Data Set Group2: BXD aging hippocampus transcriptome-QTL mapping project (samples of Phase I plus phase II and III)
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Contact Information |
Lu Lu
University of Tennessee Health Science Center
71 S. Manassas, Room 410K
Memphis, TN 38163 USA
Tel. 901 448-7557
lulu@uthsc.edu
Website
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Download datasets and supplementary data files |
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Specifics of this Data Set: |
UTHSC BXD Aged Hippocampus Affy MoGene1.0 ST (May15) RMA Gene Level **
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Summary: |
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About the cases used to generate this set of data: |
The study included 97 mice (12~32-month-old except 1 BXD101 mouse) from C57BL/6J and 56 BXD strains. All procedures were approved by the UTHSC Institutional Animal Care and Use Committee.
The table of samples that are finally used for this study.
Index
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Sample ID
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Case ID
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Strain
|
Sex
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Age
|
Tissue
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1
|
A46
|
051209.20
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BXD1
|
F
|
477
|
Hippocampus
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2
|
A36
|
042909.47
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BXD2
|
F
|
609
|
Hippocampus
|
3
|
A35
|
042909.46
|
BXD2
|
M
|
609
|
Hippocampus
|
4
|
A50
|
022807.04
|
BXD2
|
M
|
483
|
Hippocampus
|
5
|
A54
|
052008.18
|
BXD9
|
F
|
631
|
Hippocampus
|
6
|
A53
|
052008.17
|
BXD9
|
M
|
631
|
Hippocampus
|
7
|
A16B
|
021113.01
|
BXD11
|
F
|
741
|
Hippocampus
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8
|
A17B
|
021113.02
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BXD11
|
F
|
741
|
Hippocampus
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9
|
A14
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020409.01
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BXD12
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F
|
850
|
Hippocampus
|
10
|
A13
|
020409.03
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BXD12
|
M
|
850
|
Hippocampus
|
11
|
A51
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022807.11
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BXD16
|
F
|
455
|
Hippocampus
|
12
|
A10
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020409.28
|
BXD18
|
F
|
548
|
Hippocampus
|
13
|
A6
|
020409.08
|
BXD22
|
F
|
675
|
Hippocampus
|
14
|
A49
|
020107.15
|
BXD23
|
M
|
512
|
Hippocampus
|
15
|
A8
|
020409.21
|
BXD24
|
F
|
636
|
Hippocampus
|
16
|
A9
|
020409.29
|
BXD24
|
F
|
639
|
Hippocampus
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17
|
A55
|
052008.36
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BXD25
|
F
|
430
|
Hippocampus
|
18
|
A67
|
052008.115
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BXD25
|
M
|
709
|
Hippocampus
|
19
|
A20
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020107.18
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BXD28
|
M
|
605
|
Hippocampus
|
20
|
A24
|
040109.92
|
BXD31
|
F
|
445
|
Hippocampus
|
21
|
A7
|
020409.31
|
BXD31
|
F
|
648
|
Hippocampus
|
22
|
A79
|
031407.18
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BXD31
|
F
|
467
|
Hippocampus
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23
|
A32
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042909.71
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BXD32
|
M
|
566
|
Hippocampus
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24
|
A26
|
040109.79
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BXD33
|
F
|
683
|
Hippocampus
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25
|
A101
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050609.35
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BXD34
|
F
|
414
|
Hippocampus
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26
|
A56
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052008.51
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BXD34
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F
|
549
|
Hippocampus
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27
|
A90B
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101513.06
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BXD34
|
F
|
554
|
Hippocampus
|
28
|
A90B2
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101513.07
|
BXD34
|
F
|
748
|
Hippocampus
|
29
|
A47
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020107.25
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BXD38
|
M
|
530
|
Hippocampus
|
30
|
A5
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020409.19
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BXD39
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F
|
661
|
Hippocampus
|
31
|
A105
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051209.56
