SS18L1--SSX1

Hyperlinks to databases below
COSMIC CHIMERKB CHIMERPUB CHIMERSEQ CHITARS
FARE-CAFE TICDB TUMOR_FUSION_GDPFusionCancerConjoinG
1000Genome18CancersBodymap2HPANon_Tumor_Cells
Babiceanu_DatasetBanned_DatasetKnown_FusionsONGene DatabaseBushman Cancer Gene Database
Tumor Gene Set By UniprotOesophagus_DatasetGliomas_DatasetProstate_DatasetPancreases_Dataset
GTExKlijn_DatasetFimereli_Dataset Literature Cortex_Dataset
ChromothripsisDB

Link to Genecards:

SS18L1 SSX1

COSMIC

The fusion gene pair SS18L1--SSX1 information is available in COSMIC database.

Link
SS18L1--SSX1

ChimerKB

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The fusion gene pair SS18L1--SSX1 information is available in CHIMERKB (CHIMERDB 3.0) database.

Fusion_pair5'Gene Junction (Chr/Position/Strand)3'Gene Junction (Chr/Position/Strand)Breakpoint_TypeGenome_BuildDiseaseValidationPMIDGene TypeSource
SS18L1_SSX1-/1190/ -/467/ Exonic hg19 - - - - Cosmic_recurrent
SS18L1_SSX1-/-/ -/-/ - hg19 synovial sarcoma - 12696068 - Cosmic_nonrecurrent
SS18L1_SSX1-/0/ -/0/ Exonic hg18 - - - - TICdb
SS18L1_SSX1-/-/ -/-/ - hg18 synovial sarcoma - - - OMIM

ChimerPUB

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The fusion gene pair SS18L1--SSX1 information is not available in CHIMERPUB (CHIMERDB 3.0) database.

ChimerSEQ

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The fusion gene pair SS18L1--SSX1 information is not available in CHIMERSEQ (CHIMERDB 3.0) database.

ChiTaRS 2.1

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The fusion gene pair SS18L1--SSX1 information is not available in CHITARS database.

FARE-CAFE

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The fusion gene pair SS18L1--SSX1 information is available in FARE-CAFE.

Cancer Information
Fusion_ProteinCancer_TypeFP_Experimental_MethodFP_KaryotypeFP_Reference
SS18L1-SSX1 Synovial sarcoma PCR,DNA sequencing,FISH,RT-PCR,Immunofluorescence,DOP-PCR t(X;18)(p11;q11) PubMed:12696068

Genomic Information
Fusion_ProteinFusion_Protein_Isoforms5'_ProteinF_B_PFBP_in_Exon/Intron5'_Protein_on_Positive/Negative_Strands3'_ProteinS_B_P3'_Protein_on_Positive/Negative_StrandsSBP_in_Exon/IntronFusion_Protein_mRNA_sequenceFusion_Protein_ReferenceFusion_Protein_GenbankID
SS18L1-SSX1 SS18L1-SSX1 SS18L1 60749700 1 1 SSX1 48123215 1 0 CCGCAGACAGCGCCGTCTGCCCAGCAGCAGCGGCCCTACGGCTATGAACAgATCATGCCCAAGAAGCCAGCAGAGGACGAAAA 12696068 _

Domains and DDI Information
Fusion_ProteinFusion_Protein_IsoformsDomains_in_5'PartnerDDIs_for_Domains_in_5'PartnerDomains_in_3'PartnerDDIs_for_Domains_in_3'Partner5'_Protein5'P_Domains5'P_Domains_DDI_partners3'_Protein3'P_Domains3'P_Domains_DDI_partnersMissing_FP_DomainsMissing_FP_Domains_DDI
SS18L1-SSX1 SS18L1-SSX1 1) SSXT
- 1) SSXRD
-SS18L1 1) SSXT
-SSX1 1) KRAB
2) SSXRD
- 1) KRAB
-

miRNA Information
Fusion_ProteinmiRNAs_Targets_Fusion_proteinMissing_MiRNAs_Targets_Fusion_proteinFP_miRNA_Validation_method
SS18L1-SSX1 hsa-miR-7-5p _ Microarray

Transcription Factors Information
Fusion_Protein5'P_Ref_mRNA_seqIDFP_Transcription_factorsFP_Missing_TFsFP_TF_Reference
SS18L1-SSX1 NM_198935.1 1) MITF_HUMAN
2) RBL2_HUMAN
3) E2F4_HUMAN
4) ETS1_HUMAN
5) EGR1_HUMAN
6) SOX2_HUMAN
7) E2F1_HUMAN
8) BRG1_HUMAN
9) HNF4A_HUMAN
10) TFAP2C_HUMAN
11) CEBPA_HUMAN
12) CTCF_HUMAN
13) ESR1_HUMAN
14) SETDB1_HUMAN
15) TRIM24_HUMAN
- 1) 21258399
2) 20385362
3) 21247883
4) 20019798
5) 20690147
6) 21211035
7) 21310950
8) 19505939
9) 21646355
10) 21572391
11) 20219941
12) 20219941
13) 21566084
14) 21430779
15) 21164480

TicDB

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The fusion gene pair SS18L1--SSX1 information is available in TICDB.
HeadGeneTailGenePubmedIDSequence
SS18L1 SSX1 12696068 CCGCAGACAGCGCCGTCTGCCCAGCAGCAGCGGCCCTACGGCTATGAACAgATCATGCCCAAGAAGCCAGCAGAGGACGAAAA

TUMOR FUSION Gene Data Portal

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The fusion gene pair SS18L1--SSX1 information is not available in TUMOR FUSION Gene Data Portal.

