Data Set Group2: UTHSC BXD Aged Hippocampus Affy Mouse Gene 1.0 ST (Sep12)

Data Set: UTHSC BXD Aged Hippocampus Affy Mouse Gene 1.0 ST (Sep12) RMA Exon Level GN Accession: GN392 GEO Series: No Geo series yet Title: Organism: Mouse (Mus musculus, mm10) Group: BXD Tissue: Hippocampus mRNA Dataset Status: Private Platforms: Affy Mouse Gene 1.0 ST (GPL6246) Normalization: RMA

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 Download datasets and supplementary data files

Specifics of this Data Set:

Exon Level Data

Summary:

About the cases used to generate this set of data:

The study includes 137 mice (11~25 months old) from 73 strains (B6, D2, DBF1, and 70 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 Strain Sex RNA ID Age Phase Tissue 1 BXD1 F R7281H 448 II Hippocampus 2 BXD1 M R7276H 323 II Hippocampus 3 BXD2 M R7261H 394 I Hippocampus 4 BXD2 F R7256H 456 I Hippocampus 5 BXD6 M R7223H 526 I Hippocampus 6 BXD8 M R7203H 471 I Hippocampus 7 BXD8 F R7200H 460 I Hippocampus 8 BXD8 F R7198H 433 I Hippocampus 9 BXD9 F R7294H 456 II Hippocampus 10 BXD11 M R7300H 457 II Hippocampus 11 BXD11 F R7227H 536 I Hippocampus 12 BXD12 F R7183H 506 I Hippocampus 13 BXD12 F R7233H 561 I Hippocampus 14 BXD12 M R7234H 606 I Hippocampus 15 BXD14 F R7238H 605 I Hippocampus 16 BXD14 M R7235H 605 I Hippocampus 17 BXD16 F R7236H 561 I Hippocampus 18 BXD16 M R7239H 475 I Hippocampus 19 BXD18 F R7229H 493 I Hippocampus 20 BXD19 F R7267H 551 I Hippocampus 21 BXD19 M R7268H 492 I Hippocampus 22 BXD20 M R7232H 506 I Hippocampus 23 BXD20 M R7263H 489 I Hippocampus 24 BXD21 F R7230H 537 I Hippocampus 25 BXD22 F R7260H 502 I Hippocampus 26 BXD22 M R7262H 596 I Hippocampus 27 BXD23 F R7258H 502 I Hippocampus 28 BXD23 M R7257H 462 I Hippocampus 29 BXD24 M R7231H 470 I Hippocampus 30 BXD24 F R7228H 415 I Hippocampus 31 BXD24 F R7255H 456 I Hippocampus 32 BXD25 F R7252H 454 I Hippocampus 33 BXD27 F R7286H 472 II Hippocampus 34 BXD27 F R7170H 472 I Hippocampus 35 BXD28 M R7254H 493 I Hippocampus 36 BXD28 F R7251H 543 I Hippocampus 37 BXD29 F R7259H 483 I Hippocampus 38 BXD33 M R7253H 464 I Hippocampus 39 BXD33 F R7174H 471 I Hippocampus 40 BXD33 F R7244H 448 I Hippocampus 41 BXD33 M R7270H 662 I Hippocampus 42 BXD38 F R7242H 464 I Hippocampus 43 BXD38 M R7247H 446 I Hippocampus 44 BXD39 M R7250H 536 I Hippocampus 45 BXD39 F R7173H 500 I Hippocampus 46 BXD39 M R7175H 500 I Hippocampus 47 BXD40 F R7288H 451 II Hippocampus 48 BXD40 M R7210H 470 I Hippocampus 49 BXD40 M R7197H 614 I Hippocampus 50 BXD42 F R7280H 518 II Hippocampus 51 BXD42 M R7246H 446 I Hippocampus 52 BXD42 F R7266H 486 I Hippocampus 53 BXD43 F R7249H 454 I Hippocampus 54 BXD43 M R7248H 462 I Hippocampus 55 BXD44 M R7241H 415 I Hippocampus 56 BXD44 M R7279H 419 II Hippocampus 57 BXD44 F R7243H 438 I Hippocampus 58 BXD45 F R7176H 451 I Hippocampus 59 BXD48 F R7245H 499 I Hippocampus 60 BXD48 M R7220H 526 I Hippocampus 61 BXD48a F R7299H 479 II Hippocampus 62 BXD48a M R7297H 479 II Hippocampus 63 BXD50 F R7224H 530 I Hippocampus 64 BXD50 M R7221H 530 I Hippocampus 65 BXD51 F R7177H 487 I Hippocampus 66 BXD51 M R7290H 407 II Hippocampus 67 BXD55 M R7222H 528 I Hippocampus 68 BXD55 F R7225H 587 I Hippocampus 69 BXD56 M R7178H 501 I Hippocampus 70 BXD62 M R7291H 439 II Hippocampus 71 BXD63 M R7218H 