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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:TPM4-RPL18A

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: TPM4-RPL18A
FusionPDB ID: 93413
FusionGDB2.0 ID: 93413
HgeneTgene
Gene symbol

TPM4

RPL18A

Gene ID

7171

6142

Gene nametropomyosin 4ribosomal protein L18a
SynonymsHEL-S-108L18A
Cytomap

19p13.12-p13.11

19p13.11

Type of geneprotein-codingprotein-coding
Descriptiontropomyosin alpha-4 chainTM30p1epididymis secretory protein Li 10860S ribosomal protein L18alarge ribosomal subunit protein eL20ribosomal protein L18a-like protein
Modification date2020032020200313
UniProtAcc

P67936

.
Ensembl transtripts involved in fusion geneENST idsENST00000300933, ENST00000344824, 
ENST00000538887, ENST00000591645, 
ENST00000599870, ENST00000222247, 
ENST00000599898, ENST00000600147, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score22 X 19 X 9=37625 X 6 X 4=120
# samples 256
** MAII scorelog2(25/3762*10)=-3.91149984886111
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(6/120*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: TPM4 [Title/Abstract] AND RPL18A [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)TPM4(16199930)-RPL18A(17972102), # samples:2
Anticipated loss of major functional domain due to fusion event.
* 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
TgeneRPL18A

GO:0002181

cytoplasmic translation

25957688


check buttonFusion gene breakpoints across TPM4 (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 RPL18A (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
ChimerDB4OVTCGA-20-0991-01ATPM4chr19

16199930

+RPL18Achr19

17972102

+


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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)
ENST00000344824TPM4chr1916199930+ENST00000222247RPL18Achr1917972102+1323757581269403
ENST00000344824TPM4chr1916199930+ENST00000600147RPL18Achr1917972102+2094757581203381
ENST00000344824TPM4chr1916199930+ENST00000599898RPL18Achr1917972102+1205757581152364
ENST00000538887TPM4chr1916199930+ENST00000222247RPL18Achr1917972102+1292726271238403
ENST00000538887TPM4chr1916199930+ENST00000600147RPL18Achr1917972102+2063726271172381
ENST00000538887TPM4chr1916199930+ENST00000599898RPL18Achr1917972102+1174726271121364
ENST00000300933TPM4chr1916199930+ENST00000222247RPL18Achr1917972102+1357791291303424
ENST00000300933TPM4chr1916199930+ENST00000600147RPL18Achr1917972102+2128791291237402
ENST00000300933TPM4chr1916199930+ENST00000599898RPL18Achr1917972102+1239791291186385

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
ENST00000344824ENST00000222247TPM4chr1916199930+RPL18Achr1917972102+0.0074890860.9925109
ENST00000344824ENST00000600147TPM4chr1916199930+RPL18Achr1917972102+0.0066769170.993323
ENST00000344824ENST00000599898TPM4chr1916199930+RPL18Achr1917972102+0.0039738420.99602616
ENST00000538887ENST00000222247TPM4chr1916199930+RPL18Achr1917972102+0.0081165940.9918834
ENST00000538887ENST00000600147TPM4chr1916199930+RPL18Achr1917972102+0.0063984440.9936015
ENST00000538887ENST00000599898TPM4chr1916199930+RPL18Achr1917972102+0.0043043380.9956956
ENST00000300933ENST00000222247TPM4chr1916199930+RPL18Achr1917972102+0.0073992240.99260074
ENST00000300933ENST00000600147TPM4chr1916199930+RPL18Achr1917972102+0.0064943830.9935056
ENST00000300933ENST00000599898TPM4chr1916199930+RPL18Achr1917972102+0.0039824220.9960175

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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

>93413_93413_1_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000300933_RPL18A_chr19_17972102_ENST00000222247_length(amino acids)=424AA_BP=1
MWPAVPTSGPPPAVLTSAVRPGDLIAPTAAGPGGGERRGRPPRRQRLGGPGRGCAALAGAEPSRASAAARAPLRLRAMAGLNSLEAVKRK
IQALQQQADEAEDRAQGLQRELDGERERREKAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEE
KMEIQEMQLKEAKHIAEEADRKYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKVVGRCLPTPKC
HTPPLYRMRIFAPNHVVAKSRFWYFVSQLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRD

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

>93413_93413_2_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000300933_RPL18A_chr19_17972102_ENST00000599898_length(amino acids)=385AA_BP=1
MWPAVPTSGPPPAVLTSAVRPGDLIAPTAAGPGGGERRGRPPRRQRLGGPGRGCAALAGAEPSRASAAARAPLRLRAMAGLNSLEAVKRK
IQALQQQADEAEDRAQGLQRELDGERERREKAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEE
KMEIQEMQLKEAKHIAEEADRKYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKLKKMKKSSGEI
VYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQFHDSKIK

