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About FusionGDB2

Fusion genes, which have the breakpoints of structural variants on their gene body, provide a highlighted structural variant resource for studying the genomic breakages with expression and potential pathogenic impacts. A knowledgebase of the systematic functional annotation of fusion genes is critical for understanding genomic breakage context and developing therapeutic strategies. FusionGDB is a unique functional annotation database of human fusion genes and widely used for diverse aims’ studies. In this study, we report FusionGDB 2.0, which has substantial updates of contents such as (i) up-to-date human fusion genes with breakpoint location from the gene structure browser, (ii) fusion gene breakage tendency score with FusionAI deep learning model based on 20kb genomic sequence around BP area, (iii) investigation of overlapping between fusion breakpoints with 44 human genomic features across five cellular role’s categories (i.e., integration sites of 6 viruses, 13 types of repeats, 5 types of structural variants, 15 different chromatin stated regions, and 5 gene expression regulatory regions), (iv) transcribed chimeric sequence and following (v) open reading frame analysis with coding potential based on deep learning approach with Ribo-seq read features, and (vi) rigorous investigation of the protein feature retention of individual fusion partner genes in the protein level with FGviewer. Among ~ 126k fusion genes, about 30k kept their ORFs as the in-frame, which is triple size compared to the previous version of FusionGDB. FusionGDB 2.0 provides eight categories of annotations: Fusion Gene Summary, Fusion Gene ORF analysis, Fusion Gene Genomic Features, Fusion Protein Features, Fusion Gene Sequence, Fusion Gene PPI analysis, Related Drugs, and Related Diseases.
* The background image of banner at the top is showing the distribution of the median values of the feature importance scores of every 20 nucleotide across 20K bp of all known TCGA fusion genes.

News: We have finished adding the curated fusion gene information (ChimerKB4) and following annotations into FusionGDB 2.0. - 03/24/2022

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

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 pointBrowse by gene types of fusion partner genes

ncRNA and ncRNA

ncRNA and PCG

ncRNA and snRNA

PCG and ncRNA

PCG and PCG

PCG and rRNA

PCG and scRNA

PCG and snoRNA

PCG and snRNA

rRNA and PCG

scRNA and ncRNA

scRNA and PCG

snoRNA and ncRNA

snoRNA and PCG

snoRNA and snoRNA

snRNA and PCG

snRNA and snoRNA

snRNA and snRNA

tRNA and PCG

bullet pointBrowse by important cellular gene groups.

Kinases

Transcription factors

Cancer Gene Census

Tumor suppressors

IUPHAR drug targets

Cell metabolism genes

Human essential genes

Epigenetic factors

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