SQSTM1--ALK

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:

SQSTM1 ALK

COSMIC

The fusion gene pair SQSTM1--ALK information is available in COSMIC database.

Link
SQSTM1--ALK

ChimerKB

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The fusion gene pair SQSTM1--ALK 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
SQSTM1_ALK-/932/ -/4080/ Exonic hg19 - - - Kinase; Cosmic_recurrent
SQSTM1_ALK-/-/ -/-/ - hg19 lymphoid neoplasm - 21134980 Kinase; Cosmic_nonrecurrent

ChimerPUB

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The fusion gene pair SQSTM1--ALK information is available in CHIMERPUB (CHIMERDB 3.0) database.

Fusion_pairTranslocationPMIDDiseaseValidationGene TypeSentence_highlight
SQSTM1_ALK- 23588372B cell lymphoma;lymphoma FISH - Here we report a large B-cell lymphoma with a peculiar pattern of diffuse and cytoplasmic immunohistochemical staining and carrying sequestosome 1 (SQSTM1)-ALK rearrangement, identified by reverse transcription polymerase chain reaction analysis and Rapid Amplification of cDNA Ends analysis and confirmed by fluorescence in situ hybridization with specific dual-color fusion probes. /// "Consequently, STAT3 inhibition provides a possible therapeutic target also for lymphomas with SQSTM1-ALK variant translocation.. " /// STAT3 pathway is activated in ALK-positive large B-cell lymphoma carrying SQSTM1-ALK rearrangement and provides a possible therapeutic target. /// STAT3 pathway is activated in ALK-positive large B-cell lymphoma carrying SQSTM1-ALK rearrangement and provides a possible therapeutic target..
SQSTM1_ALK- 25413595histiocytoma - - Epithelioid cell histiocytoma of the skin with clonal ALK gene rearrangement resulting in VCL-ALK and SQSTM1-ALK gene fusions..
SQSTM1_ALK- 21134980B cell lymphoma;lymphoma - - this led to the identification of SQSTM1-ALK. /// "Identification of a novel fusion, SQSTM1-ALK, in ALK-positive large B-cell lymphoma.. " /// "SQSTM1-ALK may be a rare fusion, but our data provide novel biological insights and serve as a key for the accurate diagnosis of this rare lymphoma.. " /// We showed transforming activities of SQSTM1-ALK with a focus formation assay and an in vivo tumorigenicity assay using 3T3 fibroblasts infected with a recombinant retrovirus encoding SQSTM1-ALK.

ChimerSEQ

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The fusion gene pair SQSTM1--ALK information is available in CHIMERSEQ (CHIMERDB 3.0) database.

Fusion_pair5'Gene Junction (Chr/Position/Strand)3'Gene Junction (Chr/Position/Strand)5'Gene_locus3'Gene_locusBreakpoint_TypeGenome_BuildFrameChr_infoCancertype_or_diseaseBarcodeIDGene TypeSource
SQSTM1_ALKchr5/179252226/ chr2/29416042/ 5q35.3 2p23.2 Exonic hg19 - Inter-chr diffuse large B cell lymphoma;MALT lymphoma AB583922 Kinase; ChiTaRs

ChiTaRS 2.1

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The fusion gene pair SQSTM1--ALK information is available in CHITARS database.

OrganismChimeraIDFusion genepairHead geneTail gene
GeneChromosomeGenomic_startGenomic_stopStrandFusiongene_startposFusiongene_endpos%IdentGeneChromosomeGenomic_startGenomic_stopStrandFusiongene_startposFusiongene_endpos%Ident
Human AB583922SQSTM1--ALK SQSTM15 179247931 179252226 + 1 760 100 ALK2 29416042 29446395 - 760 2499 99.8

FARE-CAFE

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The fusion gene pair SQSTM1--ALK information is available in FARE-CAFE.

