MSI2--HOXA9

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:

MSI2 HOXA9

COSMIC

The fusion gene pair MSI2--HOXA9 information is not available in COSMIC database.

ChimerKB

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The fusion gene pair MSI2--HOXA9 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
MSI2_HOXA9-/0/ -/491/ Exonic hg18 - - - Oncogene; TICdb
MSI2_HOXA9-/-/ -/-/ - hg18 chronic myeloid leukemia - 12649177 Oncogene; OMIM

ChimerPUB

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The fusion gene pair MSI2--HOXA9 information is available in CHIMERPUB (CHIMERDB 3.0) database.

Fusion_pairTranslocationPMIDDiseaseValidationGene TypeSentence_highlight
MSI2_HOXA9t(7;17)(p15;q23) / t(7;17)(q32-34;q23) / 12649177chronic myeloid leukemia;myeloid leukemia;leukemia FISH - In this study, we show that a novel gene in 17q23, Musashi-2 (MSI2), encoding a putative RNA-binding protein, is rearranged in both cases and that a MSI2/HOXA9 fusion gene is formed in the case with the 7p15 breakpoint. /// "The identified in-frame MSI2/HOXA9 fusion transcript retains both of the RNA recognition motif domains of MSI2, which is fused to the homeobox domain of HOXA9, and is likely to play an important role in the disease progression of CML.. "

ChimerSEQ

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The fusion gene pair MSI2--HOXA9 information is not available in CHIMERSEQ (CHIMERDB 3.0) database.

ChiTaRS 2.1

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The fusion gene pair MSI2--HOXA9 information is not available in CHITARS database.

FARE-CAFE

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The fusion gene pair MSI2--HOXA9 information is available in FARE-CAFE.

Cancer Information
Fusion_ProteinCancer_TypeFP_Experimental_MethodFP_KaryotypeFP_Reference
MSI2-HOXA9 Chronic myeloid leukemia FISH,RT-PCR,Southern blotting t(7;17)(p15;q23) PubMed:12649177

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
MSI2-HOXA9 MSI2-HOXA9 MSI2 55693445 0 1 HOXA9 27204537 0 1 CTGCCTTACACCATGGACGCGTTCATGCTTGGCATGGGGATGCTGgTTGATAGAGAAAAACAACCCAGCGAAGGCGCCTTCTCTGAAAACAATGCT 12649177 _

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
MSI2-HOXA9 MSI2-HOXA9 1) RRM_1
1) 2OG-FeII_Oxy_2 , Mago-bind , PHD , RRM_6 , La , Mago_nashi , Pkinase , SAP18 , MIF4G_like , NOPS , RRM_1 , SF3b1 , MIF4G_like_2 , NUDIX_2 , RRM_5 , Vinculin
- -MSI2 1) RRM_1
1) 2OG-FeII_Oxy_2 , Mago-bind , PHD , RRM_6 , La , Mago_nashi , Pkinase , SAP18 , MIF4G_like , NOPS , RRM_1 , SF3b1 , MIF4G_like_2 , NUDIX_2 , RRM_5 , Vinculin
HOXA9 1) Hox9_act
2) Homeobox
1) Homeobox , Pou , SBP_bac_1 , SRF-TF , CUT , HNF-1_N
1) Hox9_act
2) Homeobox
1) Homeobox , Pou , SBP_bac_1 , SRF-TF , CUT , HNF-1_N

miRNA Information
Fusion_ProteinmiRNAs_Targets_Fusion_proteinMissing_MiRNAs_Targets_Fusion_proteinFP_miRNA_Validation_method
MSI2-HOXA9 _ hsa-miR-155-5phsa-miR-652-3phsa-miR-484 _

