy Ravasi
E-mail(s) travasi@bioeng.ucsd.edu
Phone +1-858-822-4705
Fax +1-858-822-4246
URL http://chianti.ucsd.edu/travasi
Organization name University of California-San Diego
Department Department of Bioengineering
Street address 9500 Gilman Drive
City San Diego
State/province CA
ZIP/Postal code 92093-0412
Country USA
 
Platform ID GPL256
Series (3)
GSE326 BMM_C3H/HeJ_LPS_timecourse
GSE3148 Macrophage response to lipopolysaccharide
GSE6435 LPS timecourse

Data table header descriptions
ID_REF
VALUE same as UNF_VALUE but with flagged values removed
CH1_MEAN raw signal divided by the area over which the raw signal was measured for Cy3
CH2_MEAN raw signal divided by the area over which the raw signal was measured for Cy5
CH1_SD standard deviation calculated for the mean signal in Cy3
CH2_SD standard deviation calculated for the mean signal in Cy5
CH1_BKD_MEAN raw background signal divided by the area over which the raw background signal was measured for Cy3
CH2_BKD_MEAN raw background signal divided by the area over which the raw background signal was measured for Cy5
CH1_BKD_SD standard deviation calculated for the mean background signal for Cy3
CH2_BKD_SD standard deviation calculated for the mean background signal for Cy5
QUALITY Quality of the spot in Cy3 and Cy5 channels, "0" = good spots and "1" = bad spots
PRE_VALUE normalized (Cy3_signal mean-Cy3 bkd mean)/normalized (Cy5 signal mean-Cy5 background mean)
UNF_VALUE log ratio of PRE_VALUE

Data table
ID_REF VALUE CH1_MEAN CH2_MEAN CH1_SD CH2_SD CH1_BKD_MEAN CH2_BKD_MEAN CH1_BKD_SD CH2_BKD_SD QUALITY PRE_VALUE UNF_VALUE
1 -0.1513173 124.496185 59.251907 117.270386 63.683773 49.246376 0.628019 52.797295 3.135707 0 0.705802429 -0.1513173
2 -0.5195483 106.626869 113.805969 100.693771 106.485825 47.738609 0.624347 53.074688 3.25354 0 0.302309814 -0.5195483
3 -0.1530553 713.248108 450.842102 863.257507 520.831055 48.669781 0.612928 52.733749 3.089607 0 0.702983431 -0.1530553
4 177.109482 115.343063 234.097504 256.526154 47.814255 0.62275 52.70636 3.220515 1 0.583824099 -0.2337183
5 0.2819123 278.40741 59.42963 397.171661 82.889801 48.832653 0.632653 53.001068 3.193962 0 1.913866765 0.2819123
6 -0.3154273 232.969467 191.251907 187.067123 178.641861 49.311447 0.625421 53.348637 3.139346 0 0.483697011 -0.3154273
7 0.3430703 182.810608 31.348484 234.841232 46.543877 48.663773 0.641673 52.780926 3.137639 0 2.203281719 0.3430703
8 -0.1962753 544.442749 374.068695 553.046814 375.71817 49.316048 0.664198 53.133728 3.243352 0 0.636392371 -0.1962753
9 0.2241993 755.8797 201.022552 822.816162 229.052795 49.216084 0.655565 53.629581 3.197017 0 1.675710478 0.2241993
10 -0.0921143 92.631577 33.293232 91.461929 43.949348 48.896019 0.622258 52.994347 3.140541 0 0.808882619 -0.0921143
11 -0.4347673 412.834595 480.451141 316.348114 425.11145 49.149704 0.630782 53.308144 3.143458 0 0.367479784 -0.4347673
12 0.3020943 6859.061035 1590.251953 4552.128906 1014.262268 49.289623 0.629928 52.726849 3.139266 0 2.004907288 0.3020943
13 0.5719943 151.956207 14.642336 119.089668 21.551752 49.155098 0.636675 53.317432 3.166333 0 3.732448713 0.5719943
14 -0.0647213 79.330826 24.586466 114.949532 43.767696 48.17012 0.631165 53.372288 3.240172 0 0.861546097 -0.0647213
15 1.2001523 78.321167 1.335766 73.737442 5.477595 47.669964 0.61673 53.004017 3.231828 0 15.85447514 1.2001523
16 0.6143453 210.66423 19.948906 200.140839 28.547396 49.105743 0.618651 53.144581 3.12298 0 4.114766809 0.6143453
17 0.2970493 214.700729 42.372261 210.123077 49.278442 49.108547 0.637607 53.313679 3.163136 0 1.981751512 0.2970493
18 -0.1649983 195.82222 109.881485 196.64537 103.928391 49.006599 0.687294 53.51786 3.320664 0 0.68391555 -0.1649983
19 0.1021293 107.918518 26.933332 150.020889 54.347473 48.586452 0.630279 52.733131 3.128646 0 1.265111282 0.1021293
20 0.0106433 573.083984 245.351151 492.265564 226.327286 49.168179 0.639736 53.126209 3.171072 0 1.024808987 0.0106433

Total number of rows: 19828

Table truncated, full table size 2332 Kbytes.




Supplementary data files not provided
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