++ +The March 2005 data set consists of a total of 102 array pairs (Affymetrix 430A and 430B) from 49 different genotypes. Each sample consists of whole cerebellum taken from three adult animals of the same age and sex. Two sets of technical replicates (BXD14 n = 2; BXD29 n = 3) were combined before generating group means; giving a total of 101 biologically independent data sets. The two reciprocal F1s (D2B6F1 and B6D2F1) were combined to give a single F1 mean estimate of gene expression. 430A and 430B arrays were processed in three large batches. The first batch (May03 data) consists of 17 samples from 17 strains balanced by sex (8M and 9F). The second batch consists of 29 samples, and includes biological replicates, 2 technical replicates, and data for 9 new strains. The third batch consists of 56 samples, and also includes biological replicates, 2 technical replicates, and data for 15 additional strains.
+ +Replication and Sample Balance: Our goal is to obtain data for independent biological sample pools from both sexes for each strain. Six of 48 genotypes are still represented by single samples: BXD5, BXD13, BXD20, BXD23, BXD27 are female-only strains, whereas BXD25, BXD77, BXD90 are male-only. Ten strains are represented by three independent samples with the following breakdown by sex: C57BL/6J (1F 2M), DBA/2J (2F 1M), B6D2F1 (1F 2M), BXD2 (2F 1M), BXD11 (2F 1M), BXD28 (2F 1M), BXD40 (2F 1M), BXD51 (1F 2M), BXD60 (1F 2M), BXD92 (2F 1M).
+ +The age range of samples is relatively narrow. Only 18 samples were taken from animals older than 99 days and only two samples are older than 7 months of age. BXD11 includes an extra (third) 441-day-old female sample and the BXD28 includes an extra 427-day-old sample.
+ +RNA was extracted at UTHSC by Lu Lu, Zhiping Jia, and Hongtao Zhai.
+ +All samples were subsequently processed at the Hartwell Center Affymetrix laboratory at SJCRH by Jay Morris.
+
The table below summarizes information on strain, sex, age, sample name, and batch number.+ +
+-- cgit v1.2.3+ +
++ + ++ ++ +
++ +Id +Strain +Sex +Age ++ +SampleName
++ +BatchID
+Source ++ +1 +C57BL/6J +F +116 ++ +R0773C
++ +2
+UAB ++ +2 +C57BL/6J +M +109 ++ +R0054C
++ +1
+JAX ++ +3 +C57BL/6J +M +71 ++ +R1450C
++ +3
+UTM DG ++ +4 +DBA/2J +F +71 ++ +R0175C
