Supplemental processed data for publication:
Bivalent chromatin domains in glioblastoma reveal a subtype-specific signature of glioma stem cells.
Hall AW, Battenhouse AM, Shivram H, Morris AR, Cowperthwaite MC, Shpak M, Iyer VR.
Cancer Res., 2018 March 16 [Epub ahead of print].
PMID: 29549165. doi: 10.1158/0008-5472.CAN-17-1724

Texas Data Repository DataSets include:

Original sequencing data deposited at dbGaP, Study phs001389.

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1 to 5 of 5 Results
ChIP-seq peak calls for epigenetic marks in GBM tumors
Apr 13, 2018
Battenhouse, Anna; Hall, Amelia Weber, 2018, "ChIP-seq peak calls for epigenetic marks in GBM tumors", https://doi.org/10.18738/T8/YJMLKO, Texas Data Repository, V1
MACS2 narrowPeak files from ChIP-seq experiments for 11 primary GBM tumors, each targeting CTCF transcription factor marks and H3K27Ac, H3K27Me3, H3K4Me1, H3K4Me3, H3K9Ac, and H3K9Me3 histone modifications. See Methods section of doi:10.1158/0008-5472.CAN-17-1724 for more informa...
Chromatin state model for epigenetic marks in GBM tumors
Chromatin state model for epigenetic marks in GBM tumors
Apr 13, 2018
Hall, Amelia Weber, 2018, "Chromatin state model for epigenetic marks in GBM tumors", https://doi.org/10.18738/T8/UNDRTW, Texas Data Repository, V1
Chromatin state model based on CTCF transcription factor marks and H3K27Ac, H3K27Me3, H3K4Me1, H3K4Me3, H3K9Ac, and H3K9Me3 histone modifications in 11 primary GBM tumors, produced by ChromHMM from binarized significant ChIP-seq peaks. See Methods section of doi:10.1158/0008-5472...
RNA-seq expression quantification for GBM tumors and cell lines
Apr 13, 2018
Battenhouse, Anna; Hall, Amelia Weber, 2018, "RNA-seq expression quantification for GBM tumors and cell lines", https://doi.org/10.18738/T8/VVWHDG, Texas Data Repository, V1
RNA-seq expression quantification for GBM tumors and cell lines using Tuxedo suite tools Cuffquant, Cuffnorm and Cuffdiff starting from Tophat2-aligned BAMs. See Methods section of doi:10.1158/0008-5472.CAN-17-1724 for more information.
ChIP-seq whole-genome signal for epigenetic marks in GBM tumors
Apr 13, 2018
Battenhouse, Anna; Hall, Amelia Weber, 2018, "ChIP-seq whole-genome signal for epigenetic marks in GBM tumors", https://doi.org/10.18738/T8/QOWYPD, Texas Data Repository, V1
Whole-genome GBM tumor ChIP-seq signal on hg38, input-corrected and normalized for sequencing depth, from MACS2 callpeak and bdgcmp commands used to produce signal track bigWig files. See Methods section of doi:10.1158/0008-5472.CAN-17-1724 for more information.
RNA-seq whole-genome signal for GBM tumors and cell lines
Apr 13, 2018
Battenhouse, Anna; Hall, Amelia Weber, 2018, "RNA-seq whole-genome signal for GBM tumors and cell lines", https://doi.org/10.18738/T8/BEXKWJ, Texas Data Repository, V1
Whole-genome RNA-seq signal per million reads for primary GBM tumors and cell lines, as hg38 bigWig track files produced from Tophat2-aligned BAMs. See Methods section of doi:10.1158/0008-5472.CAN-17-1724 for more information.
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