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Last data update: 2014.03.03 |
Gene expressions data frameDescriptionThis dataset concerns hepatic transciptome profiles of 43 half sib male chickens selected for their variability on abdominal fatness (AF). Genes are in rows (9893 genes) and arrays in columns (43 arrays). Usagedata(expression) FormatA data frame with 9893 genes on 43 arrays. SourceUMR Genetique Animale - INRA/AGROCAMPUS OUEST - Rennes, France. ReferencesBlum Y., Le Mignon G., Lagarrigue S. and Causeur S. (2010) - A factor model to analyze heterogeneity in gene expression, BMC Bioinformatics, 11:368. Le Mignon, G. and Desert, C. and Pitel, F. and Leroux, S. and Demeure, O. and Guernec, G. and Abasht, B. and Douaire, M. and Le Roy, P. and Lagarrigue S. (2009) - Using trancriptome profling to characterize QTL regions on chicken chromosome 5. BMC Genomics, 10:575. Examplesdata(expression) dim(expression) summary(expression) Results
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> library(FAMT)
Loading required package: mnormt
Loading required package: impute
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/FAMT/expression.Rd_%03d_medium.png", width=480, height=480)
> ### Name: expression
> ### Title: Gene expressions data frame
> ### Aliases: expression
> ### Keywords: datasets
>
> ### ** Examples
>
> data(expression)
> dim(expression)
[1] 9893 43
> summary(expression)
F10 F11 F12
Min. :-2.011421 Min. :-1.608523 Min. :-1.700474
1st Qu.:-0.135637 1st Qu.:-0.116874 1st Qu.:-0.121469
Median : 0.001919 Median : 0.004662 Median :-0.002131
Mean :-0.009833 Mean :-0.005718 Mean : 0.007683
3rd Qu.: 0.134417 3rd Qu.: 0.117226 3rd Qu.: 0.123068
Max. : 1.359141 Max. : 1.256430 Max. : 1.705768
F13 F14 F15
Min. :-1.790068 Min. :-1.766696 Min. :-2.241575
1st Qu.:-0.139264 1st Qu.:-0.146568 1st Qu.:-0.152460
Median :-0.001906 Median : 0.003445 Median :-0.000513
Mean :-0.005362 Mean :-0.010441 Mean :-0.012792
3rd Qu.: 0.134327 3rd Qu.: 0.139990 3rd Qu.: 0.148687
Max. : 1.540552 Max. : 1.807338 Max. : 1.468605
F16 F17 F18
Min. :-2.514690 Min. :-2.48283 Min. :-1.940813
1st Qu.:-0.160606 1st Qu.:-0.17346 1st Qu.:-0.157292
Median : 0.006339 Median : 0.01067 Median :-0.005562
Mean :-0.005458 Mean :-0.01057 Mean : 0.016746
3rd Qu.: 0.167214 3rd Qu.: 0.16307 3rd Qu.: 0.165632
Max. : 1.282971 Max. : 1.28285 Max. : 1.869885
F19 F2 F20
Min. :-2.0094561 Min. :-1.986077 Min. :-1.701923
1st Qu.:-0.1782030 1st Qu.:-0.109696 1st Qu.:-0.146899
Median : 0.0009314 Median : 0.004227 Median :-0.006296
Mean :-0.0074821 Mean :-0.010827 Mean :-0.001202
3rd Qu.: 0.1695601 3rd Qu.: 0.103815 3rd Qu.: 0.134187
Max. : 1.5199119 Max. : 1.531671 Max. : 1.612713
F3 F4 F6
Min. :-1.99920 Min. :-2.134182 Min. :-1.4572401
1st Qu.:-0.17660 1st Qu.:-0.122474 1st Qu.:-0.1148788
Median : 0.00763 Median : 0.003168 Median :-0.0001294
Mean :-0.01281 Mean :-0.001384 Mean : 0.0015218
3rd Qu.: 0.17258 3rd Qu.: 0.120185 3rd Qu.: 0.1120125
Max. : 1.32696 Max. : 1.179770 Max. : 1.9991910
F7 F8 F9