++ +1
+UAB ++ +5 +DBA/2J +F +91 ++ +R0782C
++ +2
+UAB ++ +6 +DBA/2J +M +62 ++ +R1121C
++ +3
+UTM RW ++ +7 +B6D2F1 +F +60 ++ +R1115C
++ +3
+UTM RW ++ +8 +B6D2F1 +M +94 ++ +R0347C
++ +1
+JAX ++ +9 +B6D2F1 +M +127 ++ +R0766C
++ +2
+UTM JB ++ +10 +D2B6F1 +F +57 ++ +R1067C
++ +3
+UTM RW ++ +11 +D2B6F1 +M +60 ++ +R1387C
++ +3
+UTM RW ++ +12 +BXD1 +F +57 ++ +R0813C
++ +2
+UAB ++ +13 +BXD1 +M +181 ++ +R1151C
++ +3
+UTM JB ++ +14 +BXD2 +F +142 ++ +R0751C
++ +1
+UAB ++ +15 +BXD2 +F +78 ++ +R0774C
++ +2
+UAB ++ +16 +BXD2 +M +61 ++ +R1503C
++ +3
+HarvardU GR ++ + +17 +BXD5 +F +56 ++ +R0802C
++ +2
+UMemphis ++ +18 +BXD6 +F +92 ++ +R0719C
++ +1
+UMemphis ++ +19 +BXD6 +M +92 ++ +R0720C
++ +3
+UMemphis ++ +20 +BXD8 +F +72 ++ +R0173C
++ +1
+UAB ++ +21 +BXD8 +M +59 ++ +R1484C
++ +3
+HarvardU GR ++ +22 +BXD9 +F +86 ++ +R0736C
++ +3
+UMemphis ++ +23 +BXD9 +M +86 ++ +R0737C
++ +1
+UMemphis ++ +24 +BXD11 +F +441 ++ +R0200C
++ +1
+UAB ++ +25 +BXD11 +F +97 ++ +R0791C
++ +3
+UAB ++ +26 +BXD11 +M +92 ++ +R0790C
++ +2
+UMemphis ++ +27 +BXD12 +F +130 ++ +R0776C
++ +2
+UAB ++ +28 +BXD12 +M +64 ++ +R0756C
++ +2
+UMemphis ++ +29 +BXD13 +F +86 ++ +R1144C
++ +3
+UMemphis ++ +30 +BXD14 +F +190 ++ +R0794C
++ +2
+UAB ++ +31 +BXD14 +F +190 ++ +R0794C
++ +3
+UAB ++ +32 +BXD14 +M +91 ++ +R0758C
++ +2
+UMemphis ++ + +33 +BXD14 +M +65 ++ +R1130C
++ +3
+UTM RW ++ +34 +BXD15 +F +60 ++ +R1491C
++ +3
+HarvardU GR ++ +35 +BXD15 +M +61 ++ +R1499C
++ +3
+HarvardU GR ++ +36 +BXD16 +F +163 ++ +R0750C
++ +1
+UAB ++ +37 +BXD16 +M +61 ++ +R1572C
++ +3
+HarvardU GR ++ +38 +BXD19 +F +61 ++ +R0772C
++ +2
+UAB ++ +39 +BXD19 +M +157 ++ +R1230C
++ +3
+UTM JB ++ +40 +BXD20 +F +59 ++ +R1488C
++ +3
+HarvardU GR ++ +41 +BXD21 +F +116 ++ +R0711C
++ +1
+UAB ++ +42 +BXD21 +M +64 ++ +R0803C
++ +2
+UMemphis ++ +43 +BXD22 +F +65 ++ +R0174C
++ +1
+UAB ++ +44 +BXD22 +M +59 ++ +R1489C
++ +3
+HarvardU GR ++ +45 +BXD23 +F +88 ++ +R0814C
++ +2
+UAB ++ +46 +BXD24 +F +71 ++ +R0805C
++ +2
+UMemphis ++ +47 +BXD24 +M +71 ++ +R0759C
++ +2
+UMemphis ++ +48 +BXD25 +M +90 ++ +R0429C
++ +1
+UTM RW ++ +49 +BXD27 +F +60 ++ +R1496C
++ +3
+HarvardU GR ++ +50 +BXD28 +F +113 ++ +R0785C
++ +2
+UTM RW ++ +51 +BXD28 +M +79 ++ +R0739C
++ +3
+UMemphis ++ +52 +BXD29 +F +82 ++ +R0777C
++ +2
+UAB ++ +53 +BXD29 +M +76 ++ +R0714C
++ +1
