Glioblastoma epigenetic profiles

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:

Peak calls: MACS2 narrowPeak files for primary GBM tumor ChIP-seq experiments (doi:10.18738/T8/YJMLKO).
Chromatin state: Outputs from ChromHMM chromatin state model, built from GBM tumor epigenetic and transcription factor marks (doi:10.18738/T8/UNDRTW).
Gene expression: Tuxedo suite RNA-seq quantification files for GBM tumors and cell lines, produced by Cuffquant, Cuffnorm and Cuffdiff (doi:10.18738/T8/VVWHDG).
Signal tracks: Normalized whole-genome ChIP-seq and RNA-seq bigWig signal tracks for hg38 (doi:10.18738/T8/QOWYPD, doi:10.18738/T8/BEXKWJ).

Original sequencing data deposited at dbGaP, Study phs001389.

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81 to 90 of 334 Results

Mng2_h3k27me3.narrowPeak.gz Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors Gzip Archive - 4.5 MB - MD5: 15af8afd54ecfcfa60da07ca57420273
Mng2_h3k4me1.narrowPeak.gz Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors Gzip Archive - 5.0 MB - MD5: c18d202e462df79e8534995ed03e1017
Mng2_h3k4me3.narrowPeak.gz Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors Gzip Archive - 2.5 MB - MD5: a7e28b93a4e449b1820f0315ec08da2b
Mng2_h3k9ac.narrowPeak.gz Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors Gzip Archive - 3.4 MB - MD5: 44ba24365f038ebe361e0bc9c66df407
Mng2_h3k9me3.narrowPeak.gz Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors Gzip Archive - 4.3 MB - MD5: 7f049d68905118021edc244cba6d6182
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...
Aa1_21_dense.bed Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors PLINK Binary - 21.0 MB - MD5: f6163ca2cb73f43de569d279890e1a46
Aa1_21_dense.noe18.bed Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors PLINK Binary - 13.1 MB - MD5: 695043759203c9334a639929694e8bec
Aa1_21_expanded.bed Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors PLINK Binary - 4.9 MB - MD5: ced9dce5c698ee42a6d9caf81edb607d
Aa1_21_overlap.png Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors PNG Image - 23.5 KB - MD5: 41c2d24cf750f18057a4d9b70b3f5066

Mng2_h3k27me3.narrowPeak.gz

Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors

Gzip Archive - 4.5 MB -

Mng2_h3k4me1.narrowPeak.gz

Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors

Gzip Archive - 5.0 MB -

Mng2_h3k4me3.narrowPeak.gz

Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors

Gzip Archive - 2.5 MB -

Mng2_h3k9ac.narrowPeak.gz

Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors

Gzip Archive - 3.4 MB -

Mng2_h3k9me3.narrowPeak.gz

Apr 13, 2018 - ChIP-seq peak calls for epigenetic marks in GBM tumors

Gzip Archive - 4.3 MB -

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...

Aa1_21_dense.bed

Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors

PLINK Binary - 21.0 MB -

Aa1_21_dense.noe18.bed

Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors

PLINK Binary - 13.1 MB -

Aa1_21_expanded.bed

Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors

PLINK Binary - 4.9 MB -

Aa1_21_overlap.png

Apr 13, 2018 - Chromatin state model for epigenetic marks in GBM tumors

PNG Image - 23.5 KB -

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