Project description:We performed spatial transcriptomics to profile compositional and spatial distribution of hetergeneous cell populations in mucinous colorectal adenocarinoma
Project description:In order to research the variation in protein distribution in teeth, proteins were extracted from archaeological (15-18th century, Netherlands) and modern teeth and identified using LC-MS/MS. Of the recovered proteins we then visualised the distribution of collagen type I (both the alpha-1 and -2 chains), alpha-2-HS-glycoprotein, haemoglobin subunit alpha and myosin light polypeptide 6 using MALDI-MSI. We found distinct differences in the spatial distributions of different proteins as well as between some peptides of the same protein. The reason for these differences in protein spatial distribution remain unclear, yet this study highlights the ability of MALDI-MSI for visualisng the spatial distribution of proteins in archaeological biomineralised tissues. Therefore MALDI-MSI might prove a useful tool to improve our understanding of protein preservation as well as aid in deciding sampling strategies.
Project description:To reveal the spatial distribution and the difference gene expression pattern of cancer cells in colorectal cancer, Visium spatial transcriptomics of four CRC patients was applied
Project description:To better understand the spatial distribution of gene expression network in legume roots, transcriptomics profiles of border cells, root tips and whole roots were compared.
Project description:ChIP-seq for H3K27me3 and Ring1B was performed in WT mESCs and mESCs containing catalytically inactive Ring1B (I53A mutant). Cells expressing catalytically inactive Ring1B maintain the spatial distribution of Ring1B and H3K27me3 but at reduced levels. These findings support the notion that PRC2 recruitment is, in part, dependent on H2A ubiquitination (H2AK119ub). Two biological replicates were performed for Ring1B and H3K27me3 ChIPs in WT and Ring1B I53A/I53A mouse ESCs. Input chromatin was sequenced for each replicate as a control for ChIP enrichment.
Project description:The tumor microenvironment plays a crucial role in soft tissue sarcoma development and response to therapy. We used spatial transcriptomics to analyze the spatial distribution of malignant, immune, and other stromal cells present within soft tissue sarcomas.