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

>93413_93413_3_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000300933_RPL18A_chr19_17972102_ENST00000600147_length(amino acids)=402AA_BP=1
MWPAVPTSGPPPAVLTSAVRPGDLIAPTAAGPGGGERRGRPPRRQRLGGPGRGCAALAGAEPSRASAAARAPLRLRAMAGLNSLEAVKRK
IQALQQQADEAEDRAQGLQRELDGERERREKAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEE
KMEIQEMQLKEAKHIAEEADRKYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKVVGRCLPTPKC
HTPPLYRMRIFAPNHVVAKSRFWYFVSQLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRD

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

>93413_93413_4_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000344824_RPL18A_chr19_17972102_ENST00000222247_length(amino acids)=403AA_BP=1
MPQPPQSPPRTPRPPRQRPAMEAIKKKMQMLKLDKENAIDRAEQAEADKKAAEDKCKQVEEELTHLQKKLKGTEDELDKYSEDLKDAQEK
LELTEKKASDAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEEKMEIQEMQLKEAKHIAEEADR
KYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKVVGRCLPTPKCHTPPLYRMRIFAPNHVVAKSR
FWYFVSQLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIA

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

>93413_93413_5_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000344824_RPL18A_chr19_17972102_ENST00000599898_length(amino acids)=364AA_BP=1
MPQPPQSPPRTPRPPRQRPAMEAIKKKMQMLKLDKENAIDRAEQAEADKKAAEDKCKQVEEELTHLQKKLKGTEDELDKYSEDLKDAQEK
LELTEKKASDAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEEKMEIQEMQLKEAKHIAEEADR
KYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWL
RYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQFHDSKIKFPLPHRVLRRQHKPRFTTKRP

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

>93413_93413_6_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000344824_RPL18A_chr19_17972102_ENST00000600147_length(amino acids)=381AA_BP=1
MPQPPQSPPRTPRPPRQRPAMEAIKKKMQMLKLDKENAIDRAEQAEADKKAAEDKCKQVEEELTHLQKKLKGTEDELDKYSEDLKDAQEK
LELTEKKASDAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEEKMEIQEMQLKEAKHIAEEADR
KYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKVVGRCLPTPKCHTPPLYRMRIFAPNHVVAKSR
FWYFVSQLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIA

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

>93413_93413_7_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000538887_RPL18A_chr19_17972102_ENST00000222247_length(amino acids)=403AA_BP=1
MPQPPQSPPRTPRPPRQRPAMEAIKKKMQMLKLDKENAIDRAEQAEADKKAAEDKCKQVEEELTHLQKKLKGTEDELDKYSEDLKDAQEK
LELTEKKASDAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEEKMEIQEMQLKEAKHIAEEADR
KYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKVVGRCLPTPKCHTPPLYRMRIFAPNHVVAKSR
FWYFVSQLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIA

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

>93413_93413_8_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000538887_RPL18A_chr19_17972102_ENST00000599898_length(amino acids)=364AA_BP=1
MPQPPQSPPRTPRPPRQRPAMEAIKKKMQMLKLDKENAIDRAEQAEADKKAAEDKCKQVEEELTHLQKKLKGTEDELDKYSEDLKDAQEK
LELTEKKASDAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEEKMEIQEMQLKEAKHIAEEADR
KYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWL
RYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQFHDSKIKFPLPHRVLRRQHKPRFTTKRP

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

>93413_93413_9_TPM4-RPL18A_TPM4_chr19_16199930_ENST00000538887_RPL18A_chr19_17972102_ENST00000600147_length(amino acids)=381AA_BP=1
MPQPPQSPPRTPRPPRQRPAMEAIKKKMQMLKLDKENAIDRAEQAEADKKAAEDKCKQVEEELTHLQKKLKGTEDELDKYSEDLKDAQEK
LELTEKKASDAEGDVAALNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRAMKDEEKMEIQEMQLKEAKHIAEEADR
KYEEVARKLVILEGELERAEERAEVSELKCGDLEEELKNVTNNLKSLEAASEKLREYKVVGRCLPTPKCHTPPLYRMRIFAPNHVVAKSR
FWYFVSQLKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIA

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

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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/chr19:16199930/chr19:17972102)
- 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
TPM4

P67936

.
FUNCTION: Binds to actin filaments in muscle and non-muscle cells. Plays a central role, in association with the troponin complex, in the calcium dependent regulation of vertebrate striated muscle contraction. Smooth muscle contraction is regulated by interaction with caldesmon. In non-muscle cells is implicated in stabilizing cytoskeleton actin filaments (By similarity). Binds calcium (PubMed:1836432). {ECO:0000250|UniProtKB:P09495, ECO:0000269|PubMed:1836432}.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTPM4chr19:16199930chr19:17972102ENST00000300933+582_248177.0249.0Coiled coilOntology_term=ECO:0000250
HgeneTPM4chr19:16199930chr19:17972102ENST00000344824+692_248213.0285.0Coiled coilOntology_term=ECO:0000250
HgeneTPM4chr19:16199930chr19:17972102ENST00000538887+6102_248213.0270.0Coiled coilOntology_term=ECO:0000250


