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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:LSM14A-DCTN2

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: LSM14A-DCTN2
FusionPDB ID: 50183
FusionGDB2.0 ID: 50183
HgeneTgene
Gene symbol

LSM14A

DCTN2

Gene ID

26065

10540

Gene nameLSM14A mRNA processing body assembly factordynactin subunit 2
SynonymsC19orf13|FAM61A|RAP55|RAP55ADCTN50|DYNAMITIN|HEL-S-77|RBP50
Cytomap

19q13.11

12q13.3

Type of geneprotein-codingprotein-coding
Descriptionprotein LSM14 homolog ALSM14 homolog ALSM14A, SCD6 homolog ARNA-associated protein 55RNA-associated protein 55AalphaSNBPfamily with sequence similarity 61, member AhRAP55hRAP55Aprotein SCD6 homologputative alpha-synuclein-binding proteindynactin subunit 250 kDa dynein-associated polypeptidedynactin 2 (p50)dynactin complex 50 kDa subunitepididymis secretory protein Li 77epididymis secretory sperm binding proteinp50 dynamitin
Modification date2020032720200313
UniProtAcc

Q8ND56

Q13561

Ensembl transtripts involved in fusion geneENST idsENST00000433627, ENST00000540746, 
ENST00000544216, 
ENST00000551400, 
ENST00000434715, ENST00000537439, 
ENST00000543672, ENST00000548249, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score18 X 10 X 10=18007 X 3 X 6=126
# samples 247
** MAII scorelog2(24/1800*10)=-2.90689059560852
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/126*10)=-0.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: LSM14A [Title/Abstract] AND DCTN2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)LSM14A(34687668)-DCTN2(57925890), # samples:1
Anticipated loss of major functional domain due to fusion event.LSM14A-DCTN2 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.
LSM14A-DCTN2 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneLSM14A

GO:0033962

cytoplasmic mRNA processing body assembly

16484376


check buttonFusion gene breakpoints across LSM14A (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across DCTN2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS5.0N/ABF686433LSM14Achr19

34687668

+DCTN2chr12

57925890

-


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000540746LSM14Achr1934687668+ENST00000548249DCTN2chr1257925890-129953385711208
ENST00000540746LSM14Achr1934687668+ENST00000537439DCTN2chr1257925890-109053385711208
ENST00000540746LSM14Achr1934687668+ENST00000434715DCTN2chr1257925890-109053385711208
ENST00000540746LSM14Achr1934687668+ENST00000543672DCTN2chr1257925890-109053385711208
ENST00000544216LSM14Achr1934687668+ENST00000548249DCTN2chr1257925890-125849244670208
ENST00000544216LSM14Achr1934687668+ENST00000537439DCTN2chr1257925890-104949244670208
ENST00000544216LSM14Achr1934687668+ENST00000434715DCTN2chr1257925890-104949244670208
ENST00000544216LSM14Achr1934687668+ENST00000543672DCTN2chr1257925890-104949244670208
ENST00000433627LSM14Achr1934687668+ENST00000548249DCTN2chr1257925890-125649042668208
ENST00000433627LSM14Achr1934687668+ENST00000537439DCTN2chr1257925890-104749042668208
ENST00000433627LSM14Achr1934687668+ENST00000434715DCTN2chr1257925890-104749042668208
ENST00000433627LSM14Achr1934687668+ENST00000543672DCTN2chr1257925890-104749042668208

