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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:IGFBP2-XRCC5 (FusionGDB2 ID:38405)

Fusion Gene Summary for IGFBP2-XRCC5

check button Fusion gene summary
Fusion gene informationFusion gene name: IGFBP2-XRCC5
Fusion gene ID: 38405
HgeneTgene
Gene symbol

IGFBP2

XRCC5

Gene ID

3485

7520

Gene nameinsulin like growth factor binding protein 2X-ray repair cross complementing 5
SynonymsIBP2|IGF-BP53KARP-1|KARP1|KU80|KUB2|Ku86|NFIV
Cytomap

2q35

2q35

Type of geneprotein-codingprotein-coding
Descriptioninsulin-like growth factor-binding protein 2IGF-binding protein 2insulin-like growth factor binding protein 2, 36kDaX-ray repair cross-complementing protein 586 kDa subunit of Ku antigenATP-dependent DNA helicase 2 subunit 2ATP-dependent DNA helicase II 80 kDa subunitCTC box-binding factor 85 kDa subunitCTC85CTCBFDNA repair protein XRCC5Ku autoantigen, 80kDaKu
Modification date2020031320200313
UniProtAcc

P18065

.
Ensembl transtripts involved in fusion geneENST00000233809, ENST00000456764, 
ENST00000392133, ENST00000392132, 
ENST00000471649, 
Fusion gene scores* DoF score7 X 5 X 4=1409 X 6 X 5=270
# samples 710
** MAII scorelog2(7/140*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(10/270*10)=-1.43295940727611
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: IGFBP2 [Title/Abstract] AND XRCC5 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointIGFBP2(217498688)-XRCC5(217054947), # 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
HgeneIGFBP2

GO:0042104

positive regulation of activated T cell proliferation

15694994

TgeneXRCC5

GO:0002218

activation of innate immune response

28712728

TgeneXRCC5

GO:0006303

double-strand break repair via nonhomologous end joining

26359349

TgeneXRCC5

GO:0045860

positive regulation of protein kinase activity

22504299

TgeneXRCC5

GO:0071480

cellular response to gamma radiation

26359349


check buttonFusion gene breakpoints across IGFBP2 (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 XRCC5 (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
ChimerDB4OVTCGA-29-1695IGFBP2chr2

217498688

+XRCC5chr2

217054947

+


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Fusion Gene ORF analysis for IGFBP2-XRCC5

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
In-frameENST00000233809ENST00000392133IGFBP2chr2

217498688

+XRCC5chr2

217054947

+
In-frameENST00000233809ENST00000392132IGFBP2chr2

217498688

+XRCC5chr2

217054947

+
5CDS-intronENST00000233809ENST00000471649IGFBP2chr2

217498688

+XRCC5chr2

217054947

+
intron-3CDSENST00000456764ENST00000392133IGFBP2chr2

217498688

+XRCC5chr2

217054947

+
intron-3CDSENST00000456764ENST00000392132IGFBP2chr2

217498688

+XRCC5chr2

217054947

+
intron-intronENST00000456764ENST00000471649IGFBP2chr2

217498688

+XRCC5chr2

217054947

+

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)
ENST00000233809IGFBP2chr2217498688+ENST00000392133XRCC5chr2217054947+2037571114935273
ENST00000233809IGFBP2chr2217498688+ENST00000392132XRCC5chr2217054947+2025571114935273

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
ENST00000233809ENST00000392133IGFBP2chr2217498688+XRCC5chr2217054947+0.0022279940.9977719
ENST00000233809ENST00000392132IGFBP2chr2217498688+XRCC5chr2217054947+0.0021457840.9978542

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Fusion Genomic Features for IGFBP2-XRCC5


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)
IGFBP2chr2217498688+XRCC5chr2217054947+4.24E-091
IGFBP2chr2217498688+XRCC5chr2217054947+4.24E-091

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 IGFBP2-XRCC5


check button Go to

FGviewer for the breakpoints of chr2:217498688-chr2:217054947

.
- 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
IGFBP2

P18065

.
FUNCTION: Inhibits IGF-mediated growth and developmental rates. IGF-binding proteins prolong the half-life of the IGFs and have been shown to either inhibit or stimulate the growth promoting effects of the IGFs on cell culture. They alter the interaction of IGFs with their cell surface receptors. {ECO:0000269|PubMed:19081843}.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
HgeneIGFBP2chr2:217498688chr2:217054947ENST00000233809+1438_134147.33333333333334326.0DomainIGFBP N-terminal
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921321521720_728611.3333333333334733.0MotifNote=EEXXXDL motif
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921331723720_728611.3333333333334733.0MotifNote=EEXXXDL motif