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BXD40
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F
|
451
|
Hippocampus
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32
|
A39
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020409.73
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BXD40
|
F
|
728
|
Hippocampus
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33
|
A40
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042909.19
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BXD40
|
F
|
633
|
Hippocampus
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34
|
A99
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050609.76
|
BXD43
|
M
|
616
|
Hippocampus
|
35
|
A74
|
042607.13
|
BXD44
|
F
|
564
|
Hippocampus
|
36
|
A75
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042607.14
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BXD44
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F
|
564
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Hippocampus
|
37
|
A23
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040109.88
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BXD45
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M
|
631
|
Hippocampus
|
38
|
A100B
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101513.10
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BXD48
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F
|
740
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Hippocampus
|
39
|
A45
|
051209.29
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BXD48
|
M
|
740
|
Hippocampus
|
40
|
A93
|
050609.04
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BXD50
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F
|
778
|
Hippocampus
|
41
|
A92
|
041709.11
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BXD51
|
M
|
621
|
Hippocampus
|
42
|
A68
|
052008.134
|
BXD55
|
F
|
778
|
Hippocampus
|
43
|
A69
|
052008.135
|
BXD55
|
F
|
766
|
Hippocampus
|
44
|
A70
|
052008.139
|
BXD56
|
F
|
734
|
Hippocampus
|
45
|
A42
|
051209.66
|
BXD56
|
M
|
694
|
Hippocampus
|
46
|
A4B
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101513.14
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BXD60
|
F
|
759
|
Hippocampus
|
47
|
A33
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042909.52
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BXD60
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M
|
457
|
Hippocampus
|
48
|
A11
|
020409.14
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BXD61
|
F
|
702
|
Hippocampus
|
49
|
A57
|
052008.63
|
BXD61
|
M
|
650
|
Hippocampus
|
50
|
A106B
|
121214.20
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BXD62
|
F
|
353
|
Hippocampus
|
51
|
A21
|
040109.91
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BXD62
|
F
|
699
|
Hippocampus
|
52
|
A98
|
050609.28
|
BXD63
|
M
|
972
|
Hippocampus
|
53
|
A58
|
052008.67
|
BXD65
|
F
|
808
|
Hippocampus
|
54
|
A97
|
050609.39
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BXD65
|
M
|
601
|
Hippocampus
|
55
|
A72
|
042507.19
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BXD66
|
F
|
557
|
Hippocampus
|
56
|
A73
|
042507.20
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BXD66
|
F
|
557
|
Hippocampus
|
57
|
A59
|
052008.71
|
BXD67
|
F
|
649
|
Hippocampus
|
58
|
A71
|
042607.11
|
BXD67
|
F
|
606
|
Hippocampus
|
59
|
A76
|
042607.27
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BXD68
|
F
|
623
|
Hippocampus
|
60
|
A77
|
042607.28
|
BXD68
|
F
|
623
|
Hippocampus
|
61
|
A27B
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061913.13
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BXD69
|
F
|
558
|
Hippocampus
|
62
|
A86
|
112707.08
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BXD69
|
F
|
602
|
Hippocampus
|
63
|
A37
|
042909.28
|
BXD70
|
F
|
761
|
Hippocampus
|
64
|
A38
|
042909.29
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BXD70
|
F
|
761
|
Hippocampus
|
65
|
A12
|
020409.11
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BXD71
|
F
|
701
|
Hippocampus
|
66
|
A2
|
020409.49
|
BXD71
|
F
|
582
|
Hippocampus
|
67
|
A60
|
052008.81
|
BXD73
|
F
|
642
|
Hippocampus
|
68
|
A81
|
011007.16
|
BXD73
|
F
|
544
|
Hippocampus
|
69
|
A78
|
031407.10
|
BXD74
|
M
|
804
|
Hippocampus
|
70
|
A80
|
011107.08
|
BXD75
|
F
|
535
|
Hippocampus
|
71
|
A61
|
052008.83
|
BXD77
|
F
|
659
|
Hippocampus
|
72
|
A84
|
061407.18
|
BXD80
|
F
|
443
|
Hippocampus
|
73
|
A62
|
052008.86
|
BXD80
|
M
|
710
|
Hippocampus
|
74
|
A96
|
050609.25
|
BXD81
|
F
|
434
|
Hippocampus
|
75
|
A48
|
061307.30
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BXD83
|
F
|
612
|
Hippocampus
|
76
|
A85
|
121907.10
|
BXD83
|
M
|
617
|
Hippocampus
|
77
|
A34
|
020409.80
|
BXD84
|
F
|
564
|
Hippocampus
|
78
|
A87
|
112707.12
|
BXD84
|
F
|
592
|
Hippocampus
|
79
|
A25
|
020409.12
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BXD85
|
F
|
702
|
Hippocampus
|
80
|
A31
|
020409.13
|
BXD85
|
F
|
702
|
Hippocampus
|
81
|
A1
|
020409.35
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BXD86
|
F
|
613
|
Hippocampus
|
82
|
A15