check buttonDeepORF 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.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000540746ENST00000548249LSM14Achr1934687668+DCTN2chr1257925890-0.0020887850.99791116
ENST00000540746ENST00000537439LSM14Achr1934687668+DCTN2chr1257925890-0.0018097680.9981902
ENST00000540746ENST00000434715LSM14Achr1934687668+DCTN2chr1257925890-0.0018097680.9981902
ENST00000540746ENST00000543672LSM14Achr1934687668+DCTN2chr1257925890-0.0018097680.9981902
ENST00000544216ENST00000548249LSM14Achr1934687668+DCTN2chr1257925890-0.0022090280.99779093
ENST00000544216ENST00000537439LSM14Achr1934687668+DCTN2chr1257925890-0.0020128370.99798715
ENST00000544216ENST00000434715LSM14Achr1934687668+DCTN2chr1257925890-0.0020128370.99798715
ENST00000544216ENST00000543672LSM14Achr1934687668+DCTN2chr1257925890-0.0020128370.99798715
ENST00000433627ENST00000548249LSM14Achr1934687668+DCTN2chr1257925890-0.0019553060.9980447
ENST00000433627ENST00000537439LSM14Achr1934687668+DCTN2chr1257925890-0.0018396240.9981604
ENST00000433627ENST00000434715LSM14Achr1934687668+DCTN2chr1257925890-0.0018396240.9981604
ENST00000433627ENST00000543672LSM14Achr1934687668+DCTN2chr1257925890-0.0018396240.9981604

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>50183_50183_1_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000433627_DCTN2_chr12_57925890_ENST00000434715_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_2_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000433627_DCTN2_chr12_57925890_ENST00000537439_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_3_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000433627_DCTN2_chr12_57925890_ENST00000543672_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_4_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000433627_DCTN2_chr12_57925890_ENST00000548249_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_5_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000540746_DCTN2_chr12_57925890_ENST00000434715_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_6_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000540746_DCTN2_chr12_57925890_ENST00000537439_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_7_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000540746_DCTN2_chr12_57925890_ENST00000543672_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_8_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000540746_DCTN2_chr12_57925890_ENST00000548249_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_9_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000544216_DCTN2_chr12_57925890_ENST00000434715_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_10_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000544216_DCTN2_chr12_57925890_ENST00000537439_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_11_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000544216_DCTN2_chr12_57925890_ENST00000543672_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

>50183_50183_12_LSM14A-DCTN2_LSM14A_chr19_34687668_ENST00000544216_DCTN2_chr12_57925890_ENST00000548249_length(amino acids)=208AA_BP=148
MRAAGSGGGGAMSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIPPRDEVFEYIIFRGSDIKDLTVCE
PPKPQCSLPQDPAIVQSSLGSSTSSFQSMGSYGPFGRMPTYSQFSPSSLVGQQFGAVGVAMQFGQLLTHLDTTQQMIANSLKDNTTLLTQ

--------------------------------------------------------------

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Fusion Protein Functional Features


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr19:34687668/chr12:57925890)
- 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.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LSM14A

Q8ND56

DCTN2

Q13561

FUNCTION: Essential for formation of P-bodies, cytoplasmic structures that provide storage sites for translationally inactive mRNAs and protect them from degradation (PubMed:16484376, PubMed:17074753, PubMed:29510985). Acts as a repressor of mRNA translation (PubMed:29510985). May play a role in mitotic spindle assembly (PubMed:26339800). {ECO:0000269|PubMed:16484376, ECO:0000269|PubMed:17074753, ECO:0000269|PubMed:26339800, ECO:0000269|PubMed:29510985}.FUNCTION: Modulates cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organization during mitosis. Involved in anchoring microtubules to centrosomes. May play a role in synapse formation during brain development.

check buttonRetention 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, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

* Minus value of BPloci means that the break pointn is located before the CDS.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneDCTN2chr19:34687668chr12:57925890ENST000004347151316379_399347.3333333333333407.0Coiled coilOntology_term=ECO:0000255
TgeneDCTN2chr19:34687668chr12:57925890ENST000005482491114379_399342.3333333333333402.0Coiled coilOntology_term=ECO:0000255

