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    Homo sapiens
    Matthew Meyerson | 12/09/2014 - 16:02
    Transcription Factor Binding (ChIP-Seq)
    Illumina Genome Analyzer IIx
    NKX2-1 ChIP-seq from three lung adenocarcinoma cell lines with amplification of NKX2-1
    Homo sapiens
    Richard A. Young | 12/09/2014 - 19:53
    Transcription Factor Binding (ChIP-Seq)
    Illumina Genome Analyzer II
    Human T-ALL cells were cross-linked with formaldehyde for 20 min. DNA was enriched by chromatin immunoprecipitation (ChIP) and analyzed by Solexa sequencing. A sample of whole cell extract (WCE) was sequenced and used as the background to determine enrichment. ChIP was performed using an antibody against total TAL1 (Santa Cruz SC-12984), TCF12/HEB (Santa Cruz SC-357),TCF3/E2A (Santa Cruz SC-349X), LMO1 (Santa Cruz SC-10494), LMO2 (R&D AF2726),GATA3 (Santa Cruz SC-22206) and RUNX1 (Santa...
    Mus musculus
    Scott Armstrong | 12/09/2014 - 20:25
    Transcription Factor Binding (ChIP-Seq)
    Illumina Genome Analyzer IIx
    MLL1 chip-seq in mouse leukemic blast cells
    Homo sapiens
    Scott Armstrong | 12/10/2014 - 10:00
    Transcription Factor Binding (ChIP-Seq)
    Illumina HiSeq 2000
    Inhibition of the histone 3 lysine 79 (H3K79) methyltransferase increases reprogramming efficiency and genome-wide analysis of H3K79me2 distribution revealed that fibroblast-specific genes associated with the epithelial to mesenchymal transition lose H3K79me2 in the initial phases of reprogramming. Dot1L inhibition facilitates the loss of this mark from genes that are fated to be repressed in the pluripotent state. Chromatin immunoprecipitation followed by Solexa sequencing for H3K27me3 and...
    Mus musculus
    Stu Orkin | 12/10/2014 - 13:08
    Transcription Factor Binding (ChIP-Seq)
    Illumina HiSeq 2000
    Here we describe that lysine-specific demethylase 1 (Lsd1/KDM1a), which demethylates histone H3 on Lys 4 or Lys 9 (H3K4/K9), is an indispensible epigenetic governor of hematopoietic differentiation. Integrative genomic analysis in primary hematopoietic cells, combining global occupancy of Lsd1, genome-wide analysis of its histone substrates H3K4 mono- and di-methylation and gene expression profiling, reveals that Lsd1 represses hematopoietic stem and progenitor cell (HSPC) gene expression...
    Homo sapiens
    Kevin C. Eggan | 12/10/2014 - 14:25
    Transcription Profiling (RNA-Seq)
    Illumina HiSeq 2000
    Although many distinct mutations in a variety of genes are known to cause Amyotrophic Lateral Sclerosis (ALS), it remains poorly understood how they selectively impact motor neuron biology and whether they converge on common pathways to cause neural degeneration. Here, we have combined reprogramming and stem cell differentiation approaches with genome engineering and RNA sequencing to define the transcriptional changes that are induced in human motor neurons by mutant SOD1. Mutant SOD1 protein...
    Homo sapiens
    William Pu | 12/18/2014 - 10:44
    Transcription Factor Binding (ChIP-Seq)
    Illumina HiSeq 2000
    Histone modifications are now well-established regulators of transcriptional programs that distinguish distinct cell states. However, the kinetics of histone modification and their role in mediating rapid, signal-responsive changes in gene expression have been little studied on a genome-wide scale. Vascular endothelial growth factor A (VEGF), a major regulator of angiogenesis, rapidly triggers changes in transcriptional activity of human umbilical vein endothelial cells (HUVECs). Here we used...
    Homo sapiens
    William Pu | 12/18/2014 - 10:44
    Transcription Profiling (RNA-Seq)
    Illumina HiSeq 2000
    Histone modifications are now well-established regulators of transcriptional programs that distinguish distinct cell states. However, the kinetics of histone modification and their role in mediating rapid, signal-responsive changes in gene expression have been little studied on a genome-wide scale. Vascular endothelial growth factor A (VEGF), a major regulator of angiogenesis, rapidly triggers changes in transcriptional activity of human umbilical vein endothelial cells (HUVECs). Here we used...
    Homo sapiens
    William Pu | 12/18/2014 - 10:44
    DNase-Hypersensitivity (DHS-Seq)
    Illumina HiSeq 2000
    Histone modifications are now well-established regulators of transcriptional programs that distinguish distinct cell states. However, the kinetics of histone modification and their role in mediating rapid, signal-responsive changes in gene expression have been little studied on a genome-wide scale. Vascular endothelial growth factor A (VEGF), a major regulator of angiogenesis, rapidly triggers changes in transcriptional activity of human umbilical vein endothelial cells (HUVECs). Here we used...
    Homo sapiens
    Rita Sulahian | 12/22/2014 - 11:49
    Transcription Factor Binding (ChIP-Seq)
    Illumina Genome Analyzer II
    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. Transcription factor binding site identification ChIP-Seq performed on 4 samples.

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