Gene expression in human (h)T-ALL isolated from NSG mice as a function of the bone marrow microenvironment
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ABSTRACT: Comparative expression between hT-ALL cells isolated from NSG mouse thorax vertebrae (adipocyte poor) bone marrow and from tail vetretbrae (adipocyte rich) bone marrow We used microarrays to understand the global program of gene expression underlying hT-ALL behaviour in two different bone marrow sites
Project description:We used single cell RNA sequencing (scRNA-seq) to decipher cell heterogeneity of human T-cell Acute Lymphoblastic Leukemia (M18) recovered from Bone Marrow Adipose Tissue (BMAT)-poor (Femur and Thoracic Vertebrae) and -rich (Tail Vertebrae) sites of xenografted immunodeficient mice (NSG,nonobese diabetic/severe combined immunodeficiency / interleukin-2Rγ null). We wanted to know whether some human T-ALL cells recovered in BMAT-poor sites resemble to those from BMAT-rich site.
Project description:RNA Sequencing was performed on RNA extracted from human bone marrow B cells from NSG humanized mice that had been transplanted with human hematopoietic stem cells and then injected or not with the ATM inhibitor KU55933.
Project description:Pediatric ALL cell line 380 was injected via tail vein into NSG mice. Triplicate 380 cell samples were also prepared at the timepoint of injection and stored at -80 oC for comparative analysis with CDXs. Mice were euthanized at onset of leukemia symptoms and spleen, bone marrow and liver samples were collected for proteomics analysis.
Project description:This experiment was perfomed to understand the role of Cyclin C in BCR-ABL1 driven leukemia. Bone marrow from mice harbouring a homozygous Cyclin C knock-out as well as from wild type control mice was transduced with a BCR-ABL1 expressing retrovirus to generate stable cell lines. Cells were harvested for RNA seq from in-vitro cultures of these cell lines (\\"in-vitro\\" samples). 500000 cells of the same cultures were injected into the tail vains of NSG mice. After 10 days the cells were isolated from the bone marrow of the recipient mice and collected for RNA sequencing (\\"ex-vivo\\" samples). Library prep and sequencing was perfomed for in-vitro and ex-vivo samples together.
Project description:Purpose: Understanding the role of an active immunesystem in ageing. Methods: Male NSG (NOD scid gamma) immunodeficient mice were maintained in normal housing condition. Islet cells were isolated at different age points and mRNA were extracted before shipping to Qiagen for analysis. Results: In NSG mice multiple of the metabolic pathways that are observed to be deregulated in ageing immunocompotent mice are infered to be sustained.
Project description:Muscle pre-injury is commonly used prior to cell transplantation to enhance engraftment and to further promote homing of injected cells to diseased muscles. To better understand the changes that occurred in the diaphragm upon swimming (1hour/day for 2 weeks), we analyzed global changes using RNA-Seq in dystrophic FKRPP448L-NSG mice as well as in NSG control mice.
Project description:To determine what signalling pathways are affected by LILRB1 in MM cells, ARP-1 MM cell lines were transfected with lentivirus to knockdown LILRB1, injected to nsg mice, sorted from the bone marrow of NSG mice and sent for RNA-seq. Total RNAs of 2 x 10^6 CTR-KD ARP-1 cells or LILRB1-KD ARP-1 cells were extracted by RNeasy Mini Kit (Qiagen). 5-10 µg RNA samples were sent to Cancer Genomics Center at The University of Texas (Houston, TX) for RNA-seq followed by data analysis. We use the RNA-seq data to determine differential expression of genes in CTR-KD ARP-1 cells and LILRB1-KD ARP-1 cells.