Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare transcriptome profiling (RNA-seq) of intestinal progenitor cells in Drosophila wild type and Sc overexpressed midgut. Methods: mRNA profiles of intestinal progenitor cells isolated from 2-day-old wild-type (Ctrl) and Sc overexpressed(ScOE) Drosophila midgut were generated by deep sequencing using Illumina HiSeq 4000. Results:
Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare transcriptome profiling (RNA-seq) of intestinal progenitor cells in Drosophila wild type and ttk-RNAi, dpn overexpressed, Nicd overexpressed and seq&Nicd overexpressed midguts Methods: mRNA profiles of intestinal progenitor cells isolated from 7-day-old wild-type (Ctrl) and ttk-RNAi, dpn overexpressed(dpn OE), Nicd overexpressed(Nicd OE) and seq&Nicd overexpressed(seq&Nicd OE) Drosophila midgut were generated by deep sequencing using Illumina HiSeq 2500. Results: ttk-RNAi in intestinal progenitor cells induces the expression of many neural-specific genes, including dpn and seq. Dpn ectopic expresion explains most of the ttk-RNAi expression profile change. Seq ectopic expression explains the expression of neural-specific Notch targets in the ttk-RNAi intestinal progenitor cells.
Project description:Transcriptome profiling of Drosophila wild type and ttk-RNAi, dpn overexpressed, Nicd overexpressed and seq&Nicd overexpressed intestinal progenitor cells
Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare transcriptome profiling (RNA-seq) of intestinal progenitor cells in Drosophila wild type and Sox21a mutant midgut. Methods: mRNA profiles of intestinal progenitor cells isolated from 7-day-old wild-type (WT) and Sox21a knockout (Sox21a−/−) Drosophila midgut were generated by deep sequencing using Illumina HiSeq 4000. Results: Each sequencing experiment generated an average 11.18 million raw reads, and 86% was successfully mapped for each experiment. 7608 transcripts were identified in the progenitor cells of WT and Sox21a−/− Drosophila midgut with TopHat workflow. 389 genes of the transcripts showed differential expression between the WT and Sox21a−/− progenitor cells, with a fold change ≥2.0 and p value <0.05. Hierarchical clustering of differentially expressed genes uncovered several as yet uncharacterized genes that may contribute to intestinal function.
Project description:Purpose: 1)To compare transcriptome profiling (RNA-seq) of intestinal progenitor cells in Drosophila wild type and Sox100B depleted/overexpressed midgut. 2)To identify cell-type enriched genes and early-transcribed EC/EE genes by comparing transcriptome profiling (RNA-seq) of different celltype of cells Results: Each sequencing experiment generated more than 20 million raw reads, and 92.5% was uniquely mapped for each experiment. 2310 genes of the transcripts showed significantly differential expression between the WT and Sox100B-OE progenitor cells, and 2181 genes of the transcripts showed significantly differential expression between the WT and Sox100B-IR progenitor cells, with a fold change ≥2.0 and p value <0.05. Genes that showed low level in progenitor cells while significantly higher level in terminally differentiated EC/EE cells were identified as early transcribed EC/EE genes. 169 genes were identified as early-transcribed EC genes and 452 genes were identified as early-transcribed EE genes.
