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    Mus musculus
    Tarjei Mikkelsen | 12/15/2012 - 18:03
    Transcription Profiling (Microarray)
    Affymetrix Mouse Genome 430 2.0 Array
    Expression profiles generated during dissection of the molecular mechanisms underlying direct reprogramming of somatic cells to a pluripotent state (induced pluripotent stem cells, iPS).
    Homo sapiens
    Kory R. Johnson | 02/06/2013 - 01:03
    Transcription Profiling (Microarray)
    Affymetrix Human Genome U133 Plus 2.0 Array
    To broaden the appeal of the NIH Stem Cell Database, we analyzed a subset of undifferentiated human embryonic stem cell lines (5 lines in duplicate) on the Affymetrix platform. One standard culture protocol was used in conjunction with rigorous quality control. Expanded description of methods used and are available at: http://stemcelldb.nih.gov.
    Homo sapiens
    Giovanni Amabile | 03/19/2013 - 00:22
    DNA Methylation Profiling (Bisulfite-Seq)
    Illumina Genome Analyzer IIx
    We analyzed the methylation pattern of a well characterized leukemia cell line, named K562. Furthermore, we decided to investigate how the malignant epiegenome changes during the reprogramming process. We used RRBS analysis to investigate the methylation pattern in leukemia and reprogrammed leukemia (LiPS) cell lines. We show that the erasure of the epigenetic aberrancies have functional consequences on the leukemia phenotype.
    Mus musculus
    Ronald DePinho | 06/07/2013 - 17:11
    Transcription Profiling (Microarray)
    Affymetrix Mouse Genome 430 2.0 Array
    A hallmark feature of glioblastoma (GBM) cells is its strong self-renewal potential and immature differentiation state -- stem cell-like properties which may contribute to the plasticity and intense therapeutic resistance of GBM. The molecular basis of the immature differentiation profile remains an area of active investigation. Here, integrated genomic and biological analyses identified PLAGL2 as a potent proto-oncogene targeted for amplification/gain in malignant gliomas as well as in...
    Mus musculus
    Amy wagers | 01/07/2014 - 16:18
    Transcription Profiling (Microarray)
    Affymetrix Mouse Genome 430 2.0 Array
    This work examines sarcoma formation within discrete subsets of KRAS(G12V)-expressing p16p19null myogenic and mesenchymal cells found normally in skeletal muscle. We show that prospectively isolated skeletal muscle precursor cells (SMPs) within the satellite cell pool can serve as cancer cells-of-origin for mouse rhabdomyosarcomas (soft tissue sarcomas with features of myogenic differentiation). Alternatively, non-myogenic progenitors (ScaPCs) induce sarcomas lacking myogenic differentiation...
    Danio rerio
    Len Zon | 04/30/2014 - 14:52
    Transcription Factor Binding (ChIP-Seq)
    Illumina Genome Analyzer II
    Here, using ChIP-Seq, we examined the targets of Nanog-like and Mxtx2 in blastula stage zebrafish embryos. We found that Nanog-like bind to its known targets like Oct4, Sox2, and Nanog-like. Nanog-like also bound to genes involved in extraembryonic lineage differentiation, like gata3 and krt4 for EVL differentiation, and mxtx2 and slc26a1 for YSL differentiation, mesoderm specification like ntl and tbx3, cell movement like wnt11 and cxcr4b, and signaling genes like ndr1, bmp2b, fgf8a and wnt8a...
    Mus musculus
    Kevin C. Eggan | 12/15/2014 - 15:25
    Transcription Profiling (RNA-Seq)
    Illumina HiSeq 2500
    It has been suggested that the transcription factor Nanog is essential for the establishment of pluripotency during the derivation of embryonic stem (ES) cells and induced pluripotent stem (iPS) cells. However, successful reprogramming to pluripotency with a growing list of divergent transcription factors, at ever increasing efficiencies, suggests that there may be many distinct routes to a pluripotent state. Here, we have investigated whether Nanog is necessary for reprogramming murine...

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