FusionCancer

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The fusion gene pair SS18L1--SSX1 information is not available in FusionCancer Database.

ConjoinG

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The fusion gene pair SS18L1--SSX1 information is not available in ConjoinG Database.

1000Genome

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Fusion gene SS18L1--SSX1 has not been seen in a healthy sample (RNA-seq data from some samples from 1000 genomes project: Greger et al., Tandem RNA Chimeras Contribute to Transcriptome Diversity in Human Population and Are Associated with Intronic Genetic Variants, Plos One, Aug 2014 ). Therefore this candidate fusion gene has a low probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

18Cancers

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Fusion gene SS18L1--SSX1 is not found in a RNA-seq dataset of 18 types of cancers from 600 tumor samples (B. Alaei-Mahabadia et al., Global analysis of somatic structural genomic alterations and their impact on gene expression in diverse human cancers, PNAS, Nov. 2016 )

Bodymap2

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Fusion gene SS18L1--SSX1 is not found in the list of known false positive fusion genes. The list has been generated from healthy human samples collected from 16 organs from Illumina BodyMap2 RNA-seq database. A candidate fusion gene found in this list has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

HPA

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Fusion gene SS18L1--SSX1 is not found in a healthy sample (RNA-seq database of 27 healthy tissues from 95 human individuals). A candidate fusion gene found in this dataset has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

Non_Tumor_Cells

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Fusion gene SS18L1--SSX1 was not found among the fusion genes which have been previously reported/found in non-tumor cell lines, like for example HEK293. The genes which are observed in those list can be considered as non-somatic mutation. [Fusion gene List compiled from FusionCatcher]

Babiceanu_Dataset

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The fusion gene pair SS18L1--SSX1 information is not available in Babiceanu_Dataset.

Banned_Dataset

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Fusion gene SS18L1--SSX1 is not found in the list of known false positive fusion genes. A candidate fusion gene found in this list has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

Known_Fusions

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Fusion gene SS18L1--SSX1 has been found in the list of fusions previously reported or published in scientific articles/reports/books/abstracts/databases, indexed by Google, Google Scholar, PubMed, etc. This label has only the role to answer with YES or NO the question "has ever before a given (candidate) fusion gene been published or reported?". This label does not have in anyway the role to provide the original references to the original scientific articles/reports/books/abstracts/databases for a given fusion gene.[Fusion gene List compiled from FusionCatcher]

ONGene Database

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The head gene SS18L1 is not a known oncogene according to ONGENE database.


The tail gene SSX1 is a known oncogene according to ONGENE database.

Bushman Cancer Gene Database

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The head gene SS18L1 is cancer associated according to Bushman Cancer Gene database.


The tail gene SSX1 is cancer associated according to Bushman Cancer Gene database.

Tumor Gene Set By Uniprot

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The head gene SS18L1 is not a proto-oncogene or tumor suppresor gene according to Uniprot database.


The tail gene SSX1 is proto-oncogene or tumor suppresor gene according to Uniprot database.

Oesophagus_Dataset

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Fusion gene SS18L1--SSX1 is not found in oesophageal tumors from TCGA samples, which are published here.

Gliomas_Dataset

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Fusion gene SS18L1--SSX1 is not found in the RNA-seq dataset of 272 glioblastomas, published here.

Prostate_Dataset

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The fusion gene pair SS18L1--SSX1 information is not available in Prostate Dataset (150 prostate tumor RNAs, Robison et al, Integrative Clinical Genomics of Advanced Prostate Cancer, Cell, Vol. 161, May 2015, http://dx.doi.org/10.1016/j.cell.2015.05.001).

Pancreases_Dataset

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Fusion gene SS18L1--SSX1 is not found in pancreatic tumor dataset, published here.

GTEx

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Fusion gene SS18L1--SSX1 has not been found in a healthy sample (GTEx database of healthy tissues (thru FusionAnnotator)). A candidate fusion gene found in this set has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

Klijin_Dataset

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The fusion gene pair SS18L1--SSX1 information is not available in Klijn Dataset.

Fimereli_Dataset

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The fusion gene pair SS18L1--SSX1 information is not found in Fimereli_Dataset.

Literature

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The fusion gene pair SS18L1--SSX1 is found in known fusion genelist compiled from literature.

FusionGeneArticleLink
SS18L1--SSX1The pathology of soft tissue sarcomas (Marta Sbaraglia and Angelo P. Dei Tos; ONCOLOGY IMAGING)https://doi.org/10.1007/s11547-018-0882-7

Cortex_Dataset

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Fusion gene SS18L1--SSX1 is not found in Cortex_Dataset (Fusion genes found in healthy human brains (BA9 prefrontal cortex)) . A candidate fusion gene found in this dataset has a very high probability of being a false positive.

ChromothripsisDB

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The fusion gene pair SS18L1--SSX1 information is not available in ChromothripsisDB database.