+UMemphis ++ +54 +BXD29 +M +76 ++ +R0714C
++ +2
+UMemphis ++ +55 +BXD29 +M +76 ++ +R0714C
++ +3
+UMemphis ++ +56 +BXD31 +F +142 ++ +R0816C
++ +2
+UAB ++ +57 +BXD31 +M +61 ++ +R1142C
++ +3
+UTM RW ++ +58 +BXD32 +F +62 ++ +R0778C
++ +2
+UAB ++ +59 +BXD32 +M +218 ++ +R0786C
++ +2
+UAB ++ +60 +BXD33 +F +184 ++ +R0793C
++ +2
+UAB ++ +61 +BXD33 +M +124 ++ +R0715C
++ +1
+UAB ++ +62 +BXD34 +F +56 ++ +R0725C
++ +1
+UMemphis ++ + +63 +BXD34 +M +91 ++ +R0789C
++ +2
+UMemphis ++ +64 +BXD36 +F +64 ++ +R1667C
++ +3
+UTM RW ++ +65 +BXD36 +M +61 ++ +R1212C
++ +3
+UMemphis ++ +66 +BXD38 +F +55 ++ +R0781C
++ +2
+UAB ++ +67 +BXD38 +M +65 ++ +R0761C
++ +2
+UMemphis ++ +68 +BXD39 +F +59 ++ +R1490C
++ +3
+HarvardU GR ++ +69 +BXD39 +M +165 ++ +R0723C
++ +1
+UAB ++ +70 +BXD40 +F +56 ++ +R0718C
++ +2
+UMemphis ++ +71 +BXD40 +M +73 ++ +R0812C
++ +2
+UMemphis ++ +72 +BXD42 +F +100 ++ +R0799C
++ +2
+UAB ++ +73 +BXD42 +M +97 ++ +R0709C
++ +1
+UMemphis ++ +74 +BXD43 +F +61 ++ +R1200C
++ +3
+UTM RW ++ +75 +BXD43 +M +63 ++ +R1182C
++ +3
+UTM RW ++ +76 +BXD44 +F +61 ++ +R1188C
++ +3
+UTM RW ++ +77 +BXD44 +M +58 ++ +R1073C
++ +3
+UTM RW ++ +78 +BXD45 +F +63 ++ +R1404C
++ +3
+UTM RW ++ +79 +BXD45 +M +93 ++ +R1506C
++ +3
+UTM RW ++ +80 +BXD48 +F +64 ++ +R1158C
++ +3
+UTM RW ++ +81 +BXD48 +M +65 ++ +R1165C
++ +3
+UTM RW ++ +82 +BXD51 +F +66 ++ +R1666C
++ +3
+UTM RW ++ +83 +BXD51 +M +62 ++ +R1180C
++ +3
+UTM RW ++ +84 +BXD51 +M +79 ++ +R1671C
++ +3
+UTM RW ++ +85 +BXD60 +F +64 ++ +R1160C
++ +3
+UTM RW ++ +86 +BXD60 +M +61 ++ +R1103C
++ +3
+UTM RW ++ +87 +BXD60 +M +99 ++ +R1669C
++ +3
+UTM RW ++ +88 +BXD62 +M +61 ++ +R1149C
++ +3
+UTM RW ++ +89 +BXD62 +M +60 ++ +R1668C
++ +3
+UTM RW ++ +90 +BXD69 +F +60 ++ +R1440C
++ +3
+UTM RW ++ +91 +BXD69 +M +64 ++ +R1197C
++ +3
+UTM RW ++ +92 +BXD73 +F +60 ++ +R1276C
++ +3
+UTM RW ++ +93 +BXD73 +M +77 ++ +R1665C
++ +3
+UTM RW ++ +94 +BXD77 +M +62 ++ +R1424C
++ +3
+UTM RW ++ +95 +BXD85 +F +79 ++ +R1486C
++ +3
+UTM RW ++ +96 +BXD85 +M +79 ++ +R1487C
++ +3
+UTM RW ++ +97 +BXD86 +F +58 ++ +R1408C
++ +3
+UTM RW ++ +98 +BXD86 +M +58 ++ +R1412C
++ +3
+UTM RW ++ +99 +BXD90 +M +74 ++ +R1664C
++ +3
+UTM RW ++ +100 +BXD92 +F +62 ++ +R1391C
++ +3
+UTM RW ++ +101 +BXD92 +F +63 ++ +R1670C
++ +3
+UTM RW ++ + +102 +BXD92 +M +59 ++ +R1308C
++ +3
+UTM RW +