Project description:RNA-Seq profiling of Cal27 Oral squamous carcinoma cells overexpressing Cornulin (CRNN), GFP control, and untreated group (UNT) to study differential gene expression. This project investigates the transcriptomic alterations induced by the overexpression of Cornulin (CRNN) in the Cal27 human oral squamous cell carcinoma cell line. The study design included three experimental groups: (1) Cornulin-overexpressing Cal27 cells, (2) GFP-expressing Cal27 cells as vector controls, and (3) untreated Cal27 cells. Total RNA was extracted using Trizol reagent, followed by RNA quality assessment via Bioanalyzer. Strand-specific mRNA libraries were prepared using the TruSeq Stranded mRNA kit, pooled at 6 nM, and sequenced using an Illumina NovaSeq 6000 S4 flow cell in a paired-end (2x100 bp) configuration. Raw FASTQ files were analyzed by aligning to the human genome (GRCh38), and gene-level quantification was performed. Differential expression analysis was conducted using the DESeq2 R package. DEG lists from each comparison group were subjected to pre-ranked gene set enrichment analysis (GSEA) to identify enriched pathways and gene ontologies. The dataset provides insights into Cornulin-mediated gene regulation.
Project description:We identified potential TCF4 targeted genes by performing CHIP-Seq using TCF4 antibody in ABC like DLBCL cell lines. We have identified strong binding of TCF4 to enhancer elements of B-cell receptor signaling components which drives B-cell receptor signaling.
Project description:We identified potential TCF4 targeted genes by performing CHIP-Seq using TCF4 antibody in ABC like DLBCL cell lines. We have identified strong binding of TCF4 to enhancer elements of B-cell receptor signaling components which drives B-cell receptor signaling.
Project description:genome-wide ChIP-on-chip against TCF4 in LS174T cells, performed on NimbleGen Systems, Inc. human genome-wide 38-chip, hg17 array set followed by verification using biological replicates on a dedicated design.
2008-02-13 | E-TABM-402 | biostudies-arrayexpress
Project description:Wnt signaling and Cal27 sphere cells
Project description:In order to study the molecular mechanisms involving TCF4 in keratinocytes under different inflammatory responses, control and TCF4 knock down keratinocytes were stimulated with inflammatory cytokines and conducted RNA-seq to profile the gene expression.
