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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:USP3-AS1-SOD1 (FusionGDB2 ID:96805)

Fusion Gene Summary for USP3-AS1-SOD1

check button Fusion gene summary
Fusion gene informationFusion gene name: USP3-AS1-SOD1
Fusion gene ID: 96805
HgeneTgene
Gene symbol

USP3-AS1

SOD1

Gene ID

100130855

6647

Gene nameUSP3 antisense RNA 1superoxide dismutase 1
Synonyms-ALS|ALS1|HEL-S-44|IPOA|SOD|STAHP|hSod1|homodimer
Cytomap

15q22.31

21q22.11

Type of genencRNAprotein-coding
Description-superoxide dismutase [Cu-Zn]Cu/Zn superoxide dismutaseSOD, solubleepididymis secretory protein Li 44indophenoloxidase Asuperoxide dismutase 1, solublesuperoxide dismutase, cystolic
Modification date2020031320200322
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000560350, ENST00000559357, 
ENST00000560067, ENST00000559861, 
ENST00000558831, ENST00000559737, 
ENST00000560962, ENST00000561256, 
ENST00000560622, ENST00000561191, 
ENST00000270142, ENST00000389995, 
ENST00000470944, 
Fusion gene scores* DoF score1 X 1 X 1=16 X 6 X 2=72
# samples 16
** MAII scorelog2(1/1*10)=3.32192809488736log2(6/72*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: USP3-AS1 [Title/Abstract] AND SOD1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointUSP3-AS1(63882968)-SOD1(33032096), # samples:1
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
TgeneSOD1

GO:0000303

response to superoxide

16790527

TgeneSOD1

GO:0001819

positive regulation of cytokine production

15544046

TgeneSOD1

GO:0006801

superoxide metabolic process

12551919

TgeneSOD1

GO:0010033

response to organic substance

12921788

TgeneSOD1

GO:0032930

positive regulation of superoxide anion generation

18219391

TgeneSOD1

GO:0043085

positive regulation of catalytic activity

17324120

TgeneSOD1

GO:0043087

regulation of GTPase activity

18219391

TgeneSOD1

GO:0045541

negative regulation of cholesterol biosynthetic process

15473258

TgeneSOD1

GO:0045859

regulation of protein kinase activity

16254550

TgeneSOD1

GO:0050665

hydrogen peroxide biosynthetic process

15544046

TgeneSOD1

GO:0060047

heart contraction

9539776

TgeneSOD1

GO:0072593

reactive oxygen species metabolic process

24140062


check buttonFusion gene breakpoints across USP3-AS1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across SOD1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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/AAA171920USP3-AS1chr15

63882968

-SOD1chr21

33032096

+


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Fusion Gene ORF analysis for USP3-AS1-SOD1

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
intron-3CDSENST00000560350ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000560350ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000560350ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000559357ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000559357ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000559357ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000560067ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000560067ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000560067ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000559861ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000559861ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000559861ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000558831ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000558831ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000558831ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000559737ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000559737ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000559737ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000560962ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000560962ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000560962ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000561256ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000561256ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000561256ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000560622ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000560622ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000560622ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3CDSENST00000561191ENST00000270142USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-intronENST00000561191ENST00000389995USP3-AS1chr15

63882968

-SOD1chr21

33032096

+
intron-3UTRENST00000561191ENST00000470944USP3-AS1chr15

63882968

-SOD1chr21

33032096

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

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

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Fusion Genomic Features for USP3-AS1-SOD1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for USP3-AS1-SOD1


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
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.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.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for USP3-AS1-SOD1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for USP3-AS1-SOD1


