Study

Changes in alternative splicing and associated neo-antigens due to therapy

Study ID Alternative Stable ID Type
EGAS00001004524 Other

Study Description

Recent studies have identified alternative splicing (AS) as a novel source of neoantigens for immunotherapy. Surprisingly little is known about the AS milieu in recurrent glioblastoma (GBM), despite this being the venue for most clinical trials. We profiled 29 primary-recurrent paired human GBM specimens via RNA sequencing and re-analyzed RNA-sequencing data from non-malignant human brain tissues. From these data, we reconstructed the landscape of AS in GBM through recurrence and contrasted that to isoforms observed in non-malignant brain. The AS events we identified were cross-referenced with single-cell GBM atlases to determine cell-type specific splicing patterns. From this we identified novel splicing events in cell-surface proteins that are suitable targets for engineered T-cell therapies. We found recurrent-specific isoforms of mitogen-activated kinase pathway genes which are expressed exclusively by GBM stem-like cells that enhance invasiveness. These studies shed light on the effect of therapy on AS and identify novel targets for emerging immunotherapies.

Study Datasets 37 datasets.

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
EGAD00001006744
RNA exome
Illumina NovaSeq 6000 1
EGAD00001006745
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006747
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006748
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006749
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006750
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006751
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006752
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006753
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006754
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006755
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006756
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006757
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006758
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006759
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006760
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006761
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006762
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006763
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006764
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006765
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006766
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006767
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006768
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006769
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006770
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006771
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006772
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006773
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006830
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006831
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006832
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006833
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006834
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006835
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006836
RNA-exome
Illumina NovaSeq 6000 1
EGAD00001006837
RNA-exome
Illumina NovaSeq 6000 1

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