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneIGFBP2chr2:217498688chr2:217054947ENST00000233809+14224_306147.33333333333334326.0DomainThyroglobulin type-1
HgeneIGFBP2chr2:217498688chr2:217054947ENST00000233809+14301_303147.33333333333334326.0MotifNote=Cell attachment site
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921321521478_519611.3333333333334733.0Compositional biasNote=Pro-rich
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921331723478_519611.3333333333334733.0Compositional biasNote=Pro-rich
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921321521251_460611.3333333333334733.0DomainNote=Ku
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921331723251_460611.3333333333334733.0DomainNote=Ku
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921321521138_165611.3333333333334733.0RegionNote=Leucine-zipper
TgeneXRCC5chr2:217498688chr2:217054947ENST000003921331723138_165611.3333333333334733.0RegionNote=Leucine-zipper


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Fusion Gene Sequence for IGFBP2-XRCC5


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.
>In-frame_ENST00000233809_ENST00000392133_TCGA-29-1695_IGFBP2_chr2_217498688_+_XRCC5_chr2_217054947_length(transcript)=2037nt_BP=571nt
GGACCCGGCTGCGGCGGCGAGGGAGGAGGAAGAAGCGGAGGAGGCGGCTCCCGCGCTCGCAGGGCCGTGCCACCTGCCCGCCCGCCCGCT
CGCTCGCTCGCCCGCCGCGCCGCGCTGCCGACCGCCAGCATGCTGCCGAGAGTGGGCTGCCCCGCGCTGCCGCTGCCGCCGCCGCCGCTG
CTGCCGCTGCTGCTGCTGCTACTGGGCGCGAGTGGCGGCGGCGGCGGGGCGCGCGCGGAGGTGCTGTTCCGCTGCCCGCCCTGCACACCC
GAGCGCCTGGCCGCCTGCGGGCCCCCGCCGGTTGCGCCGCCCGCCGCGGTGGCCGCAGTGGCCGGAGGCGCCCGCATGCCATGCGCGGAG
CTCGTCCGGGAGCCGGGCTGCGGCTGCTGCTCGGTGTGCGCCCGGCTGGAGGGCGAGGCGTGCGGCGTCTACACCCCGCGCTGCGGCCAG
GGGCTGCGCTGCTATCCCCACCCGGGCTCCGAGCTGCCCCTGCAGGCGCTGGTCATGGGCGAGGGCACTTGTGAGAAGCGCCGGGACGCC
GAGTATGGCGCCAGCCCGGAGCAGGTTGCAGCGAGTAACCAGCTCATAAATCACATCGAACAGTTTTTGGATACTAATGAAACACCGTAT
TTTATGAAGAGCATAGACTGCATCCGAGCCTTCCGGGAAGAAGCCATTAAGTTTTCAGAAGAGCAGCGCTTTAACAACTTCCTGAAAGCC
CTTCAAGAGAAAGTGGAAATTAAACAATTAAATCATTTCTGGGAAATTGTTGTCCAGGATGGAATTACTCTGATCACCAAAGAGGAAGCC
TCTGGAAGTTCTGTCACAGCTGAGGAAGCCAAAAAGTTTCTGGCCCCCAAAGACAAACCAAGTGGAGACACAGCAGCTGTATTTGAAGAA
GGTGGTGATGTGGACGATTTATTGGACATGATATAGGTCGTGGATGTATGGGGAATCTAAGAGAGCTGCCATCGCTGTGATGCTGGGAGT
TCTAACAAAACAAGTTGGATGCGGCCATTCAAGGGGAGCCAAAATCTCAAGAAATTCCCAGCAGGTTACCTGGAGGCGGATCATCTAATT
CTCTGTGGAATGAATACACACATATATATTACAAGGGATAATTTAGACCCCATACAAGTTTATAAAGAGTCATTGTTATTTTCTGGTTGG
TGTATTATTTTTTCTGTGGTCTTACTGATCTTTGTATATTACATACATGCTTTGAAGTTTCTGGAAAGTAGATCTTTTCTTGACCTAGTA
TATCAGTGACAGTTGCAGCCCTTGTGATGTGATTAGTGTCTCATGTGGAACCATGGCATGGTTATTGATGAGTTTCTTAACCCTTTCCAG
AGTCCTCCTTTGCCTGATCCTCCAACAGCTGTCACAACTTGTGTTGAGCAAGCAGTAGCATTTGCTTCCTCCCAACAAGCAGCTGGGTTA
GGAAAACCATGGGTAAGGACGGACTCACTTCTCTTTTTAGTTGAGGCCTTCTAGTTACCACATTACTCTGCCTCTGTATATAGGTGGTTT
TCTTTAAGTGGGGTGGGAAGGGGAGCACAATTTCCCTTCATACTCCTTTTAAGCAGTGAGTTATGGTGGTGGTCTCATGAAGAAAAGACC
TTTTGGCCCAATCTCTGCCATATCAGTGAACCTTTAGAAACTCAAAAACTGAGAAATTTACTACAGTAGTTAGAATTATATCACTTCACT
GTTCTCTACTTGCAAGCCTCAAAGAGAGAAAGTTTCGTTATATTAAAACACTTAGGTAACTTTTCGGTCTTTCCCATTTCTACCTAAGTC
AGCTTTCATCTTTGTGGATGGTGTCTCCTTTACTAAATAAGAAAATAACAAAGCCCTTATTCTCTTTTTTTCTTGTCCTCATTCTTGCCT
TGAGTTCCAGTTCCTCTTTGGTGTACAGACTTCTTGGTACCCAGTCACCTCTGTCTTCAGCACCCTCATAAGTCGTCACTAATACACAGT