Cancer Information
Fusion_ProteinCancer_TypeFP_Experimental_MethodFP_KaryotypeFP_Reference
SQSTM1-ALK Diffuse large B-cell lymphoma DNA sequencing,Southern blot,PCR t(2;5)(p23;q35) PubMed: 21134980

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
SQSTM1-ALK SQSTM1-ALK SQSTM1 179252226 0 1 ALK 29446375 0 1 agctgcccttagccctctggTgtaccgccggaagcaccag 21134980 _

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
SQSTM1-ALK SQSTM1-ALK 1) PB1
2) ZZ
1) PB1 , PX , Pkinase , SH3_1
- -SQSTM1 1) ZZ
2) UBA_5
-ALK 1) MAM
2) Gly_rich
3) Pkinase_Tyr
1) ig , Astacin , MATH
2) Inhibitor_Mig-6 , Y_phosphatase , Pkinase_Tyr , SH3_9 , EphA2_TM , CH , SH3_1 , Pkinase , BPS , AvrPto , FERM_M , SH2
1) UBA_5
2) MAM
3) Gly_rich
4) Pkinase_Tyr
1) ig , Astacin , MATH
2) Inhibitor_Mig-6 , Y_phosphatase , Pkinase_Tyr , SH3_9 , EphA2_TM , CH , SH3_1 , Pkinase , BPS , AvrPto , FERM_M , SH2

miRNA Information
Fusion_ProteinmiRNAs_Targets_Fusion_proteinMissing_MiRNAs_Targets_Fusion_proteinFP_miRNA_Validation_method
SQSTM1-ALK hsa-miR-132-3p hsa-miR-16-5phsa-miR-335-5phsa-miR-7-5phsa-miR-877-5phsa-miR-423-5phsa-miR-484 Microarray

Transcription Factors Information
Fusion_Protein5'P_Ref_mRNA_seqIDFP_Transcription_factorsFP_Missing_TFsFP_TF_Reference
SQSTM1-ALK NM_001142298.1 - 1) TRIM28_HUMAN
2) MITF_HUMAN
3) STAT1_HUMAN
4) RBL2_HUMAN
5) P53_HUMAN
6) RUNX1_HUMAN
7) PRDM14_HUMAN
8) ESTROGEN RECEPTOR ALPHA_HUMAN
9) EGR1_HUMAN
10) FOS_HUMAN
11) GATA3_HUMAN
12) E2F1_HUMAN
13) SOX2_HUMAN
14) CTCF_HUMAN
15) BRG1_HUMAN
16) HNF4A_HUMAN
17) TFAP2C_HUMAN
18) FOXA1_HUMAN
19) ESR1_HUMAN
20) NR1H3_HUMAN
21) SETDB1_HUMAN
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TicDB

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The fusion gene pair SQSTM1--ALK information is available in TICDB.
HeadGeneTailGenePubmedIDSequence
SQSTM1 ALK 21134980 agctgcccttagccctctggTgtaccgccggaagcaccag

TUMOR FUSION Gene Data Portal

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The fusion gene pair SQSTM1--ALK information is not available in TUMOR FUSION Gene Data Portal.

FusionCancer

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The fusion gene pair SQSTM1--ALK information is not available in FusionCancer Database.

ConjoinG

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The fusion gene pair SQSTM1--ALK information is not available in ConjoinG Database.

1000Genome

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Fusion gene SQSTM1--ALK 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 SQSTM1--ALK 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 SQSTM1--ALK 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 SQSTM1--ALK 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 SQSTM1--ALK 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 SQSTM1--ALK information is not available in Babiceanu_Dataset.

Banned_Dataset

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Fusion gene SQSTM1--ALK 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 SQSTM1--ALK has not 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. The list has been manually curated by FusionCatcher software. 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 SQSTM1 is a known oncogene according to ONGENE database.


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

Bushman Cancer Gene Database

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The head gene SQSTM1 is not cancer associated according to Bushman Cancer Gene database.


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

Tumor Gene Set By Uniprot

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The head gene SQSTM1 is not a proto-oncogene or tumor suppresor gene according to Uniprot database.


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

Oesophagus_Dataset

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Fusion gene SQSTM1--ALK is not found in oesophageal tumors from TCGA samples, which are published here.

Gliomas_Dataset

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Fusion gene SQSTM1--ALK is not found in the RNA-seq dataset of 272 glioblastomas, published here.

Prostate_Dataset

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The fusion gene pair SQSTM1--ALK 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 SQSTM1--ALK is not found in pancreatic tumor dataset, published here.

GTEx

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Fusion gene SQSTM1--ALK 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 SQSTM1--ALK information is not available in Klijn Dataset.

Fimereli_Dataset

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The fusion gene pair SQSTM1--ALK information is not found in Fimereli_Dataset.

Literature

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The fusion gene pair SQSTM1--ALK information is not found in known fusion genelist compiled from literature.

Cortex_Dataset

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Fusion gene SQSTM1--ALK 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 SQSTM1--ALK information is not available in ChromothripsisDB database.