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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
TPM4TCERG1, TRIP6, PACSIN1, ARRB1, SP1, CDK2, AKT1, TPM3, TPM2, TPM1, SRXN1, HNRNPK, DBN1, ZYX, PCMT1, G3BP1, PSMD2, PSMA6, CDH2, SULT1A1, SERPINH1, ILF3, ILF2, TELO2, MYH9, PSMD1, SNRNP70, TXN2, SRSF2, PRKCDBP, CORO1C, TPM3P4, DCTN2, PSMC2, ATF2, PAN2, HDAC8, PARK2, CAP1, FASN, KIAA1598, SIRT1, TP53, LNX1, PYCARD, EGFR, ACTN1, ACTN2, COX5A, OSTF1, ACTN4, ATP1A1, ATP5F1, CENPE, CKB, COX4I1, MYH7B, NDUFB10, PSMA1, TBCD, NTRK1, ADD1, CAPZA2, FLNA, PPP1CB, PPP1CC, IQGAP1, SLC33A1, PDLIM7, MAPRE1, ANLN, MYO19, MYO18A, CFAP97, Actb, Mapre1, Flot1, Myh9, Myo1c, Rab5c, Tpm1, Dctn3, Uso1, Anapc13, Calml3, 2510003E04Rik, Myh10, Tbck, Mast3, MCM2, SMURF1, ZNF131, DLST, UBE2A, CFTR, TMPO, PTPLA, PPP6C, PPM1D, PTP4A3, PTPN2, CDC25C, PTPRCAP, DUSP7, PPTC7, DUSP19, PPM1M, ILKAP, DUSP21, PHPT1, DUSP12, PPP1R3C, EFTUD2, PIH1D1, TNF, NOD2, RNF181, RNF144A, CDK9, RAB9A, HK1, METTL14, WTAP, ATG16L1, ESR2, DISC1, USP14, APEX1, DYRK1A, SCARB2, VMP1, AKT3, ATF3, PICK1, SNAPIN, JRK, CUL7, PLEKHA4, SRC, UNK, CIT, AURKB, CHMP4C, ECT2, KIF20A, PRNP, MFN2, OPA1, HNRNPH1, nsp13ab, NPC1, UCHL1, COPS5, DANCR, RIN3, TRIM24, BAG5, AR, ISG15, TMOD1, TRIM37, NAA40, MRPL50, LANCL2, ALAD, BTF3, TRIM26, EP300, CTSB, CTSS, DPP4, E, ORF8, TMPRSS2, TOP3B, CTSL, FURIN, IFITM1, IFITM3, CLEC4D, CLEC4E, nsp4, nsp6, nsp8, ORF10, S, FGD5, CCNF, PDE4B, FOS, ELK3, GATA4, IRF8, KLF10, KLF12, KLF3, KLF6, VSX1, ZIC3, MYC, NKX2-5, SOX5, STAT5B, TEAD1, TLX1,


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
TPM4all structure
RPL18A


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 TPM4-RPL18A


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 TPM4-RPL18A


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
HgeneTPM4C0001787Osteoporosis, Age-Related1CTD_human
HgeneTPM4C0003949Asbestosis1CTD_human
HgeneTPM4C0005818Blood Platelet Disorders1GENOMICS_ENGLAND
HgeneTPM4C0014859Esophageal Neoplasms1CTD_human
HgeneTPM4C0023893Liver Cirrhosis, Experimental1CTD_human
HgeneTPM4C0027627Neoplasm Metastasis1CTD_human
HgeneTPM4C0029456Osteoporosis1CTD_human
HgeneTPM4C0029459Osteoporosis, Senile1CTD_human
HgeneTPM4C0032927Precancerous Conditions1CTD_human
HgeneTPM4C0043094Weight Gain1CTD_human
HgeneTPM4C0282313Condition, Preneoplastic1CTD_human
HgeneTPM4C0334121Inflammatory Myofibroblastic Tumor1ORPHANET
HgeneTPM4C0546837Malignant neoplasm of esophagus1CTD_human
HgeneTPM4C0751406Post-Traumatic Osteoporosis1CTD_human
HgeneTPM4C0948089Acute Coronary Syndrome1CTD_human
HgeneTPM4C2751260Macrothrombocytopenia1GENOMICS_ENGLAND
HgeneTPM4C2930617Pulmonary Fibrosis - from Asbestos Exposure1CTD_human
HgeneTPM4C4304021Autosomal dominant macrothrombocytopenia1ORPHANET