Project description:By 2 weeks after stem cell transplantation, there was differentiated changes in T cell phenotype between autograft and allograft. RNA-seq was used to reveal the different transcription profiles of these T cells at week 2 after SCT.
Project description:Complete data set for "Molecular and immunological interrogation of a live-attenuated enterotoxigenic Escherichia coli vaccine highlights features unique to wild type infection"
Project description:A major paradox of neurodegenerative disorders such as amyotrophic lateral sclerosis (ALS) is that many genes linked to disease are ubiquitously expressed, yet only discrete subtypes of cells degenerate. Therapeutic advancement depends on understanding unique molecular responses of vulnerable cells in the context of disease-causing mutations. Here, we describe two bacTRAP lines, Gprin3 and Colgalt2, that label distinct populations of projection neurons in layer 5b (L5b) of motor cortex. We demonstrate that these cells can be distinguished not only by their anatomical features, but by their underlying molecular properties. In the SOD1*G93A preclinical ALS model, both populations showed molecular responses in common, but Gprin3 corticospinal population showed additional, unique responses in disease that may reflect their disease vulnerability since Gprin3 cells were lost during disease progression while Colgalt2 cells were spared. These results tease apart molecular pathways that may contribute to ALS pathology and provide a framework for elucidating selective vulnerability.
Project description:Interaction of hematopoietic progenitors with the thymic stromal microenvironment induces them to proliferate, adopt the T cell fate, and asymmetrically diverge into multiple T lineages. Progenitors at various developmental stages are stratified among different regions of the thymus, implying that the corresponding microenvironments differ from one another, and provide unique sets of signals to progenitors migrating between them. The nature of these differences remains undefined. Here we use novel physical and computational approaches to characterize these stromal subregions, distinguishing gene expression in microdissected tissues from that of their lymphoid constituents. Using this approach, we comprehensively map gene expression in functionally distinct stromal microenvironments, and identify clusters of genes that define each region. Quite unexpectedly, we find that the central cortex lacks distinctive features of its own, and instead appears to function by sequestering unique microenvironments found at the cortical extremities, and modulating the relative proximity of progenitors moving between them. 4 to 6 weeks old male C57bl6/J were used for microdissection of 3 thymic cortical subregions and thymic medulla or for sorting cortical and medullary thymocytes. These samples were used for subsequent RNA purification, labeling and hybridization to Affymetrix arrays