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    Mus musculus
    Scott Armstrong | 02/04/2012 - 13:38
    Transcription Profiling (Microarray)
    Affymetrix Mouse Genome 430A 2.0 Array
    Leukaemias and other cancers possess a rare population of cells capable of the limitless self-renewal necessary for cancer initiation and maintenance. Here we show that leukaemia stem cells (LSC) can maintain the global identity of the progenitor from which they arose while activating a limited stem-cell- or self-renewal-associated programme. We isolated LSC from leukaemias initiated in committed granulocyte macrophage progenitors through introduction of the MLL-AF9 fusion protein encoded by...
    Homo sapiens
    Victor Ruotti | 03/06/2012 - 01:14
    Transcription Profiling (Microarray)
    Roche NimbleGen UW_Homo_sapiens_array_hg18_NimbleGen
    IMR90 fetal fibroblast cells were transduced with a combination of OCT4, SOX2, NANOG, and LIN28. Forty-one iPS colonies were selected, 35 of which were successfully expanded for an additional 3 weeks. Four clones [iPS(IMR90)-1 to iPS(IMR90)-4] with minimal differentiation were selected for continued expansion and detailed analysis. Microarray analyses of gene expression of the four iPS(IMR90) clones confirmed a similarity to five human ES cell lines (H1, H7, H9, H13, and H14) and a...
    Homo sapiens
    Benjamin Ebert | 03/13/2012 - 10:06
    Transcription Profiling (Microarray)
    Affymetrix HT-HG_U133A Early Access Array
    Tremendous progress has been made in identifying individual transcription factors that regulate hematopoietic differentiation, but many aspects of the global architecture of hematopoiesis remain unknown. Here, we profiled gene expression in 38 distinct purified populations of human hematopoietic cells and used probabilistic models of gene expression patterns and sequence-based analysis of motifs in gene promoters to decipher the general organization of their regulatory circuitry. We identified...
    Mus musculus
    Tarjei Mikkelsen | 04/30/2012 - 17:22
    Histone Modification (ChIP-Seq)
    Illumina Genome Analyzer
    We report the application of single molecule-based sequencing technology for high-throughput profiling of histone modifications in mammalian cells. By obtaining over 4 billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin state maps of mouse embryonic stem cells, neural progenitor cells and embryonic fibroblasts. We find that lysine 4 and lysine 27 tri-methylation effectively discriminate genes that are expressed, poised for expression, or stably...
    Mus musculus
    Alan Cantor | 06/18/2012 - 12:23
    Transcription Factor Binding (ChIP-Seq)
    Illumina Genome Analyzer
    The transcription factor GATA-1 is required for terminal erythroid maturation and functions as an activator or repressor depending on gene context. Yet its in vivo site selectivity and ability to distinguish between activated versus repressed genes remain incompletely understood. In this study, we performed GATA-1 ChIP-seq in erythroid cells and compared it to GATA-1-induced gene expression changes. Bound and differentially expressed genes contain a greater number of GATA-binding motifs, a...
    Mus musculus
    Christoph Bock | 08/24/2012 - 15:21
    DNA Methylation Profiling (Bisulfite-Seq)
    Illumina Genome Analyzer II
    DNA methylation is a mechanism of epigenetic regulation that is common to all vertebrates. Functional studies underscore its relevance for tissue homeostasis, but the global dynamics of DNA methylation during in vivo differentiation remain underexplored. Here we report high-resolution DNA methylation maps of adult stem cell differentiation in mouse, focusing on 19 purified cell populations of the blood and skin lineages. DNA methylation changes were locus-specific and relatively modest in...
    Mus musculus
    Christoph Bock | 08/24/2012 - 15:37
    Transcription Profiling (Microarray)
    Affymetrix Mouse Genome 430 2.0 Array
    DNA methylation is a mechanism of epigenetic regulation that is common to all vertebrates. Functional studies underscore its relevance for tissue homeostasis, but the global dynamics of DNA methylation during in vivo differentiation remain underexplored. Here we report high-resolution DNA methylation maps of adult stem cell differentiation in mouse, focusing on 19 purified cell populations of the blood and skin lineages. DNA methylation changes were locus-specific and relatively modest in...
    Homo sapiens
    Annalisa DiRuscio | 11/27/2012 - 22:40
    Transcription Profiling (Microarray)
    Affymetrix Human Gene 1.0 ST (Transcript/Gene)
    We used the microarray analysis to detail the gene expression profile from the leukemic cell line HL-60. These samples were used in the study: Relationship between DNMT1-RNA interactions, DNA methylation and gene expression.
    Homo sapiens
    Rita Sulahian | 12/10/2012 - 10:04
    Transcription Profiling (Microarray)
    Affymetrix Human Genome U133A 2.0 Array
    To identify core GATA6 functions and transcriptional targets in human gastric cancer, including additional subservient transcriptional regulators via integrative analysis of GATA6 transcription factor occupancy, gene dependency, and tumor synexpression.
    Mus musculus
    Tarjei Mikkelsen | 12/12/2012 - 00:32
    Transcription Profiling (Microarray)
    Affymetrix Mouse Genome 430 2.0 Array
    Expression profiles for GFP-positive astrocytes obtained by in vitro differentiation of 129SvJae x C57BL/6 murine embryonic stem (ES) cells. Generated to examine the relationship between expression levels and DNA methylation patterns.

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