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Fusion Protein:NOS1AP-ASH1L

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: NOS1AP-ASH1L
	FusionPDB ID: 59665
	FusionGDB2.0 ID: 59665
		Hgene	Tgene
	Gene symbol	NOS1AP	ASH1L
	Gene ID	9722	55870
	Gene name	nitric oxide synthase 1 adaptor protein	ASH1 like histone lysine methyltransferase
	Synonyms	6330408P19Rik\|CAPON	ASH1\|ASH1L1\|KMT2H\|MRD52
	Cytomap	1q23.3	1q22
	Type of gene	protein-coding	protein-coding
	Description	carboxyl-terminal PDZ ligand of neuronal nitric oxide synthase proteinC-terminal PDZ domain ligand of neuronal nitric oxide synthase (CAPON)C-terminal PDZ ligand of neuronal nitric oxide synthase proteinligand of neuronal nitric oxide synthase with car	histone-lysine N-methyltransferase ASH1LASH1-like proteinabsent small and homeotic disks protein 1 homologash1 (absent, small, or homeotic)-likelysine N-methyltransferase 2Hprobable histone-lysine N-methyltransferase ASH1L
	Modification date	20200313	20200313
	UniProtAcc	O75052 Main function of 5'-partner protein: FUNCTION: Adapter protein involved in neuronal nitric-oxide (NO) synthesis regulation via its association with nNOS/NOS1. The complex formed with NOS1 and synapsins is necessary for specific NO and synapsin functions at a presynaptic level. Mediates an indirect interaction between NOS1 and RASD1 leading to enhance the ability of NOS1 to activate RASD1. Competes with DLG4 for interaction with NOS1, possibly affecting NOS1 activity by regulating the interaction between NOS1 and DLG4 (By similarity). {ECO:0000250}.	Q9NR48 Main function of 5'-partner protein: FUNCTION: Histone methyltransferase specifically trimethylating 'Lys-36' of histone H3 forming H3K36me3 (PubMed:21239497). Also monomethylates 'Lys-9' of histone H3 (H3K9me1) in vitro (By similarity). The physiological significance of the H3K9me1 activity is unclear (By similarity). {ECO:0000250\|UniProtKB:Q99MY8, ECO:0000269\|PubMed:21239497}.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000361897, ENST00000530878, ENST00000454693, ENST00000493151,	ENST00000548830, ENST00000368346, ENST00000392403,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	15 X 9 X 8=1080	17 X 13 X 7=1547
	# samples	18	18
	** MAII score	log2(18/1080*10)=-2.58496250072116 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(18/1547*10)=-3.10340438511936 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: NOS1AP [Title/Abstract] AND ASH1L [Title/Abstract] AND fusion [Title/Abstract]
Fusion neoantigen context	PubMed: NOS1AP [Title/Abstract] AND ASH1L [Title/Abstract] AND neoantigen [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	NOS1AP(162257226)-ASH1L(155452240), # samples:1
Anticipated loss of major functional domain due to fusion event.	NOS1AP-ASH1L seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. NOS1AP-ASH1L seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. NOS1AP-ASH1L seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. NOS1AP-ASH1L seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.

* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	NOS1AP	GO:0098974	postsynaptic actin cytoskeleton organization	26869880
Tgene	ASH1L	GO:0097676	histone H3-K36 dimethylation	26002201

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr1:162257226/chr1:155452240)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.

Retention analysis results of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features, are available here.

Fusion gene breakpoints across NOS1AP (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across ASH1L (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Amino Acid Sequences

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000530878	NOS1AP	chr1	162257226	+	ENST00000368346	ASH1L	chr1	155452240	-	11556	674	221	9163	2980
ENST00000530878	NOS1AP	chr1	162257226	+	ENST00000392403	ASH1L	chr1	155452240	-	10754	674	221	9148	2975
ENST00000361897	NOS1AP	chr1	162257226	+	ENST00000368346	ASH1L	chr1	155452240	-	11554	672	219	9161	2980
ENST00000361897	NOS1AP	chr1	162257226	+	ENST00000392403	ASH1L	chr1	155452240	-	10752	672	219	9146	2975

DeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000530878	ENST00000368346	NOS1AP	chr1	162257226	+	ASH1L	chr1	155452240	-	0.000246575	0.9997534
ENST00000530878	ENST00000392403	NOS1AP	chr1	162257226	+	ASH1L	chr1	155452240	-	0.000239658	0.9997603
ENST00000361897	ENST00000368346	NOS1AP	chr1	162257226	+	ASH1L	chr1	155452240	-	0.00024601	0.999754
ENST00000361897	ENST00000392403	NOS1AP	chr1	162257226	+	ASH1L	chr1	155452240	-	0.000239259	0.9997607

Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

Get the fusion protein sequences from here.

Fusion protein sequence information is available in the fasta format.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

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Fusion Protein Breakpoint Sequences for NOS1AP-ASH1L

+/-13 AA sequence from the breakpoints of the fusion protein sequences.

