Journal: Molecular psychiatry
Article Title: Characterization of Bipolar Disorder Patient-Specific Induced Pluripotent Stem Cells from a Family Reveals Neurodevelopmental and mRNA Expression Abnormalities
doi: 10.1038/mp.2015.7
Figure Lengend Snippet: ( A ) Principle components analysis (PCA) of a custom PsychGene NanoString profiles from the Family-811 quartet using all 352 of the genes reveals similar grouping of cells by cell type. ( B ) Fibroblasts, iPSCs and NPCs were compared using probes against OCT4, NANOG, SOX2, ZFP42, DNMT3B, hTERT, MYC, GFP with total RNA from the human ES cell line H9 shown for comparison. ( C ) Volcano plots of [−Log 10 (p-value) versus the Log 2 (fold change expression)] of all genes (grey dots). Significant, differentially expressed genes (> 1.5-fold comparing BD cells to unaffected cells, moderated t-test p-value < 0.05, Benjamini-Hochberg corrected) were plotted with orange dots with a subset annotated by gene name. Those genes that were also significant when members of the Family-811 quartet were compared based on sex (i.e. GM08329 versus GM8330, GM05225 and GM05225) were colored green. Gene expression differences were found to be enriched in the BD-patient NPCs and neuronal populations. Each dot represents a gene expression assay (n=3) for the cell type indicated. Error bars depict standard deviation of the measurement.
Article Snippet: Induced pluripotent stem cells (iPSCs) were derived using individual pseudotyped retroviruses expressing MYC (MSCV-h-c-MYC-IRES-GFP, Addgene# 18119), KLF4 (pMIG-hKLF4, Addgene# 17227), SOX2 (pMIG-hSOX2, Addgene# 17226), and OCT4 (pMIG-hOCT4, Addgene#17225) packaged by Harvard Gene Therapy Core (Harvard Medical School) following methods described in .
Techniques: Comparison, Expressing, Gene Expression, Standard Deviation
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![( A ) Principle components analysis (PCA) of a custom PsychGene NanoString profiles from the Family-811 quartet using all 352 of the genes reveals similar grouping of cells by cell type. ( B ) Fibroblasts, iPSCs and NPCs were compared using probes against <t>OCT4,</t> NANOG, SOX2, ZFP42, DNMT3B, hTERT, MYC, GFP with total RNA from the human ES cell line H9 shown for comparison. ( C ) Volcano plots of [−Log 10 (p-value) versus the Log 2 (fold change expression)] of all genes (grey dots). Significant, differentially expressed genes (> 1.5-fold comparing BD cells to unaffected cells, moderated t-test p-value < 0.05, Benjamini-Hochberg corrected) were plotted with orange dots with a subset annotated by gene name. Those genes that were also significant when members of the Family-811 quartet were compared based on sex (i.e. GM08329 versus GM8330, GM05225 and GM05225) were colored green. Gene expression differences were found to be enriched in the BD-patient NPCs and neuronal populations. Each dot represents a gene expression assay (n=3) for the cell type indicated. Error bars depict standard deviation of the measurement.](https://pub-med-central-images-cdn.bioz.com/pub_med_central_ids_ending_with_0839/pmc04440839/pmc04440839__nihms650919f4.jpg)