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EugOT / CN-pr-MDD-snRNA-seq

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CN-pr-MDD-snRNA-seq

Run Run View
Load snRNA-seq MDD data for individual visualisation Open In Colab Open In kaggle View the notebook
Load snRNA-seq MDD data for joint analysis Open In Colab Open In kaggle View the notebook
Analysis Open In Colab n/a View the notebook

Approach

The "Analysis" notebook contains data processing resulting in CSV files (see directory results), one for each group (male-case, male-control, female-case, female-control), which contains PV interneuron cells from that group and their expression of 10 selected genes that determine the PV interneuron celltype. These data from the CSV files were used for statistical testing using SPSS. The csv file contains for each column the gene marker and the expression per sample entry, this allows the furher statistical analysis using SPSS.

Results

We conducted a two-factor analysis without measurement repetition to research the effect of sex (male vs. female) and condition (MDD vs. healthy) on the amount of gene expression for PV cells. Normal distribution of data can be assumed because there are way more than 30 cells per group. Homogenity of variances of group-popuations is checked by the Levene-test. Even after log-transformation of the data, the test is still significant, showing that variances are still heterogen. Therefore, our results need to be interpreted with caution.

We found a significant main effect of the factor sex for the gene marker ADAMTS17. The amount of gene expression is significantly larger for females than for males. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly higher gene expression than healthy individuals. For male sex, healthy individuals have a significantly larger gene expression than depressive patients.

We found a significant main effect of the factor sex and condition for the gene marker ERBB4. The amount of gene expression is significantly larger for females than for males and significantly larger for healthy individuals than for depressive patients. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly lower gene expression than healthy individuals. Same is true for male sex.

We found a significant main effect of the factor condition for the gene marker DPP10. The amount of gene expression is significantly larger for depressive patients than for healthy individuals. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly lower gene expression than healthy individuals. For male sex, healthy individuals have a significantly lower gene expression than depressive patients.

We found a significant main effect of the factor sex for the gene marker ZNF804A. The amount of gene expression is significantly larger for females than for males. Moreover, we found a significant main effect of the factor condition. The amount of gene expression is significantly larger for depressive patients than for healthy individuals.

We found a significant main effect of the factor sex and condition for the gene marker MYO16. The amount of gene expression is significantly larger for females than for males and for depressive patients than for healthy individuals. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly higher gene expression than healthy individuals. Same is true for male sex.

We found a significant main effect of the factor sex and condition for the gene marker BTBD11. The amount of gene expression is significantly larger for females than for males and for depressive patients than for healthy individuals. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly higher gene expression than healthy individuals. Same is true for male sex.

We found a significant main effect of the factor sex and condition for the gene marker GRIA4. The amount of gene expression is significantly larger for females than for males and for depressive patients than for healthy individuals. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly higher gene expression than healthy individuals. Same is true for male sex.

We found a significant main effect of the factor sex and condition for the gene marker SLIT2. The amount of gene expression is significantly larger for females than for males and for depressive patients than for healthy individuals.

We found a significant main effect of the factor sex and condition for the gene marker SDK1. The amount of gene expression is significantly larger for females than for males and for depressive patients than for healthy individuals. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly higher gene expression than healthy individuals. Same is true for male sex.

We found a significant main effect of the factor sex and condition for the gene marker PVALB. The amount of gene expression is significantly lower for females than for males and for depressive patients than for healthy individuals. Moreover, the interaction between male vs. female and MDD vs. healthy was significant. The tests of those effects showed, that for female sex, depressive patients have a significantly higher gene expression than healthy individuals. For male sex, healthy individuals have a significantly larger gene expression than depressive patients.