Hgene	Hchr	Hbp	Tgene	Tchr	Tbp	Length(fusion protein)	BP in fusion protein	Peptide
NOS1AP	chr1	162257226	ASH1L	chr1	155452240	672	151	VDGVKVILKKKKKDPSKLYKKADDVA
NOS1AP	chr1	162257226	ASH1L	chr1	155452240	674	151	VDGVKVILKKKKKDPSKLYKKADDVA

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Potential FusionNeoAntigen Information of NOS1AP-ASH1L in HLA I

Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

NOS1AP-ASH1L_162257226_155452240.msa

Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)

Fusion gene	Hchr	Hbp	Tgene	Tchr	Tbp	HLA I	FusionNeoAntigen peptide	Binding score	Immunogenic score	Neoantigen start (at BP 13)	Neoantigen end (at BP 13)
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:03	KKKDPSKLY	0.0989	0.7743	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:03	KKKKDPSKLY	0.8739	0.7147	9	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-C07:95	KKKDPSKLY	0.8834	0.6469	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-C07:27	KKKDPSKLY	0.8356	0.9107	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-C07:19	KKKDPSKLY	0.7526	0.6187	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-C07:46	KKKDPSKLY	0.635	0.7927	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:07	KKKDPSKLY	0.283	0.646	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-C12:16	KKKDPSKLY	0.0164	0.8972	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-C07:01	KKKDPSKLY	0.9148	0.6296	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-C07:22	KKKDPSKLY	0.4647	0.6008	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:50	KKKDPSKLY	0.393	0.7693	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:35	KKKDPSKLY	0.3144	0.8719	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B48:02	KKKDPSKLY	0.1663	0.8837	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:53	KKKDPSKLY	0.0799	0.8687	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:54	KKKDPSKLY	0.0314	0.8597	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:68	KKKKDPSKL	0.0297	0.5749	9	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:54	KKKKDPSKL	0.0208	0.8585	9	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:68	KKKDPSKLY	0.01	0.5643	10	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:54	KKKKDPSKLY	0.9522	0.8254	9	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-A30:01	KKKDPSKLYK	0.9483	0.6999	10	20
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:68	KKKKDPSKLY	0.8931	0.5427	9	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:54	KKKKKDPSKLY	0.9941	0.7983	8	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	HLA-B15:68	KKKKKDPSKLY	0.9912	0.5247	8	19

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Potential FusionNeoAntigen Information of NOS1AP-ASH1L in HLA II

NOS1AP-ASH1L_162257226_155452240.msa

Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).

Fusion gene	Hchr	Hbp	Tgene	Tchr	Tbp	HLA II	FusionNeoAntigen peptide	Neoantigen start (at BP 13)	Neoantigen end (at BP 13)
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-0828	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1102	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1102	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1102	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1103	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1103	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1103	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1103	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1111	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1111	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1111	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1111	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1116	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1116	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1116	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1121	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1121	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1121	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1125	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1136	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1136	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1136	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1141	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1141	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1141	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1141	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1142	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1148	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1148	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1148	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1155	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1155	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1155	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1155	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1155	KVILKKKKKDPSKLY	4	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1157	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1159	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1159	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1159	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1159	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1163	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1163	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1163	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1163	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1165	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1165	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1165	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1167	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1168	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1168	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1170	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1170	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1170	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1170	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1176	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1176	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1176	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1176	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1185	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1185	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1185	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1185	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1186	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1186	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1186	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1192	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1192	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1192	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1301	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1301	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1301	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1304	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1304	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1304	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1304	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1308	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1308	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1308	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1309	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1315	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1315	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1315	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1315	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1316	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1316	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1316	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1317	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1317	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1317	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1318	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1319	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1319	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1319	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1319	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1320	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1320	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1320	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1322	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1322	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1322	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1324	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1324	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1324	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1324	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1327	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1327	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1327	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1329	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1329	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1332	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1332	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1332	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1332	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1335	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1335	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1335	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1338	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1338	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1338	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1338	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1343	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1343	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1343	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1348	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1348	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1348	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1348	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1351	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1351	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1351	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1352	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1352	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1352	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1353	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1353	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1353	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1353	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1354	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1354	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1354	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1357	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1357	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1357	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1357	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1359	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1359	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1359	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1361	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1361	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1361	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1363	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1363	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1363	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1363	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1364	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1364	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1364	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1365	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1365	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1365	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1365	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1368	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1368	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1368	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1369	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1369	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1369	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1370	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1370	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1370	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1371	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1371	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1371	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1372	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1372	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1372	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1375	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1375	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1375	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1375	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1375	KVILKKKKKDPSKLY	4	19
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1376	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1376	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1376	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1378	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1378	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1378	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1379	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1379	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1379	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1380	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1380	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1380	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1383	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1383	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1383	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1384	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1384	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1384	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1387	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1387	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1387	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1391	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1391	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1391	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1392	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1392	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1392	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1393	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1393	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1393	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1393	VKVILKKKKKDPSKL	3	18
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1398	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1398	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1398	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1412	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1416	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1416	DGVKVILKKKKKDPS	1	16
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1416	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1478	GVKVILKKKKKDPSK	2	17
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1478	VDGVKVILKKKKKDP	0	15
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	672	DRB1-1478	DGVKVILKKKKKDPS	1	16

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Fusion breakpoint peptide structures of NOS1AP-ASH1L

3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA.

