Project description:Gene expression between DLD1 and DLD1 derived oxaliplatin resistant clones (DLD/OHP1, DLD/OHP4, and DLD/OHP5) was assessed Gene expression between HCT116 and HCT116 derived oxaliplatin resistant clones (HCT/OHP1, HCT/OHP3, and HCT/OHP5) was assessed
Project description:We performed ChIP coupled with high-throughput sequencing (ChIP-seq) for H3K27me3 in DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells
Project description:Whole transciptome analysis of colon cancer mutated cell lines(HCT116 and DLD1) under serum starvation conditions (19hrs-0.5%FBS) We used microarrays to compare gene regulation of truncated cell lines, knocked-out of either the wild type or mutated allele of PI3K, for two independent colon cancer cell lines
Project description:The study aimed to identify transcripts of the protein-coding genes that could have regulatory role potentially relevant for malignant transformation of the gut mucosa and colon cancer onset and progression. The set of colon cancer cell lines (HCT116, SW620 and DLD1) and immortalized cells derived from healthy gut mucosa (HCEC-1CT) were cultivated in 3D and their transcriptomes were analyzed by RNA sequencing to profile expression for both coding and non-coding transcripts.
Project description:FOXM1 is a key transcription factor regulating cell cycle progression, DNA damage response, and a host of other hallmark cancer features, but the role of the FOXM1 cistrome in driving estrogen receptor-positive (ER+) vs. ER- breast cancer clinical outcomes remains undefined. Chromatin immunoprecipitation sequencing (ChIP-Seq) coupled with RNA sequencing (RNA-Seq) analyses was used to identify FOXM1 target genes in breast cancer cells (MCF-7) where FOXM1 expression was either induced by cell proliferation or repressed by p53 upregulation.
Project description:The Wnt/β-catenin signaling pathway plays crucial roles in nearly all parts of embryonic development and adult stem cell homeostasis. Its aberrant activation has been linked to many diseases such as developmental irregularities and various severe forms of cancer, with colorectal cancer (CRC) as a prime example. While much work has been dedicated to uncovering effective therapeutics to block oncogenic Wnt signaling, such interventions have not proven trivial because of the broad activity of Wnt throughout the adult body and the difficulty in finding suitable molecular targets. We have previously identified the developmental transcription factor TBX3 as a participant of the Wnt-mediated transcriptional regulation. Here we examine the genome-wide binding pattern of TBX3 in the human CRC cells lines HCT116 (25 replicates), DLD1 (2 replicates) and SW620 (2 replicates), by employing CUT&RUN (C&R) with Low-Volume and Urea (LoV-U; Zambanini et al., 2022).
Project description:We report the genome wide DNA binding patterns of wild type FOXM1 in asynchronous HeLa cells using chromatin precipitation followed by high-throughput sequencing (ChIP-seq). We find that FOXM1 is bound to the promoter of a number of cell cycle genes including PLK, AURKB, and CCNB1. FOXM1 ChIP-seq in asynchronous HeLa cells