ALK--MSN

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:

 ALK MSN

COSMIC

The fusion gene pair ALK--MSN information is not available in COSMIC database.

ChimerKB

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The fusion gene pair ALK--MSN 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
ALK_MSN-/4123/ -/1517-128/ Exonic hg19 - - - Oncogene; Cosmic_recurrent
ALK_MSN-/4079+1920/ -/1552/ Exonic hg19 - - - Oncogene; Cosmic_recurrent
ALK_MSN-/-/ -/-/ - hg19 lymphoid neoplasm - 11310834 Oncogene; Cosmic_nonrecurrent
ALK_MSN-/-/ -/-/ - hg19 lymphoid neoplasm - 15297972 Oncogene; Cosmic_nonrecurrent

ChimerPUB

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

ChimerSEQ

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The fusion gene pair ALK--MSN 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
ALK_MSNchr2/29446449/ chrX/64958868/ 2p23.2 Xq12 Exonic hg19 - Inter-chr NA AF295079 Oncogene; ChiTaRs

ChiTaRS 2.1

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

OrganismChimeraIDFusion genepairHead geneTail gene
GeneChromosomeGenomic_startGenomic_stopStrandFusiongene_startposFusiongene_endpos%IdentGeneChromosomeGenomic_startGenomic_stopStrandFusiongene_startposFusiongene_endpos%Ident
Human AF295079ALK--MSN ALK2 29446408 29446449 - 1 42 100 MSNX 64958868 64958980 + 43 155 100

FARE-CAFE

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

Cancer Information
Fusion_ProteinCancer_TypeFP_Experimental_MethodFP_KaryotypeFP_Reference
ALK-MSN Anaplastic Large Cell Lymphoma PCR,Western blot,FISH,DNA sequencing,RT-PCR,RACE t(2;5)(p23;q35) PubMed:15297972

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
ALK-MSN ALK-MSN ALK 29446449 1 0 MSN 64958868 1 0 AGTGCTTCAAGGGCCAGGCTGCCAGGCCATGTTGCAGCTGACGCTGAGCTGAAGACTGCCATGAGTACACCTCATGTGGCAGAGCCTGCTGAGAATGAGCAGGATGAGCAGGATGAGAATGGGGCAGAGGCTAGTGCTGACCTACGGGCTGATGCA _ AF295079

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
ALK-MSN ALK-MSN - - 1) ERM
1) ERM , FERM_C , FERM_M , FERM_N
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
MSN 1) FERM_N
2) FERM_M
3) FERM_C
4) ERM
1) FERM_C , FERM_M , ERM , MyTH4 , FERM_N
2) Pkinase_Tyr , FERM_N , FERM_C , Ras , RA , IRS , ERM , FERM_M
3) FERM_N , FERM_M , FERM_C , ERM , EBP50_C-term
4) ERM , FERM_C , FERM_M , FERM_N
1) MAM
2) Gly_rich
3) Pkinase_Tyr
4) FERM_N
5) FERM_M
6) FERM_C
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
3) FERM_C , FERM_M , ERM , MyTH4 , FERM_N
4) Pkinase_Tyr , FERM_N , FERM_C , Ras , RA , IRS , ERM , FERM_M
5) FERM_N , FERM_M , FERM_C , ERM , EBP50_C-term

miRNA Information
Fusion_ProteinmiRNAs_Targets_Fusion_proteinMissing_MiRNAs_Targets_Fusion_proteinFP_miRNA_Validation_method
ALK-MSN hsa-miR-192-5p, hsa-miR-200c-3p, hsa-miR-133a-3p, hsa-miR-124-3p, hsa-miR-215-5p, hsa-miR-615-3p, hsa-let-7b-5p hsa-miR-132-3p Report assay,Western Blot,Microarray,qPCR,NGS

Transcription Factors Information
Fusion_Protein5'P_Ref_mRNA_seqIDFP_Transcription_factorsFP_Missing_TFsFP_TF_Reference
ALK-MSN NM_004304.4 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
- 1) 17542650
2) 21258399
3) 19122651
4) 20385362
5) 21394211
6) 20019798
7) 20953172
8) 20547749
9) 20690147
10) 20139302
11) 21878914
12) 21310950
13) 21211035
14) 21795385
15) 19505939
16) 21646355
17) 21572391
18) 21572391
19) 21566084
20) 22292898
21) 21430779

TicDB

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The fusion gene pair ALK--MSN information is not available in TicDB.

TUMOR FUSION Gene Data Portal

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

FusionCancer

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

ConjoinG

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

1000Genome

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

Banned_Dataset

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Fusion gene ALK--MSN 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 ALK--MSN 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 ALK is a known oncogene according to ONGENE database.
The tail gene MSN is not a known oncogene according to ONGENE database.

Bushman Cancer Gene Database

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


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

Tumor Gene Set By Uniprot

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

Oesophagus_Dataset

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

Gliomas_Dataset

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

Prostate_Dataset

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

GTEx

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

Fimereli_Dataset

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

Literature

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

Cortex_Dataset

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