Project description:This study characterizes the single-cell transcriptional landscape of murine glioblastoma generated using the RCAS/Nestin-Tv-a system, in which hPDGFB and shTP53 transgenes drive tumor initiation. We profiled primary and post-irradiation recurrent tumors, along with healthy brain controls, using the 10x Genomics Flex (GEM-X) gene expression platform and custom probe addon sets targeting the RCAS transcripts. A total of 16 samples were included after QC filtering (primary tumors, recurrent tumors, and control brains). The data set provides genome-wide single-cell RNA-seq measurements at probe-level resolution.
Project description:The goal of the experiment is determine whether the mixing of human and mouse probe sets of the 10x Genomics Gene Expression Flex allows to profile cell line derived xenograft (CDX) samples. We profiled a CDX vehicle sample and a CDX sample after 10 days of treatment with Osimertinib at 25mg/kg.
Project description:To investigate the transcriptomic changes associated with ARDS progression, we performed RNA-seq on PBMCs from 6 healthy donors (Con), 7 ARDS patients
Project description:The goal of the experiment is to determine whether it is feasible to use the 10x Genomics Gene Expression Flex solution in samples containing a mixture of human and mouse cells. First we tested how the presence of mouse cells impacted the data recovered by the use of the human whole trasnscriptome amplification (WTA) probe sets. Then we profiled a mixed species sample by using human and mouse probe sets in the same reaction. Finally, for samples with lower amounts of human cells we tried to correct the amount of cells recovered by the human and mouse probe sets by adjusting the amount of cells loaded from the respective hybridizations.
Project description:High-throughput and reproducible genotyping platforms are critical for advancing genetic research and breeding in horticultural crops. Here, the development and validation of a custom single nucleotide polymorphism (SNP) panel using the Flex-Seq genotyping platform for red raspberry (Rubus idaeus L.) is described.
Project description:This study investigates the role of ADNP in regulating CHD4 and MBD3 binding using CUT&RUN. CUT&RUN was performed to capture changes in the binding of CHD4 (using FLAG-tag) and MBD3. Two biological replicates were processed for each protein with two technical replicates. This dataset aims to characterise the binding of CHD4 and MBD3 in mouse ES cells.