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 (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for USP3-AS1-SOD1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for USP3-AS1-SOD1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSOD1C1862939AMYOTROPHIC LATERAL SCLEROSIS 167CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneSOD1C0002736Amyotrophic Lateral Sclerosis28CTD_human;GENOMICS_ENGLAND;ORPHANET
TgeneSOD1C0393554Amyotrophic Lateral Sclerosis With Dementia25CTD_human
TgeneSOD1C0543859Amyotrophic Lateral Sclerosis, Guam Form25CTD_human
TgeneSOD1C1862941Amyotrophic Lateral Sclerosis, Sporadic19CTD_human
TgeneSOD1C4551993Amyotrophic Lateral Sclerosis, Familial19CTD_human
TgeneSOD1C0007787Transient Ischemic Attack4CTD_human
TgeneSOD1C0035126Reperfusion Injury4CTD_human
TgeneSOD1C0472381Posterior Circulation Transient Ischemic Attack4CTD_human
TgeneSOD1C0751019Carotid Circulation Transient Ischemic Attack4CTD_human
TgeneSOD1C0751020Transient Ischemic Attack, Vertebrobasilar Circulation4CTD_human
TgeneSOD1C0751021Crescendo Transient Ischemic Attacks4CTD_human
TgeneSOD1C0751022Brain Stem Ischemia, Transient4CTD_human
TgeneSOD1C0917805Transient Cerebral Ischemia4CTD_human
TgeneSOD1C1527335Transient Ischemic Attack, Anterior Circulation4CTD_human
TgeneSOD1C0011581Depressive disorder3CTD_human;PSYGENET
TgeneSOD1C0027746Nerve Degeneration3CTD_human
TgeneSOD1C0030567Parkinson Disease3CTD_human
TgeneSOD1C0007621Neoplastic Cell Transformation2CTD_human
TgeneSOD1C0011570Mental Depression2PSYGENET
TgeneSOD1C0019193Hepatitis, Toxic2CTD_human
TgeneSOD1C0020538Hypertensive disease2CTD_human
TgeneSOD1C0035304Retinal Degeneration2CTD_human
TgeneSOD1C0860207Drug-Induced Liver Disease2CTD_human
TgeneSOD1C1262760Hepatitis, Drug-Induced2CTD_human
TgeneSOD1C3658290Drug-Induced Acute Liver Injury2CTD_human
TgeneSOD1C4277682Chemical and Drug Induced Liver Injury2CTD_human
TgeneSOD1C4279912Chemically-Induced Liver Toxicity2CTD_human
TgeneSOD1C0002152Alloxan Diabetes1CTD_human
TgeneSOD1C0003493Aortic Diseases1CTD_human
TgeneSOD1C0004045Asphyxia Neonatorum1CTD_human
TgeneSOD1C0004096Asthma1CTD_human
TgeneSOD1C0004153Atherosclerosis1CTD_human
TgeneSOD1C0007786Brain Ischemia1CTD_human
TgeneSOD1C0011573Endogenous depression1CTD_human
TgeneSOD1C0011616Contact Dermatitis1CTD_human
TgeneSOD1C0011849Diabetes Mellitus1CTD_human
TgeneSOD1C0011853Diabetes Mellitus, Experimental1CTD_human
TgeneSOD1C0011860Diabetes Mellitus, Non-Insulin-Dependent1CTD_human
TgeneSOD1C0011884Diabetic Retinopathy1CTD_human
TgeneSOD1C0013080Down Syndrome1CTD_human
TgeneSOD1C0013221Drug toxicity1CTD_human
TgeneSOD1C0015695Fatty Liver1CTD_human
TgeneSOD1C0015696Fatty Liver, Alcoholic1CTD_human
TgeneSOD1C0015934Fetal Growth Retardation1CTD_human
TgeneSOD1C0017638Glioma1CTD_human
TgeneSOD1C0018801Heart failure1CTD_human
TgeneSOD1C0018802Congestive heart failure1CTD_human
TgeneSOD1C0019054Hemolysis (disorder)1CTD_human
TgeneSOD1C0019189Hepatitis, Chronic1CTD_human
TgeneSOD1C0020550Hyperthyroidism1CTD_human
TgeneSOD1C0020649Hypotension1CTD_human
TgeneSOD1C0020672Hypothermia, natural1CTD_human
TgeneSOD1C0021368Inflammation1CTD_human
TgeneSOD1C0022116Ischemia1CTD_human
TgeneSOD1C0022650Kidney Calculi1CTD_human
TgeneSOD1C0022660Kidney Failure, Acute1CTD_human
TgeneSOD1C0023212Left-Sided Heart Failure1CTD_human
TgeneSOD1C0023895Liver diseases1CTD_human
TgeneSOD1C0024796Marfan Syndrome1CTD_human
TgeneSOD1C0025193Melancholia1CTD_human
TgeneSOD1C0025312Meningomyelocele1CTD_human
TgeneSOD1C0026846Muscular Atrophy1CTD_human
TgeneSOD1C0027051Myocardial Infarction1CTD_human
TgeneSOD1C0027540Necrosis1CTD_human
TgeneSOD1C0027720Nephrosis1CTD_human
TgeneSOD1C0027765nervous system disorder1CTD_human
TgeneSOD1C0028754Obesity1CTD_human
TgeneSOD1C0033626Protein Deficiency1CTD_human