>In-frame_ENST00000233809_ENST00000392133_TCGA-29-1695_IGFBP2_chr2_217498688_+_XRCC5_chr2_217054947_length(amino acids)=273AA_start in transcript=114_stop in transcript=935
MPTASMLPRVGCPALPLPPPPLLPLLLLLLGASGGGGGARAEVLFRCPPCTPERLAACGPPPVAPPAAVAAVAGGARMPCAELVREPGCG
CCSVCARLEGEACGVYTPRCGQGLRCYPHPGSELPLQALVMGEGTCEKRRDAEYGASPEQVAASNQLINHIEQFLDTNETPYFMKSIDCI
RAFREEAIKFSEEQRFNNFLKALQEKVEIKQLNHFWEIVVQDGITLITKEEASGSSVTAEEAKKFLAPKDKPSGDTAAVFEEGGDVDDLL

--------------------------------------------------------------
>In-frame_ENST00000233809_ENST00000392132_TCGA-29-1695_IGFBP2_chr2_217498688_+_XRCC5_chr2_217054947_length(transcript)=2025nt_BP=571nt
GGACCCGGCTGCGGCGGCGAGGGAGGAGGAAGAAGCGGAGGAGGCGGCTCCCGCGCTCGCAGGGCCGTGCCACCTGCCCGCCCGCCCGCT
CGCTCGCTCGCCCGCCGCGCCGCGCTGCCGACCGCCAGCATGCTGCCGAGAGTGGGCTGCCCCGCGCTGCCGCTGCCGCCGCCGCCGCTG
CTGCCGCTGCTGCTGCTGCTACTGGGCGCGAGTGGCGGCGGCGGCGGGGCGCGCGCGGAGGTGCTGTTCCGCTGCCCGCCCTGCACACCC
GAGCGCCTGGCCGCCTGCGGGCCCCCGCCGGTTGCGCCGCCCGCCGCGGTGGCCGCAGTGGCCGGAGGCGCCCGCATGCCATGCGCGGAG
CTCGTCCGGGAGCCGGGCTGCGGCTGCTGCTCGGTGTGCGCCCGGCTGGAGGGCGAGGCGTGCGGCGTCTACACCCCGCGCTGCGGCCAG
GGGCTGCGCTGCTATCCCCACCCGGGCTCCGAGCTGCCCCTGCAGGCGCTGGTCATGGGCGAGGGCACTTGTGAGAAGCGCCGGGACGCC
GAGTATGGCGCCAGCCCGGAGCAGGTTGCAGCGAGTAACCAGCTCATAAATCACATCGAACAGTTTTTGGATACTAATGAAACACCGTAT
TTTATGAAGAGCATAGACTGCATCCGAGCCTTCCGGGAAGAAGCCATTAAGTTTTCAGAAGAGCAGCGCTTTAACAACTTCCTGAAAGCC
CTTCAAGAGAAAGTGGAAATTAAACAATTAAATCATTTCTGGGAAATTGTTGTCCAGGATGGAATTACTCTGATCACCAAAGAGGAAGCC
TCTGGAAGTTCTGTCACAGCTGAGGAAGCCAAAAAGTTTCTGGCCCCCAAAGACAAACCAAGTGGAGACACAGCAGCTGTATTTGAAGAA
GGTGGTGATGTGGACGATTTATTGGACATGATATAGGTCGTGGATGTATGGGGAATCTAAGAGAGCTGCCATCGCTGTGATGCTGGGAGT
TCTAACAAAACAAGTTGGATGCGGCCATTCAAGGGGAGCCAAAATCTCAAGAAATTCCCAGCAGGTTACCTGGAGGCGGATCATCTAATT
CTCTGTGGAATGAATACACACATATATATTACAAGGGATAATTTAGACCCCATACAAGTTTATAAAGAGTCATTGTTATTTTCTGGTTGG
TGTATTATTTTTTCTGTGGTCTTACTGATCTTTGTATATTACATACATGCTTTGAAGTTTCTGGAAAGTAGATCTTTTCTTGACCTAGTA
TATCAGTGACAGTTGCAGCCCTTGTGATGTGATTAGTGTCTCATGTGGAACCATGGCATGGTTATTGATGAGTTTCTTAACCCTTTCCAG
AGTCCTCCTTTGCCTGATCCTCCAACAGCTGTCACAACTTGTGTTGAGCAAGCAGTAGCATTTGCTTCCTCCCAACAAGCAGCTGGGTTA
GGAAAACCATGGGTAAGGACGGACTCACTTCTCTTTTTAGTTGAGGCCTTCTAGTTACCACATTACTCTGCCTCTGTATATAGGTGGTTT
TCTTTAAGTGGGGTGGGAAGGGGAGCACAATTTCCCTTCATACTCCTTTTAAGCAGTGAGTTATGGTGGTGGTCTCATGAAGAAAAGACC
TTTTGGCCCAATCTCTGCCATATCAGTGAACCTTTAGAAACTCAAAAACTGAGAAATTTACTACAGTAGTTAGAATTATATCACTTCACT
GTTCTCTACTTGCAAGCCTCAAAGAGAGAAAGTTTCGTTATATTAAAACACTTAGGTAACTTTTCGGTCTTTCCCATTTCTACCTAAGTC
AGCTTTCATCTTTGTGGATGGTGTCTCCTTTACTAAATAAGAAAATAACAAAGCCCTTATTCTCTTTTTTTCTTGTCCTCATTCTTGCCT
TGAGTTCCAGTTCCTCTTTGGTGTACAGACTTCTTGGTACCCAGTCACCTCTGTCTTCAGCACCCTCATAAGTCGTCACTAATACACAGT

