Project description:To assess the requirement of Ptbp2 for alternative mRNA expression in mouse brain RNA from the cortex of 4 wild type and 4 Ptbp2 KO E18.5 mice. One array per sample (biological replicate), 8 arrays total.
Project description:Purpose: To gain insight into why Dpy30∆P acinar cells fail to express terminal makers, we performed RNA-seq using E18.5 control and Dpy30∆P pancreata. Methods: Floxed Dpy30 mice were crossed to Pdx1-Cre driver mice to obtain conditional deletion of Dpy30 exon 4 in the pancreas. In all studies, knockout mice (Dpy30∆P, Pdx1-Cre; Dpy30flox/flox) were compared to littermate controls (Dpy30flox/flox or Dpy30flox/wt). Results: Differential gene expression analysis demonstrated that endocrine cell hormones such as Ins2 and acinar cell digestive enzymes were downregulated in the E18.5 Dpy30∆P pancreas compared to controls. GO term analysis indicated that genes involved in pancreatic secretion, digestion and proteolysis were reduced in Dpy30∆P cells. Notably, transcripts with very high expression levels (above 9000 FPKM) were more downregulated in the E18.5 Dpy30∆P pancreas compared to transcripts with lower expression levels. Conclusions: Overall, these data suggest increased variation in acinar cell transcript expression in the Dpy30∆P pancreas.
Project description:Comparisons of placenta gene expression profiles of BAHD1-KO mice to those of wild-type littermate mice. We used DNA microarrays to identify the repertoire of genes differentially expressed by ablation of the BAHD1 gene in the placenta at embryonic day E18.5
Project description:To further explore the mechanism of SYISL knockout on muscle fiber development, we performed 10X Genomics single-cell RNA sequencing of leg muscles from E18.5-day WT and KO fetal mice from the same litter.
Project description:To observe the difference in fetal pancreas between Setd2 WT and KO mice, we performed single cell seq to elucidate the discrapency.
Project description:Tumours induce de novo steroidogenesis in immune cells. We wanted to define the gene expression identity of intratumoural steroidogenic immune cells and compare them with the transcriptome with non-steroidogenic cells. Cyp11a1 expression is a faithful biomarker of de novo steroidogenesis (i.e. Cyp11a1+ cells are steroidogenic and Cyp11a1- cells are non-steroidogenic). We inoculated B16-F10 tumor in Cyp11a1-mCherry reporter mice, enriched and purified intratumoral Cyp11a1-mCherry+ and Cyp11a1-mCherry- cells by cell sorting into 96-well plates [with a ratio of 79:15 (mCherry+ : mCherry-) cells per plate] and performed scRNA-seq using SMART-Seq2 platform.
Project description:Zfp800 was identified by Gene Co-expression Network analysis to be an interesting candidate gene involved in endocrine specification and β-cell maturation. We found that Zfp800 null mice exhibited early post-natal lethality, and at E18.5 their pancreata exhibited a reduced number of pancreatic endocrine cells, alterations in exocrine cell morphology, and marked changes in genes involved in protein translation, hormone secretion, and developmental pathways in the pancreas.