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020409.36
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BXD86
|
F
|
613
|
Hippocampus
|
83
|
A63
|
052008.97
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BXD87
|
F
|
666
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Hippocampus
|
84
|
A64
|
052008.98
|
BXD87
|
M
|
666
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Hippocampus
|
85
|
A65
|
052008.100
|
BXD89
|
M
|
616
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Hippocampus
|
86
|
A66
|
052008.105
|
BXD90
|
F
|
452
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Hippocampus
|
87
|
A44B
|
100914.09
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BXD95
|
F
|
536
|
Hippocampus
|
88
|
A107
|
051209.01
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BXD96
|
F
|
479
|
Hippocampus
|
89
|
A43
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051209.52
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BXD96
|
F
|
608
|
Hippocampus
|
90
|
A104
|
051209.03
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BXD96
|
M
|
479
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Hippocampus
|
91
|
A41
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051209.65
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BXD96
|
M
|
748
|
Hippocampus
|
92
|
A82
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061407.15
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BXD97
|
F
|
536
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Hippocampus
|
93
|
A83
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061407.16
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BXD97
|
F
|
536
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Hippocampus
|
94
|
A108
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051209.62
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BXD100
|
M
|
577
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Hippocampus
|
95
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A30B
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051112.10
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BXD101
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F
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223
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Hippocampus
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96
|
A52
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052008.03
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C57BL/6J
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F
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650
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Hippocampus
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97
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A103
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052008.01
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C57BL/6J
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M
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756
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Hippocampus
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About the tissue used to generate this set of data: |
Tissue Harvest
The animals were sacrificed under saturated isoflurane. The hippocampus from the animals was dissected and stored at −80°C until RNA extraction.
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About the array platform: |
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About data values and data processing: |
Raw microarray data were normalized using the Robust Multichip Array (RMA) method. The expression data were then re-normalized using a modified Z score.
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Notes: |
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Experiment Type: |
RNA Extraction
RNA was extracted using the RNeasy mini kit (Qiagen, Valencia, CA, USA) according to the manufacturers’ procedure. 2100 BioAnalyzer (Agilent Technologies) was used to evaluate RNA integrity and quality. Samples with RNA Integrity Numbers (RIN values) > 8.0 were run on Affy MoGene1.0 ST at the UTHSC.
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Contributor: |
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Citation: |
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Data source acknowledgment: |
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Study Id: |
315
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GeneNetwork support from:
- The UT Center for Integrative and Translational Genomics
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- NIDA NIDA Core Center of Excellence in Transcriptomics, Systems Genetics,
and the Addictome (P30 DA044223, 2017-2022)
- NIA Translational Systems Genetics of Mitochondria, Metabolism, and Aging (R01AG043930, 2013-2018)
- NIAAA Integrative Neuroscience Initiative on Alcoholism (U01 AA016662, U01 AA013499, U24 AA013513, U01 AA014425, 2006-2017)
- NIDA, NIMH, and NIAAA (P20-DA 21131, 2001-2012)
- NCI MMHCC (U01CA105417), NCRR, BIRN, (U24 RR021760)
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