Transcription Factors Information
Fusion_Protein5'P_Ref_mRNA_seqIDFP_Transcription_factorsFP_Missing_TFsFP_TF_Reference
MSI2-HOXA9 NM_138962.2 1) MITF_HUMAN
2) STAT1_HUMAN
3) RB1_HUMAN
4) RBL2_HUMAN
5) ZNF263_HUMAN
6) P53_HUMAN
7) RUNX1_HUMAN
8) ESTROGEN RECEPTOR ALPHA_HUMAN
9) ETS1_HUMAN
10) EGR1_HUMAN
11) FOS_HUMAN
12) GATA2_HUMAN
13) TFAP2C_HUMAN
14) FOXA1_HUMAN
15) CEBPA_HUMAN
16) CTCF_HUMAN
17) ESR1_HUMAN
18) STAT6_HUMAN
19) ESR2_HUMAN
20) FOXP1_HUMAN
21) NR1H3_HUMAN
22) SETDB1_HUMAN
23) TRIM24_HUMAN
24) GATA3_HUMAN
25) SOX2_HUMAN A
26) TAL1_HUMAN A
27) BRG1_HUMAN A
28) HNF4A_HUMAN A
29) HIF1A_HUMAN
1) VDR_HUMAN
1) 21258399
2) 19122651
3) 20385362
4) 19887448
5) 19887448
6) 21394211
7) 20019798
8) 20547749
9) 20019798
10) 20690147
11) 20139302
12) 21808000
13) 21572391
14) 21572391
15) 20219941
16) 20219941
17) 20348243
18) 21828071
19) 21235772
20) 21924763
21) 22292898
22) 21430779
23) 21164480
24) 21878914
25) 21211035 A
26) 21795385 A
27) 19505939 A
28) 21646355 A
29) 21447827

TicDB

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The fusion gene pair MSI2--HOXA9 information is available in TICDB.
HeadGeneTailGenePubmedIDSequence
MSI2 HOXA9 12649177 CTGCCTTACACCATGGACGCGTTCATGCTTGGCATGGGGATGCTGgTTGATAGAGAAAAACAACCCAGCGAAGGCGCCTTCTCTGAAAACAATGCT

TUMOR FUSION Gene Data Portal

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The fusion gene pair MSI2--HOXA9 information is not available in TUMOR FUSION Gene Data Portal.

FusionCancer

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The fusion gene pair MSI2--HOXA9 information is not available in FusionCancer Database.

ConjoinG

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The fusion gene pair MSI2--HOXA9 information is not available in ConjoinG Database.

1000Genome

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Fusion gene MSI2--HOXA9 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 MSI2--HOXA9 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 MSI2--HOXA9 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 MSI2--HOXA9 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 MSI2--HOXA9 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 MSI2--HOXA9 information is not available in Babiceanu_Dataset.

Banned_Dataset

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Fusion gene MSI2--HOXA9 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 MSI2--HOXA9 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 MSI2 is not a known oncogene according to ONGENE database.


The tail gene HOXA9 is a known oncogene according to ONGENE database.

Bushman Cancer Gene Database

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The head gene MSI2 is cancer associated according to Bushman Cancer Gene database.


The tail gene HOXA9 is cancer associated according to Bushman Cancer Gene database.

Tumor Gene Set By Uniprot

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The head gene MSI2 is not a proto-oncogene or tumor suppresor gene according to Uniprot database.


The tail gene HOXA9 is proto-oncogene or tumor suppresor gene according to Uniprot database.

Oesophagus_Dataset

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Fusion gene MSI2--HOXA9 is not found in oesophageal tumors from TCGA samples, which are published here.

Gliomas_Dataset

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Fusion gene MSI2--HOXA9 is not found in the RNA-seq dataset of 272 glioblastomas, published here.

Prostate_Dataset

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The fusion gene pair MSI2--HOXA9 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 MSI2--HOXA9 is not found in pancreatic tumor dataset, published here.

GTEx

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Fusion gene MSI2--HOXA9 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 MSI2--HOXA9 information is not available in Klijn Dataset.

Fimereli_Dataset

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The fusion gene pair MSI2--HOXA9 information is not found in Fimereli_Dataset.

Literature

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The fusion gene pair MSI2--HOXA9 information is not found in known fusion genelist compiled from literature.

Cortex_Dataset

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Fusion gene MSI2--HOXA9 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 MSI2--HOXA9 information is not available in ChromothripsisDB database.