Computational protocol: Hypothalamic expression of Peg3 gene is associated with maternal care differences between SM/J and LG/J mouse strains

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Protocol publication

[…] Behavioral data were compared using a two-tailed Student's t test, and the associations among nominal variables were tested by cross tabulation using a Pearson χ2 test and ϕ coefficient in SYSTAT 10.0.The base-calling quality for Oxt, FosB, and Peg3 was visually inspected using Chromas software ( Forward and reverse sequences for each gene region were manually evaluated, aligned, and compared between SM/J and LG/J strains. These analyses were also performed using the BioEdit Sequence Alignment Editor (). The GenBank (NCBI) accession numbers for SM/J and LG/J gene sequences are, respectively, HQ679943 and HQ679944 (Oxt), HQ679939 and HQ679940 (FosB), HQ679941 and HQ679942 (Peg3). The association between maternal care (absence or presence) and genotypes for the exon 9 Peg3 marker in F2 females was investigated using standard analysis of variance (ANOVA)-–General Linear Model in SAS, v.9.0 Transcript quantities were tested for a normal distribution (Kolmogorov–Smirnov test) and compared using a two-tailed Student's t test (GraphPad InStat® version 3.05, San Diego, CA). Data were expressed as mean ± standard error of the mean (SEM) or median and range. Differences were considered statistically significant when P < 0.05. […]

Pipeline specifications

Software tools Chromas, BioEdit
Application Sanger sequencing
Organisms Mus musculus
Chemicals Nucleotides