Min. :-7.364741 Min. :-1.88466 Min. :-1.922621
1st Qu.:-0.152464 1st Qu.:-0.13151 1st Qu.:-0.211223
Median : 0.004063 Median : 0.00121 Median :-0.003584
Mean :-0.013987 Mean : 0.02202 Mean : 0.018061
3rd Qu.: 0.150419 3rd Qu.: 0.14597 3rd Qu.: 0.215203
Max. : 1.371834 Max. : 2.01549 Max. : 2.401077
L1 L10 L11
Min. :-2.2972947 Min. :-1.562629 Min. :-1.729512
1st Qu.:-0.1853443 1st Qu.:-0.117344 1st Qu.:-0.103342
Median : 0.0006101 Median : 0.001218 Median : 0.001965
Mean :-0.0217476 Mean : 0.001160 Mean : 0.010967
3rd Qu.: 0.1733225 3rd Qu.: 0.118393 3rd Qu.: 0.109848
Max. : 1.1688821 Max. : 1.403562 Max. : 1.544458
L13 L14 L15
Min. :-3.781676 Min. :-2.4244666 Min. :-3.920040
1st Qu.:-0.126035 1st Qu.:-0.1705216 1st Qu.:-0.134764
Median :-0.000144 Median : 0.0008194 Median : 0.004605
Mean :-0.003500 Mean :-0.0156997 Mean :-0.008862
3rd Qu.: 0.126552 3rd Qu.: 0.1566426 3rd Qu.: 0.132283
Max. : 1.397752 Max. : 1.4298372 Max. : 1.412435
L16 L17 L18
Min. :-2.071009 Min. :-2.0092686 Min. :-1.981661
1st Qu.:-0.126313 1st Qu.:-0.1202413 1st Qu.:-0.143865
Median : 0.001158 Median :-0.0048756 Median : 0.004784
Mean :-0.004618 Mean :-0.0007115 Mean :-0.009848
3rd Qu.: 0.126060 3rd Qu.: 0.1194884 3rd Qu.: 0.139904
Max. : 1.223658 Max. : 1.4971801 Max. : 1.484923
L19 L2 L20 L3
Min. :-2.738110 Min. :-2.36588 Min. :-1.713217 Min. :-2.00765
1st Qu.:-0.149418 1st Qu.:-0.18120 1st Qu.:-0.129245 1st Qu.:-0.13489
Median :-0.007004 Median : 0.01049 Median : 0.002042 Median : 0.01021
Mean : 0.017063 Mean :-0.01870 Mean :-0.007380 Mean :-0.01575
3rd Qu.: 0.157723 3rd Qu.: 0.16988 3rd Qu.: 0.121107 3rd Qu.: 0.13339
Max. : 1.653101 Max. : 1.57308 Max. : 1.591856 Max. : 1.39640
L4 L5 L6 L7
Min. :-2.28687 Min. :-1.966614 Min. :-2.529255 Min. :-1.757364
1st Qu.:-0.16706 1st Qu.:-0.151381 1st Qu.:-0.169193 1st Qu.:-0.130553
Median :-0.00844 Median : 0.002178 Median : 0.003302 Median : 0.002726
Mean : 0.01162 Mean :-0.013593 Mean :-0.003391 Mean : 0.012614
3rd Qu.: 0.16904 3rd Qu.: 0.140174 3rd Qu.: 0.174735 3rd Qu.: 0.133259
Max. : 1.81583 Max. : 1.490459 Max. : 1.365493 Max. : 1.796618
L8 L9 NC1
Min. :-5.275895 Min. :-1.669086 Min. :-2.4177465
1st Qu.:-0.139046 1st Qu.:-0.154711 1st Qu.:-0.1520423
Median : 0.009674 Median :-0.008989 Median :-0.0006777
Mean : 0.008280 Mean : 0.019030 Mean :-0.0117320
3rd Qu.: 0.143856 3rd Qu.: 0.158977 3rd Qu.: 0.1474473
Max. : 2.695756 Max. : 1.867330 Max. : 1.4172989
NC2 NC3 NC4
Min. :-1.9917190 Min. :-3.029314 Min. :-2.5242621
1st Qu.:-0.0952114 1st Qu.:-0.125494 1st Qu.:-0.1195324
Median :-0.0000082 Median :-0.002868 Median : 0.0001221
Mean :-0.0030031 Mean : 0.001070 Mean : 0.0075017
3rd Qu.: 0.0945845 3rd Qu.: 0.126727 3rd Qu.: 0.1268147
Max. : 1.4845191 Max. : 1.468587 Max. : 1.4590756
NC5 NC6
Min. :-2.125252 Min. :-2.029268
1st Qu.:-0.215008 1st Qu.:-0.124789
Median : 0.006739 Median : 0.002873
Mean :-0.015866 Mean : 0.002796
3rd Qu.: 0.205230 3rd Qu.: 0.127294
Max. : 1.346475 Max. : 1.683860
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