DAC

Glioma Genomics Committee

Dac ID Contact Person Email Access Information
EGAC00001000153 Joseph Costello jcostello [at] cc [dot] ucsf [dot] edu No additional information is available

This DAC controls 20 datasets:

Dataset ID Description Technology Samples
EGAD00001000714 NA 102
EGAD00001000777 Dataset contains MeDIP-Seq, MRE-Seq and H3K4me3 ChIP-Seq data on 5 GBM patients. 16
EGAD00001001305 Dataset contains WES data from 3 astrocytoma patients: blood as control, primary tumor and recurrent tumor 9
EGAD00001001359 Dataset contains Exome-seq and RNA-seq from 2 GBM patients, as well as RNA-seq from the derived cultured cells (GNS). 6
EGAD00001001613 NA 10
EGAD00001001614 NA 26
EGAD00001001615 NA 10
EGAD00001001616 NA 2
EGAD00001003763 15 whole exome sequencing datasets from five patients. Data is provided as bam files. Libraries were generated using the SeqCap EZ Exome v3.0 kit and sequenced on an Illumina sequencer 15
EGAD00001003764 Four RNA-sequencing datasets from two patients with initial low-grade glioma and copy number alteration at IDH1 upon recurrence. Data is provided as bam files. 4
EGAD00001003795 This dataset includes Nimblegen SeqCap EZ Exome v3 data for each lesion of three patients with multicentric glioma. For two patients, each lesion was sequenced along with whole blood. For a third patient, 3 pieces from the right lesion and 4 pieces from the left were sequenced along with whole blood. In each case BAM files that have been aligned with BWA mem alignment are available. 15
EGAD00001005221 NA 236
EGAD00001005222 NA 160
EGAD00001005435 This dataset contains 9 RNA-seq BAM files. RNA was derived from TERT promoter mutant GBM cell lines and sequenced on an Illumina HiSeq4000 sequencer with paired-end reads and an average read length of 50 base pairs. Reads were aligned with TopHat (v2.0.14) using a GENCODE V19 transcriptome-guided alignment. 9
EGAD00001006340 Dataset contains paired-end Whole Exome sequencing data from 2 glioma patients (1 oligodendroglioma and 1 astrocytoma) , derived cultured cells, and derived murine xenografts. 28
EGAD00001008768 Dataset contains paired-end Whole Exome sequencing data from 5 tumor samples and 1 single normal blood sample from a single primary GBM patient. 6
EGAD00001009286 Dataset contains paired-end clinical cancer panel sequencing (UCSF500) data from 2 samples of an initial tumor and one sample of a recurrence from one GBM patient and one sample from a second GBM patient. 4
EGAD00010000827 Illumina Infinium 450K array data 1
EGAD00010000829 Illumina Infinium 450K array data 70
EGAD00010001408 Illumina Infinium 450K array data Illumina 450K 34