>In-frame_ENST00000233809_ENST00000392132_TCGA-29-1695_IGFBP2_chr2_217498688_+_XRCC5_chr2_217054947_length(amino acids)=273AA_start in transcript=114_stop in transcript=935
MPTASMLPRVGCPALPLPPPPLLPLLLLLLGASGGGGGARAEVLFRCPPCTPERLAACGPPPVAPPAAVAAVAGGARMPCAELVREPGCG
CCSVCARLEGEACGVYTPRCGQGLRCYPHPGSELPLQALVMGEGTCEKRRDAEYGASPEQVAASNQLINHIEQFLDTNETPYFMKSIDCI
RAFREEAIKFSEEQRFNNFLKALQEKVEIKQLNHFWEIVVQDGITLITKEEASGSSVTAEEAKKFLAPKDKPSGDTAAVFEEGGDVDDLL

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

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Fusion Gene PPI Analysis for IGFBP2-XRCC5


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 IGFBP2-XRCC5


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 IGFBP2-XRCC5


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneIGFBP2C0005586Bipolar Disorder3PSYGENET
HgeneIGFBP2C0023893Liver Cirrhosis, Experimental2CTD_human
HgeneIGFBP2C0010606Adenoid Cystic Carcinoma1CTD_human
HgeneIGFBP2C0011616Contact Dermatitis1CTD_human
HgeneIGFBP2C0021655Insulin Resistance1CTD_human
HgeneIGFBP2C0023890Liver Cirrhosis1CTD_human
HgeneIGFBP2C0028754Obesity1CTD_human
HgeneIGFBP2C0036095Salivary Gland Neoplasms1CTD_human
HgeneIGFBP2C0162351Contact hypersensitivity1CTD_human
HgeneIGFBP2C0220636Malignant neoplasm of salivary gland1CTD_human
HgeneIGFBP2C0239946Fibrosis, Liver1CTD_human
HgeneIGFBP2C0920563Insulin Sensitivity1CTD_human
TgeneXRCC5C0001973Alcoholic Intoxication, Chronic1PSYGENET
TgeneXRCC5C0152013Adenocarcinoma of lung (disorder)1CTD_human
TgeneXRCC5C0678306alcohol sensitivity1PSYGENET