438 I Hippocampus 72 BXD63 F R7215H 475 I Hippocampus 73 BXD64 M R7219H 528 I Hippocampus 74 BXD64 F R7216H 587 I Hippocampus 75 BXD65 F R7217H 425 I Hippocampus 76 BXD65a F R7273H 389 II Hippocampus 77 BXD65a M R7277H 715 II Hippocampus 78 BXD65b M R7271H 483 II Hippocampus 79 BXD66 M R7214H 463 I Hippocampus 80 BXD66 F R7302H 446 III Hippocampus 81 BXD67 F R7240H 499 I Hippocampus 82 BXD67 M R7213H 425 I Hippocampus 83 BXD67 F R7278H 415 II Hippocampus 84 BXD68 M R7212H 421 I Hippocampus 85 BXD68 F R7211H 415 I Hippocampus 86 BXD69 F R7305H 504 III Hippocampus 87 BXD70 F R7207H 458 I Hippocampus 88 BXD70 M R7204H 460 I Hippocampus 89 BXD71 M R7205H 471 I Hippocampus 90 BXD71 F R7208H 474 I Hippocampus 91 BXD73 F R7209H 470 I Hippocampus 92 BXD73 M R7206H 464 I Hippocampus 93 BXD73a F R7181H 443 I Hippocampus 94 BXD73a M R7182H 614 I Hippocampus 95 BXD76 M R7179H 579 I Hippocampus 96 BXD76 F R7188H 408 I Hippocampus 97 BXD76 M R7187H 564 I Hippocampus 98 BXD77 M R7292H 347 II Hippocampus 99 BXD77 F R7201H 454 I Hippocampus 100 BXD79 M R7202H 485 I Hippocampus 101 BXD79 F R7199H 515 I Hippocampus 102 BXD79 M R7298H 704 II Hippocampus 103 BXD81 M R7196H 515 I Hippocampus 104 BXD81 F R7190H 458 I Hippocampus 105 BXD83 M R7184H 441 I Hippocampus 106 BXD84 M R7195H 474 I Hippocampus 107 BXD84 M R7296H 484 II Hippocampus 108 BXD84 F R7192H 522 I Hippocampus 109 BXD85 M R7272H 425 II Hippocampus 110 BXD85 F R7193H 506 I Hippocampus 111 BXD86 M R7191H 425 I Hippocampus 112 BXD87 F R7194H 425 I Hippocampus 113 BXD87 M R7303H 478 III Hippocampus 114 BXD87 M R7186H 442 I Hippocampus 115 BXD89 F R7295H 446 II Hippocampus 116 BXD90 M R7287H 434 II Hippocampus 117 BXD90 M R7293H 558 II Hippocampus 118 BXD95 F R7180H 467 I Hippocampus 119 BXD95 M R7169H 467 I Hippocampus 120 BXD98 M R7237H 605 I Hippocampus 121 BXD98 F R7171H 639 I Hippocampus 122 BXD98 F R7275H 488 II Hippocampus 123 BXD99 M R7189H 524 I Hippocampus 124 BXD99 F R7172H 471 I Hippocampus 125 BXD100 F R7282H 463 II Hippocampus 126 BXD100 M R7283H 507 II Hippocampus 127 BXD100 M R7274H 577 II Hippocampus 128 BXD100 F R7226H 464 I Hippocampus 129 BXD101 F R7284H 490 II Hippocampus 130 BXD101 M R7285H 408 II Hippocampus 131 C57BL/6J M R7264H 489 I Hippocampus 132 C57BL/6J M R7289H 756 II Hippocampus 133 D2B6F1 M R7265H 492 I Hippocampus 134 D2B6F1 F R7304H 495 III Hippocampus 135 DBA/2J F R7185H 433 I Hippocampus 136 DBA/2J M R7269H 367 I Hippocampus 137 DBA/2J F R7301H 566 III Hippocampus

About the tissue used to generate this set of data:

Tissue Harvest  The animals were sacrificed under saturated isoflurane. Hippocampus from the animals were dissected and stored at −80°C until RNA extraction.

About the array platform:

About data values and data processing:

About 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.

Notes:

Experiment Type:

RNA Extraction RNA was extracted using the RNeasy mini kit (Qiagen, Valencia, CA, USA) according to the manufactures’ 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

Contributor:

Citation:

Data source acknowledgment:

Study Id:

156

• The UT Center for Integrative and Translational Genomics
• NIGMS Systems Genetics and Precision Medicine project (R01 GM123489, 2017-2021)
• 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)