TgeneSOD1C0033687Proteinuria1CTD_human
TgeneSOD1C0034069Pulmonary Fibrosis1CTD_human
TgeneSOD1C0036330Schistosomiasis mansoni1CTD_human
TgeneSOD1C0036457Scrapie1CTD_human
TgeneSOD1C0038433Streptozotocin Diabetes1CTD_human
TgeneSOD1C0038454Cerebrovascular accident1CTD_human
TgeneSOD1C0041408Turner Syndrome1CTD_human
TgeneSOD1C0041696Unipolar Depression1CTD_human
TgeneSOD1C0041755Adverse reaction to drug1CTD_human
TgeneSOD1C0085084Motor Neuron Disease1CTD_human
TgeneSOD1C0086133Depressive Syndrome1CTD_human
TgeneSOD1C0086565Liver Dysfunction1CTD_human
TgeneSOD1C0086664Myelocele1CTD_human
TgeneSOD1C0149519Chronic Persistent Hepatitis1CTD_human
TgeneSOD1C0154681Anterior Horn Cell Disease1CTD_human
TgeneSOD1C0154682Lateral Sclerosis1CTD_human
TgeneSOD1C0162316Iron deficiency anemia1CTD_human
TgeneSOD1C0162351Contact hypersensitivity1CTD_human
TgeneSOD1C0162671MELAS Syndrome1CTD_human
TgeneSOD1C0162674Chronic progressive external ophthalmoplegia1CTD_human
TgeneSOD1C0231686Gait, Unsteady1CTD_human
TgeneSOD1C0231687Spastic gait1CTD_human
TgeneSOD1C0231688Gait, Shuffling1CTD_human
TgeneSOD1C0231689Gait, Athetotic1CTD_human
TgeneSOD1C0231693Charcot Gait1CTD_human
TgeneSOD1C0231694Gait, Festinating1CTD_human
TgeneSOD1C0231695Cerebellar ataxic gait1CTD_human
TgeneSOD1C0231696Gait, Hemiplegic1CTD_human
TgeneSOD1C0231698Gait, Scissors1CTD_human
TgeneSOD1C0231712Waddling gait1CTD_human
TgeneSOD1C0234996Gait, Rigid1CTD_human
TgeneSOD1C0235000Gait, Broadened1CTD_human
TgeneSOD1C0235527Heart Failure, Right-Sided1CTD_human
TgeneSOD1C0235574Intravascular hemolysis1CTD_human
TgeneSOD1C0242497Intestinal schistosomiasis1CTD_human
TgeneSOD1C0242526Gonadal Dysgenesis, 45,X1CTD_human
TgeneSOD1C0259783mixed gliomas1CTD_human
TgeneSOD1C0270763Familial Motor Neuron Disease1CTD_human
TgeneSOD1C0270764Motor Neuron Disease, Lower1CTD_human
TgeneSOD1C0270948Neurogenic Muscular Atrophy1CTD_human
TgeneSOD1C0282126Depression, Neurotic1CTD_human
TgeneSOD1C0312854Extravascular Hemolysis1CTD_human
TgeneSOD1C0337210Gait, Stumbling1CTD_human
TgeneSOD1C0427128Rapid Fatigue of Gait1CTD_human
TgeneSOD1C0427149Gait, Drop Foot1CTD_human
TgeneSOD1C0427169Marche a Petit Pas1CTD_human
TgeneSOD1C0427177Gait, Hysterical1CTD_human
TgeneSOD1C0432416Down Syndrome, Partial Trisomy 211CTD_human
TgeneSOD1C0432417Trisomy 21, Meiotic Nondisjunction1CTD_human
TgeneSOD1C0520463Chronic active hepatitis1CTD_human
TgeneSOD1C0521659Motor Neuron Disease, Upper1CTD_human
TgeneSOD1C0524611Cryptogenic Chronic Hepatitis1CTD_human
TgeneSOD1C0543858Motor Neuron Disease, Secondary1CTD_human
TgeneSOD1C0555198Malignant Glioma1CTD_human
TgeneSOD1C0751081Trisomy 21, Mitotic Nondisjunction1CTD_human
TgeneSOD1C0751316Acquired Meningomyelocele1CTD_human
TgeneSOD1C0751829Gait Disorder, Sensorimotor1CTD_human
TgeneSOD1C0751830Gait Disorders, Neurologic1CTD_human
TgeneSOD1C0751831Gait, Frontal1CTD_human
TgeneSOD1C0751832Gait, Widebased1CTD_human
TgeneSOD1C0751956Acute Cerebrovascular Accidents1CTD_human
TgeneSOD1C0917798Cerebral Ischemia1CTD_human
TgeneSOD1C0919267ovarian neoplasm1CTD_human
TgeneSOD1C1140680Malignant neoplasm of ovary1CTD_human
TgeneSOD1C1262477Weight decreased1CTD_human
TgeneSOD1C1384666hearing impairment1CTD_human
TgeneSOD1C1456865Ureteral Calculi1CTD_human
TgeneSOD1C1527168Bonnevie-Ullrich Syndrome1CTD_human
TgeneSOD1C1563937Atherogenesis1CTD_human
TgeneSOD1C1565662Acute Kidney Insufficiency1CTD_human
TgeneSOD1C1959583Myocardial Failure1CTD_human
TgeneSOD1C1961112Heart Decompensation1CTD_human
TgeneSOD1C2609414Acute kidney injury1CTD_human
TgeneSOD1C2711227Steatohepatitis1CTD_human
TgeneSOD1C2718067Alcoholic Steatohepatitis1CTD_human
TgeneSOD1C3714618Primary Hyperthyroidism1CTD_human
TgeneSOD1C4721507Alveolitis, Fibrosing1CTD_human
TgeneSOD1C4721845Marfan Syndrome, Type I1CTD_human