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Direct transcriptional consequences of somatic mutation in breast cancer

The disordered transcriptomes of cancer encompass direct effects of somatic mutation on transcription; co-ordinated secondary alterations in transcriptional pathways; and increased transcriptional noise. To catalogue the rules governing how somatic mutation Overall, 59% of 6980 exonic substitutions were expressed. Compared to other classes, nonsense mutations showed lower expression levels than expected with patterns characteristic of nonsense-mediated decay. 14% of 4234 genomic rearrangements caused transcriptional abnormalities, including exon skips, exon reusage, fusion transcripts and premature poly-adenylation. We found productive, stable transcription from sense-to-antisense gene fusions and gene-to-intergenic rearrangements, suggesting that these mutation classes may drive more transcriptional disruption than previously suspected. Systematic integration of transcriptome with genome data therefore reveals the rules by which transcriptional machinery interprets somatic mutation.

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Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS00001000310 Other

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Located in
EGAF00000148987 bam 5.7 GB
EGAF00000148988 bam 5.8 GB
EGAF00000148989 bam 7.0 GB
EGAF00000148990 bam 6.0 GB
EGAF00000148991 bam 7.1 GB
EGAF00000148992 bam 5.9 GB
EGAF00000148993 bam 6.1 GB
EGAF00000148994 bam 6.2 GB
EGAF00000148995 bam 8.0 GB
EGAF00000148996 bam 17.4 GB
EGAF00000148997 bam 10.4 GB
EGAF00000148998 bam 10.4 GB
EGAF00000148999 bam 9.7 GB
EGAF00000149000 bam 9.8 GB
EGAF00000149001 bam 11.0 GB
EGAF00000149002 bam 11.6 GB
EGAF00000149003 bam 10.3 GB
EGAF00000149004 bam 10.3 GB
EGAF00000149012 bam 9.0 GB
EGAF00000149013 bam 12.3 GB
EGAF00000149014 bam 12.0 GB
EGAF00000149015 bam 13.8 GB
EGAF00000149016 bam 11.1 GB
EGAF00000149017 bam 11.8 GB
EGAF00000149018 bam 12.7 GB
EGAF00000149019 bam 11.5 GB
EGAF00000149020 bam 13.8 GB
EGAF00000149021 bam 9.5 GB
EGAF00000149022 bam 9.1 GB
EGAF00000149023 bam 9.3 GB
EGAF00000149024 bam 8.5 GB
EGAF00000149025 bam 10.0 GB
EGAF00000149026 bam 9.5 GB
EGAF00000149027 bam 8.7 GB
EGAF00000149028 bam 8.8 GB
EGAF00000149029 bam 9.9 GB
EGAF00000149030 bam 8.8 GB
EGAF00000149036 bam 13.3 GB
EGAF00000149040 bam 21.7 GB
EGAF00000149042 bam 15.5 GB
EGAF00000149043 bam 12.5 GB
EGAF00000149044 bam 13.7 GB
EGAF00000149045 bam 13.5 GB
EGAF00000149046 bam 12.0 GB
EGAF00000149047 bam 13.7 GB
EGAF00000149048 bam 13.7 GB
EGAF00000149049 bam 15.3 GB
EGAF00000149050 bam 13.2 GB
EGAF00000149051 bam 14.8 GB
EGAF00000149052 bam 12.5 GB
EGAF00000149053 bam 13.7 GB
EGAF00000149054 bam 15.3 GB
EGAF00000149055 bam 11.6 GB
EGAF00000149056 bam 19.7 GB
EGAF00000149057 bam 20.2 GB
EGAF00000149058 bam 19.7 GB
EGAF00000149059 bam 17.1 GB
EGAF00000149060 bam 19.5 GB
EGAF00000149061 bam 19.0 GB
EGAF00000149062 bam 19.2 GB
EGAF00000149063 bam 17.1 GB
EGAF00000149064 bam 14.0 GB
EGAF00000149065 bam 14.4 GB
EGAF00000149066 bam 22.3 GB
EGAF00000149067 bam 22.4 GB
EGAF00000149068 bam 23.2 GB
EGAF00000149069 bam 12.2 GB
EGAF00000149071 bam 20.7 GB
EGAF00000149072 bam 21.2 GB
EGAF00000149073 bam 24.6 GB
EGAF00000149075 bam 17.1 GB
EGAF00000149076 bam 17.8 GB
EGAF00000149081 bam 28.4 GB
73 Files (974.8 GB)