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About FusionGDB

FusionGDB is the Fusion Gene annotation DataBase, aiming to provide a resource or reference for functional annotation of fusion genes in cancer for better therapeutic targets. We first collected 48 117 FGs across pan-cancer from three representative fusion gene resources: the improved database of chimeric transcripts and RNA-seq data (ChiTaRS 3.1), an integrative resource for cancer-associated transcript fusions (TumorFusions), and The Cancer Genome Atlas (TCGA) fusions by Gao et al. For these ~48K FGs, we performed functional annotations including gene assessment across pan-cancer fusion genes, open reading frame (ORF) assignment, and protein domain retention search based on multiple isoform gene structure with multiple break points and finally provided the fusion transcript and amino acid sequences for each break point and gene isoforms. For each fusion partner gene, the user can access multiple annotations such as gene summary, assessment scores of each gene in pan-cancer, biological process gene ontologies, functional description, retention information of 39 protein features and protein-protein interaction (PPI), related drugs and diseases through six categories. Among ~44K FGs checked ORFs, there were ~ 10K in-frame and ~11K frame-shift FGs. Of these, we have identified 331, 303, 840, and 667 in-frame FGs retaining kinase domain, DNA-binding domain, oncogene domains, and epifactor domains in fusion proteins. Furthermore, we identified 896 and 118 in-frame FGs not-retained their functional domains of tumor suppressor genes and DNA damage repair genes, respectively. On the other hand, we identified 6863 FGs retaining their functional domains, but lost the function due to the frame-shift.


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Examples: Gene symbol: ABL1, Entrez gene ID: 25
bullet pointBrowse by ORF of fusion protein

In-frame

Frame-shift

3UTR-CDS

3UTR-5UTR

3UTR-3UTR

CDS-5UTR

5UTR-CDS

CDS-3UTR

5UTR-5UTR

5UTR-3UTR

3UTR-intron

CDS-intron

5UTR-intron

intron-CDS

intron-3UTR

intron-5UTR

intron-intron

     
bullet pointFGs that might involve in oncogenic mechanisms.
    - Inframe FGs retaining kinase domain (331)
    - Inframe FGs retaining oncogene domain (840)
bullet pointFGs that might involve in loss-of-function mechanisms.
    - Inframe FGs, but not retained Tumor suppressor gene (TSG) domains (896)
    - Inframe FGs, but not retained DNA damage repair (DDR) gene domains (118)
    - Inframe FGs, but lost protein-protein interaction (PPI) (976)
    - FGs lost TSG domain due to frame-shift (813)
    - FGs lost DDR gene domain due to frame-shift (166)
    - FGs lost PPIs due to frame-shift (761)
bullet pointFGs that might alter downstream gene expression.
    - Kept target gene expression regulation
            - Inframe FGs retaining DNA-binding domain (DBD) (303)
            - Inframe FGs retaining epigenetic factors' (epifactors) domain (667)
    - Lost target gene expression regulation
            - Infrmae FGs, but not retained DBD (343)
            - Inframe FGs, but not retained epifactors' domain (766)
            - FGs lost DBD due to frame-shift (324)
            - FGs lost epifactors' domain due to frame-shift (713)
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