File name	BPseq	Hgene	Tgene	Hchr	Hbp	Tchr	Tbp	AAlen
3792	ILKKKKKDPSKLYK	NOS1AP	ASH1L	chr1	162257226	chr1	155452240	672

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of NOS1AP-ASH1L

Virtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.

HLA allele	PDB ID	File name	BPseq	Docking score	Glide score
HLA-B14:02	3BVN	3792	ILKKKKKDPSKLYK	-7.9962	-8.1096
HLA-B14:02	3BVN	3792	ILKKKKKDPSKLYK	-5.70842	-6.74372
HLA-B52:01	3W39	3792	ILKKKKKDPSKLYK	-6.83737	-6.95077
HLA-B52:01	3W39	3792	ILKKKKKDPSKLYK	-4.4836	-5.5189
HLA-A11:01	4UQ2	3792	ILKKKKKDPSKLYK	-10.0067	-10.1201
HLA-A11:01	4UQ2	3792	ILKKKKKDPSKLYK	-9.03915	-10.0745
HLA-A24:02	5HGA	3792	ILKKKKKDPSKLYK	-6.56204	-6.67544
HLA-A24:02	5HGA	3792	ILKKKKKDPSKLYK	-5.42271	-6.45801
HLA-B44:05	3DX8	3792	ILKKKKKDPSKLYK	-7.85648	-8.89178
HLA-B44:05	3DX8	3792	ILKKKKKDPSKLYK	-5.3978	-5.5112
HLA-A02:01	6TDR	3792	ILKKKKKDPSKLYK	-3.37154	-4.40684

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Vaccine Design for the FusionNeoAntigens of NOS1AP-ASH1L

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.

Fusion gene	Hchr	Hbp	Tchr	Tbp	Start in +/-13AA	End in +/-13AA	FusionNeoAntigen peptide sequence	FusionNeoAntigen RNA sequence
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	10	19	KKKDPSKLY	AAGAAAAAGGACCCTTCAAAGTTGTAC
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	10	20	KKKDPSKLYK	AAGAAAAAGGACCCTTCAAAGTTGTACAAG
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	8	19	KKKKKDPSKLY	AAGAAGAAGAAAAAGGACCCTTCAAAGTTGTAC
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	9	18	KKKKDPSKL	AAGAAGAAAAAGGACCCTTCAAAGTTG
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	9	19	KKKKDPSKLY	AAGAAGAAAAAGGACCCTTCAAAGTTGTAC

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.

Fusion gene	Hchr	Hbp	Tchr	Tbp	Start in +/-13AA	End in +/-13AA	FusionNeoAntigen peptide	FusionNEoAntigen RNA sequence
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	0	15	VDGVKVILKKKKKDP	GTGGATGGAGTGAAAGTGATTCTGAAGAAGAAGAAAAAGGACCCT
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	1	16	DGVKVILKKKKKDPS	GATGGAGTGAAAGTGATTCTGAAGAAGAAGAAAAAGGACCCTTCA
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	2	17	GVKVILKKKKKDPSK	GGAGTGAAAGTGATTCTGAAGAAGAAGAAAAAGGACCCTTCAAAG
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	3	18	VKVILKKKKKDPSKL	GTGAAAGTGATTCTGAAGAAGAAGAAAAAGGACCCTTCAAAGTTG
NOS1AP-ASH1L	chr1	162257226	chr1	155452240	4	19	KVILKKKKKDPSKLY	AAAGTGATTCTGAAGAAGAAGAAAAAGGACCCTTCAAAGTTGTAC

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Information of the samples that have these potential fusion neoantigens of NOS1AP-ASH1L

These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.

Cancer type	Fusion gene	Hchr	Hbp	Henst	Tchr	Tbp	Tenst	Sample
LUAD	NOS1AP-ASH1L	chr1	162257226	ENST00000361897	chr1	155452240	ENST00000368346	TCGA-L9-A444-01A

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Potential target of CAR-T therapy development for NOS1AP-ASH1L

Predicted 3D structure. We used RoseTTAFold.

Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features

* Minus value of BPloci means that the break point is located before the CDS.

- In-frame and retained 'Transmembrane'.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Subcellular localization prediction of the transmembrane domain retained fusion proteins
* We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image.

Hgene

Hchr

Hbp

Henst

Tgene

Tchr

Tbp

Tenst

DeepLoc result

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Related Drugs to NOS1AP-ASH1L

Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to NOS1AP-ASH1L

Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source

	Fusion Gene and Fusion Protein Summary
	Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)
	Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)
	Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)
	Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)
	Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)
	Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)
	Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)
	Potential target of CAR-T therapy development
	Information on the samples that have these potential fusion neoantigens
	Fusion Protein Targeting Drugs - (Manual Curation)
	Fusion Protein Related diseases - (Manual Curation)