Multimodal single-cell and bulk glioma analyses - EGA European Genome-Phenome Archive

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001007769	This dataset includes 914 BAM files from 6 IDH-mutant, 5 IDH-wild-type glioma patient samples of unmatched initial and recurrent timepoints profiled using single-cell reduced-representation bisulfite sequencing.	Illumina HiSeq 4000	914
EGAD00001007770	This dataset includes 60 BAM files from HF2354, HF3016 glioblastoma cell lines subjected to continuous stress (hypoxia, 3-day and 9-day), stress followed by recovery (irradiation, 4-day stress exposure and 5-day recovery), and no stress/normoxia controls and profiled using reduced-representation bisulfite sequencing.	Illumina NovaSeq 6000	60
EGAD00001007771	This dataset includes 22 BAM files for tumor tissue and matched normal blood from 6 IDH-mutant, 5 IDH-wild-type glioma patient samples of unmatched initial and recurrent timepoints profiled using whole genome sequencing.	Illumina NovaSeq 6000	22
EGAD00001007772	This dataset includes paired-end fastq files from 6 IDH-mutant, 5 IDH-wild-type glioma patient samples of unmatched initial and recurrent timepoints profiled using single-cell RNA sequencing.	Illumina HiSeq 4000 Illumina NovaSeq 6000	11
EGAD00010002157	This dataset includes IDAT files from 6 IDH-mutant, 5 IDH-wild-type glioma patient samples of unmatched initial and recurrent timepoints profiled using the Illumina Infinium MethylationEPIC Array.	Illumina Infinium MethylationEPIC BeadChip	11

Publications	Citations
Single-cell multimodal glioma analyses identify epigenetic regulators of cellular plasticity and environmental stress response. Johnson KC, Anderson KJ, Courtois ET, Gujar AD, Barthel FP, Varn FS, Luo D, Seignon M, Yi E, Kim H, Estecio MRH, Zhao D, Tang M, Navin NE, Maurya R, Ngan CY, Verburg N, de Witt Hamer PC, Bulsara K, Samuels ML, Das S, Robson P, Verhaak RGW. Nat Genet 53: 2021 1456-1468	105
Glioblastoma heterogeneity at single cell resolution. Eisenbarth D, Wang YA. Oncogene 42: 2023 2155-2165	30
Dissecting the tumor microenvironment of epigenetically driven gliomas: Opportunities for single-cell and spatial multiomics. Sussman JH, Sussman JH, Xu J, Amankulor N, Tan K. Neurooncol Adv 5: 2023 vdad101	0
Single-cell transcriptomics reveals IRF7 regulation of the tumor microenvironment in isocitrate dehydrogenase wild-type glioma. Li J, Long S, Yang Z, Wei W, Yu S, Liu Q, Hui X, Li X, Wang Y. MedComm (2020) 5: 2024 e754	0