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneLSM14Achr19:34687668chr12:57925890ENST00000433627+311284_320138.333333333333341040.0DomainDFDF
HgeneLSM14Achr19:34687668chr12:57925890ENST00000544216+310284_320138.33333333333334464.0DomainDFDF
HgeneLSM14Achr19:34687668chr12:57925890ENST00000433627+311361_377138.333333333333341040.0MotifNote=FFD box
HgeneLSM14Achr19:34687668chr12:57925890ENST00000433627+311380_400138.333333333333341040.0MotifNote=TFG box
HgeneLSM14Achr19:34687668chr12:57925890ENST00000544216+310361_377138.33333333333334464.0MotifNote=FFD box
HgeneLSM14Achr19:34687668chr12:57925890ENST00000544216+310380_400138.33333333333334464.0MotifNote=TFG box
TgeneDCTN2chr19:34687668chr12:57925890ENST000004347151316214_244347.3333333333333407.0Coiled coilOntology_term=ECO:0000255
TgeneDCTN2chr19:34687668chr12:57925890ENST00000434715131699_132347.3333333333333407.0Coiled coilOntology_term=ECO:0000255
TgeneDCTN2chr19:34687668chr12:57925890ENST000005482491114214_244342.3333333333333402.0Coiled coilOntology_term=ECO:0000255
TgeneDCTN2chr19:34687668chr12:57925890ENST00000548249111499_132342.3333333333333402.0Coiled coilOntology_term=ECO:0000255


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Fusion Protein-Protein Interaction


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)
GenePPI interactors
LSM14ALsm14a, ELAVL1, RAE1, HNRNPDL, SYNCRIP, CIRBP, HNRNPH1, DDX1, HNRNPU, HNRNPL, CSNK2A1, HECW2, TP53, PRMT8, NTRK1, XPO1, AHSA1, SORT1, EGFR, SFPQ, STRAP, G3BP1, PHACTR3, PTCH1, ESR2, HEXIM1, MEPCE, LARP7, SNAI1, RECQL4, ATG16L1, ZC3H7A, EIF4ENIF1, DDX6, C1QBP, PRMT1, EDC4, PATL1, LSM1, LSM2, LSM3, LSM4, LSM6, LSM7, DCP1A, EDC3, UBQLN2, ZBTB10, HDAC2, APEX1, ITFG1, PLEKHA4, ORF9b, ENG, ZC3H18, N, nsp9, nsp3, ESR1, CELF1, DAZL, FAM120C, FMR1, FUBP3, FXR1, IGF2BP2, AGO1, AGO2, AGO3, ALG13, ANKRD17, ATXN2, CAPRIN1, CNOT1, CNOT10, CNOT3, CNOT4, RQCD1, CPEB4, DCP1B, FAM120A, G3BP2, GIGYF1, GTPBP1, HELZ, IGF2BP1, LSM12, LSM14B, KIAA0430, MEX3A, MKRN2, OTUD4, PRRC2A, PRRC2B, PRRC2C, PUM1, R3HDM1, RC3H1, RC3H2, SECISBP2, SMG1, SMG5, SMG7, SMG8, STAU2, TDRD3, TNRC6B, TOP3B, TRIM56, UBAP2L, UPF1, USP10, YTHDF1, YTHDF2, YTHDF3, ZC3HAV1, ZCCHC11, MEX3B, MOV10, DDX3X, FXR2, ANKHD1-EIF4EBP3, CNOT2, KIAA0355, LARP1B, PUM2, RBMS1, ZCCHC3, UNK, XRN1, CEP85, LARP4B, RNF214, UBAP2, RBM47, NUFIP2, TAF15, CNOT6, NUPL2, PARP12, SPATS2L, ARHGAP11B, ARHGAP23, CIC, FBP1, INSIG1, INSIG2, NUP37, DDX58, OGT, CD274, UFL1, FBL, MAPRE1, MYCBP2, NAA40, TMEM14B, IFI27L1, COL8A1, KIF2C, TMC4, GAGE2E, PEA15, SEPT9, CPEB1, KLF15, KLF16, KLF5, KLF8, SOX15, SOX5, SOX6, TLX2, TLX3,


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
LSM14Aall structure
DCTN2


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to LSM14A-DCTN2


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

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Related Diseases to LSM14A-DCTN2


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

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource