li-fraumeni syndrome |
Disease ID | 31 |
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Disease | li-fraumeni syndrome |
Manually Symptom | UMLS | Name(Total Manually Symptoms:9) |
Text Mined Symptom | UMLS | Name | Sentences' Count(Total Symptoms:3) |
Manually Genotype(Total Text Mining Genotypes:0) |
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(Waiting for update.) |
All Snps(Total Genotypes:41) | |||||||||||||
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snpId | pubmedId | geneId | geneSymbol | diseaseId | sourceId | sentence | score | Year | geneSymbol_dbSNP | CHROMOSOME | POS | REF | ALT |
rs1042522 | 16258005 | 4193 | MDM2 | umls:C0085390 | BeFree | Impact of the MDM2 SNP309 and p53 Arg72Pro polymorphism on age of tumour onset in Li-Fraumeni syndrome. | 0.133897074 | 2006 | TP53 | 17 | 7676154 | G | T,C |
rs1042522 | 21814224 | 4193 | MDM2 | umls:C0085390 | BeFree | Previous studies have highlighted the contribution of the common functional polymorphisms p53 p.Arg72Pro and MDM2 309SNP to the risk of both common cancers and Li-Fraumeni syndrome. | 0.133897074 | 2011 | TP53 | 17 | 7676154 | G | T,C |
rs1042522 | 16258005 | 7157 | TP53 | umls:C0085390 | BeFree | Impact of the MDM2 SNP309 and p53 Arg72Pro polymorphism on age of tumour onset in Li-Fraumeni syndrome. | 0.36854679 | 2006 | TP53 | 17 | 7676154 | G | T,C |
rs11540652 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674220 | C | T |
rs11540654 | 16258005 | 4193 | MDM2 | umls:C0085390 | BeFree | Impact of the MDM2 SNP309 and p53 Arg72Pro polymorphism on age of tumour onset in Li-Fraumeni syndrome. | 0.133897074 | 2006 | TP53 | 17 | 7676040 | C | T,G,A |
rs11540654 | 16258005 | 7157 | TP53 | umls:C0085390 | BeFree | Impact of the MDM2 SNP309 and p53 Arg72Pro polymorphism on age of tumour onset in Li-Fraumeni syndrome. | 0.36854679 | 2006 | TP53 | 17 | 7676040 | C | T,G,A |
rs11540654 | 21814224 | 4193 | MDM2 | umls:C0085390 | BeFree | Previous studies have highlighted the contribution of the common functional polymorphisms p53 p.Arg72Pro and MDM2 309SNP to the risk of both common cancers and Li-Fraumeni syndrome. | 0.133897074 | 2011 | TP53 | 17 | 7676040 | C | T,G,A |
rs121912651 | 19378321 | 7157 | TP53 | umls:C0085390 | BeFree | Here, we report a family with LFS harboring a germline TP53 mutation (R248W) located in the functional domain of the protein that binds to the minor groove of the DNA. | 0.36854679 | 2009 | TP53 | 17 | 7674221 | G | A |
rs121912651 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674221 | G | A |
rs121912651 | 17427234 | 7157 | TP53 | umls:C0085390 | BeFree | We report a patient with composite neuroblastoma (NB), adrenocortical tumor (ACT), and Li-Fraumeni syndrome (LFS) with germline TP53 R248W mutation. | 0.36854679 | 2008 | TP53 | 17 | 7674221 | G | A |
rs121912660 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7673781 | C | G,A |
rs121912663 | 15993273 | 7157 | TP53 | umls:C0085390 | BeFree | Three families (4.4%) had a diagnosis of Li-Fraumeni syndrome and germline mutations in TP53 (Lys292Ile, Pro278Ser and Pro278Thr). | 0.36854679 | 2005 | TP53 | 17 | 7673745 | T | A |
rs121912664 | 25945745 | 7157 | TP53 | umls:C0085390 | BeFree | In Brazil, the p.R337H TP53 founder mutation causes the variant form of LFS, Li-Fraumeni-like syndrome. | 0.36854679 | 2015 | TP53 | 17 | 7670699 | C | T,G,A |
rs121912664 | 20605095 | 7157 | TP53 | umls:C0085390 | BeFree | Mutation of Arg337 to histidine in the tetramerization domain of p53 is most frequently observed in Li-Fraumeni syndrome. | 0.36854679 | 2010 | TP53 | 17 | 7670699 | C | T,G,A |
rs121912664 | 21192060 | 7157 | TP53 | umls:C0085390 | BeFree | The current findings demonstrated compellingly that the TP53 R337H mutation is associated not only with ACT but also with CPC and, to a lesser extent, with osteosarcoma, both of which are core-component tumors of the Li-Fraumeni syndrome. | 0.36854679 | 2011 | TP53 | 17 | 7670699 | C | T,G,A |
rs121912664 | 18248785 | 7157 | TP53 | umls:C0085390 | BeFree | These findings indicate that R337H may be a low penetrance mutant which predisposes to multiple cancers and occurs in the population of Southern Brazil at a frequency 10-20 times higher than other TP53 mutants commonly associated with LFS. | 0.36854679 | 2008 | TP53 | 17 | 7670699 | C | T,G,A |
rs121912664 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7670699 | C | T,G,A |
rs121912664 | 23259501 | 7157 | TP53 | umls:C0085390 | BeFree | We compared the CNV profiles of controls, and LFS individuals carrying either p.R337H or DNA binding domain (DBD) TP53 mutations by high resolution array-CGH. | 0.36854679 | 2012 | TP53 | 17 | 7670699 | C | T,G,A |
rs121912666 | 15977174 | 7157 | TP53 | umls:C0085390 | BeFree | The TP53 germ line mutation c.659A>C (p.Y220S) was identified in stored DNA from related patients with Li-Fraumeni syndrome (LFS) who died after developing clinically aggressive tumors. | 0.36854679 | 2005 | TP53 | 17 | 7674872 | T | G,C |
rs121913499 | 19340432 | 3417 | IDH1 | umls:C0085390 | BeFree | Selective acquisition of IDH1 R132C mutations in astrocytomas associated with Li-Fraumeni syndrome. | 0.000271442 | 2009 | IDH1 | 2 | 208248389 | G | T,A |
rs149633775 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7673773 | G | A,T |
rs28934574 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7673776 | G | C,A |
rs28934575 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674230 | C | T,A |
rs28934576 | 21484931 | 7157 | TP53 | umls:C0085390 | BeFree | Patient 1 with LFS and TP53(R273H) developed a rhabdomyosarcoma twice at the ages of 18 months and 21 years. | 0.36854679 | 2011 | TP53 | 17 | 7673802 | C | T,A |
rs371524413 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7675145 | C | T |
rs375338359 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7670684 | C | G,T |
rs397514495 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7675070 | C | T,A |
rs397516436 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674894 | G | A |
rs55819519 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7673751 | C | T |
rs55819519 | 20455025 | 7157 | TP53 | umls:C0085390 | BeFree | One index case with glioblastoma multiforme (GBM) diagnosed at age 54 and had a family history comprised of a paternal aunt with GBM at age 55, carried the p53 R158H mutation, which is predicted to be functional and has previously been implicated as a cause of Li-Fraumeni syndrome. | 0.36854679 | 2010 | TP53 | 17 | 7673751 | C | T |
rs587778720 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674893 | C | T |
rs587780073 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674262 | T | C |
rs587782596 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7675071 | G | A |
rs587782705 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7675157 | G | A |
rs730882004 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674254 | T | C |
rs730882005 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674250 | C | T |
rs730882025 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674885 | C | T |
rs760043106 | NA | 7157 | TP53 | umls:C0085390 | CLINVAR | NA | 0.36854679 | NA | TP53 | 17 | 7674947 | A | G |
rs80357039 | 17541742 | 7157 | TP53 | umls:C0085390 | BeFree | Within a series of BRCA1 and BRCA2 mutation-negative families, a germline TP53 13398 G>A (Arg213Gln) mutation was identified, which was selected for mutation analysis in this gene because of a family history consistent with Li-Fraumeni syndrome (LFS). | 0.36854679 | 2008 | BRCA1 | 17 | 43094680 | T | C |
rs80357039 | 17541742 | 675 | BRCA2 | umls:C0085390 | BeFree | Within a series of BRCA1 and BRCA2 mutation-negative families, a germline TP53 13398 G>A (Arg213Gln) mutation was identified, which was selected for mutation analysis in this gene because of a family history consistent with Li-Fraumeni syndrome (LFS). | 0.004353001 | 2008 | BRCA1 | 17 | 43094680 | T | C |
rs80357039 | 17541742 | 672 | BRCA1 | umls:C0085390 | BeFree | Within a series of BRCA1 and BRCA2 mutation-negative families, a germline TP53 13398 G>A (Arg213Gln) mutation was identified, which was selected for mutation analysis in this gene because of a family history consistent with Li-Fraumeni syndrome (LFS). | 0.001900093 | 2008 | BRCA1 | 17 | 43094680 | T | C |
GWASdb Annotation(Total Genotypes:5) | |||||||||||||||||||||||||||||||||||||
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Chr | Pos | SNP_Id | RefGene | EnsemblGene | ENCODE_Factor | ENCODE_TFBS | Chromosome_interaction | GTEx_eQTL | SNP_TFBS_affinity_GWAS3D | SNP_miRNA_target_affinity_PolymiRTS | SNP_splicing_effect_Skippy | SNP_splicing_effect_MutPred_Splice | SNP_ns_protein_effect_dbNSFP | SNP_syn_effect_Silva | SNP_phosphorylation_effect_PhosSNP | PhastCons_score | PhyloP_score | GERP++_RS | Segway_state | Ancestral_allele | ESP_AF | ESP_AFR | ESP_AFR | ESP_EUR | TG_ASN | TG_AMR | TG_AFR | TG_EUR | Type | Consequence | bStatistic | EncH3K27Ac | EncH3K4Me1 | EncH3K4Me3 | EncNucleo | OMIM | Clinvar |
17 | 7571752 | rs78378222 | NM_001126115,TP53 | NM_001126116,TP53 | NM_001126117,TP53 | NM_000546,TP53 | NM_001126112,TP53 | NM_001126113,TP53 | NM_001126114,TP53 | ENST00000413465,ENSG00000141510 | ENST00000269305,ENSG00000141510 | ENST00000504937,ENSG00000141510 | ENST00000510385,ENSG00000141510 | ENST00000504290,ENSG00000141510 | ENST00000420246,ENSG00000141510 | ENST00000455263,ENSG00000141510 | ENST00000445888,ENSG00000141510 | ENST00000396473,ENSG00000141510 | NA | NA | chr17,7570001,7580000,chr20,9950001,9960000,5,Hi-C | chr17,7570001,7580000,chr11,101940001,101950000,5,Hi-C | chr17,7570001,7580000,chrX,75640001,75650000,7,Hi-C | chr17,7570001,7580000,chr17,5020001,5030000,8,Hi-C | chr17,7570001,7580000,chrX,23400001,23410000,7,Hi-C | NA | LM58,2.454 | LM114,14.4256 | LM119,3.0932 | LM194,2.4655 | LM203,2.5212 | hsa-miR-382-5p,-0.169000 | NA | NA | NA | NA | NA |
17 | 7577407 | rs12951053 | NM_001126115,TP53 | NM_001126116,TP53 | NM_001126117,TP53 | NM_000546,TP53 | NM_001126112,TP53 | NM_001126113,TP53 | NM_001126114,TP53 | ENST00000413465,ENSG00000141510 | ENST00000269305,ENSG00000141510 | ENST00000504937,ENSG00000141510 | ENST00000510385,ENSG00000141510 | ENST00000504290,ENSG00000141510 | ENST00000420246,ENSG00000141510 | ENST00000455263,ENSG00000141510 | ENST00000445888,ENSG00000141510 | ENST00000396473,ENSG00000141510 | ENST00000419024,ENSG00000141510 | ENST00000359597,ENSG00000141510 | ENST00000509690,ENSG00000141510 | ENST00000514944,ENSG00000141510 | ENST00000505014,ENSG00000141510 | ENST00000414315,ENSG00000141510 | MCV-1 | NA | chr17,7570001,7580000,chr20,9950001,9960000,5,Hi-C | chr17,7570001,7580000,chr11,101940001,101950000,5,Hi-C | chr17,7570001,7580000,chrX,75640001,75650000,7,Hi-C | chr17,7570001,7580000,chr17,5020001,5030000,8,Hi-C | chr17,7570001,7580000,chrX,23400001,23410000,7,Hi-C | NA | Aro80-primary,11.5793 | Cep3-primary,6.1847 | Homez_1063,4.8876 | Mcm1-primary,1.8559 | Sfl1-DBD-primary,6.4512 |
17 | 7578115 | rs1625895 | NM_001126115,TP53 | NM_001126116,TP53 | NM_001126117,TP53 | NM_000546,TP53 | NM_001126112,TP53 | NM_001126113,TP53 | NM_001126114,TP53 | ENST00000413465,ENSG00000141510 | ENST00000269305,ENSG00000141510 | ENST00000504937,ENSG00000141510 | ENST00000510385,ENSG00000141510 | ENST00000504290,ENSG00000141510 | ENST00000420246,ENSG00000141510 | ENST00000455263,ENSG00000141510 | ENST00000445888,ENSG00000141510 | ENST00000396473,ENSG00000141510 | ENST00000419024,ENSG00000141510 | ENST00000359597,ENSG00000141510 | ENST00000509690,ENSG00000141510 | ENST00000514944,ENSG00000141510 | ENST00000505014,ENSG00000141510 | ENST00000414315,ENSG00000141510 | ENST00000508793,ENSG00000141510 | ENST00000503591,ENSG00000141510 | MCV-1 | NA | chr17,7570001,7580000,chr20,9950001,9960000,5,Hi-C | chr17,7570001,7580000,chr11,101940001,101950000,5,Hi-C | chr17,7570001,7580000,chrX,75640001,75650000,7,Hi-C | chr17,7570001,7580000,chr17,5020001,5030000,8,Hi-C | chr17,7570001,7580000,chrX,23400001,23410000,7,Hi-C | NA | Aft1-primary,2.5885 | Aro80-primary,1.6057 | Asg1-DBD-primary,1.2704 |
17 | 7579472 | rs1042522 | NM_001126115,TP53 | NM_001126116,TP53 | NM_001126117,TP53 | NM_000546,TP53 | NM_001126112,TP53 | NM_001126113,TP53 | NM_001126114,TP53 | ENST00000413465,ENSG00000141510 | ENST00000269305,ENSG00000141510 | ENST00000504937,ENSG00000141510 | ENST00000510385,ENSG00000141510 | ENST00000504290,ENSG00000141510 | ENST00000420246,ENSG00000141510 | ENST00000455263,ENSG00000141510 | ENST00000445888,ENSG00000141510 | ENST00000396473,ENSG00000141510 | ENST00000419024,ENSG00000141510 | ENST00000359597,ENSG00000141510 | ENST00000509690,ENSG00000141510 | ENST00000514944,ENSG00000141510 | ENST00000505014,ENSG00000141510 | ENST00000414315,ENSG00000141510 | ENST00000508793,ENSG00000141510 | ENST00000503591,ENSG00000141510 | MCV-2 | NA | chr17,7570001,7580000,chr20,9950001,9960000,5,Hi-C | chr17,7570001,7580000,chr11,101940001,101950000,5,Hi-C | chr17,7570001,7580000,chrX,75640001,75650000,7,Hi-C | chr17,7570001,7580000,chr17,5020001,5030000,8,Hi-C | chr17,7570001,7580000,chrX,23400001,23410000,7,Hi-C | NA | Asg1-DBD-primary,1.4376 | Asg1-DBD-primary,8.3677 | Ceh-22,1.3486 |
17 | 7581228 | rs8078476 | NM_000546,TP53 | NM_001126112,TP53 | NM_001126113,TP53 | NM_001126114,TP53 | ENST00000413465,ENSG00000141510 | ENST00000269305,ENSG00000141510 | ENST00000420246,ENSG00000141510 | ENST00000455263,ENSG00000141510 | ENST00000445888,ENSG00000141510 | ENST00000396473,ENSG00000141510 | ENST00000419024,ENSG00000141510 | ENST00000359597,ENSG00000141510 | ENST00000509690,ENSG00000141510 | ENST00000514944,ENSG00000141510 | ENST00000505014,ENSG00000141510 | ENST00000414315,ENSG00000141510 | ENST00000508793,ENSG00000141510 | ENST00000503591,ENSG00000141510 | MCV-2 | NA | chr17,7580001,7590000,chr22,26120001,26130000,61,Hi-C | NA | Cutl1_3494,10.2991 | Gln3-primary,4.1041 | Mbp1-primary,1.5057 | Meis1_2335,2.1845 | Mig3-primary,1.2896 | NA | NA | NA | NA | NA | NA | 0.000 | -0.114 |
GWASdb Snp Trait(Total Genotypes:0) | |
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(Waiting for update.) |
Mapped by lexical matching(Total Items:1) | ||||
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HP ID | HP Name | MP ID | MP Name | Annotation |
HP:0100273 | Neoplasm of the colon | MP:0000495 | abnormal colon morphology;HP:0100641 | Neoplasm of the adrenal cortex |
Mapped by homologous gene(Total Items:1) | ||||
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HP ID | HP Name | MP ID | MP Name | Annotation |
HP:0002861 | Melanoma | MP:0001648 | abnormal apoptosis;HP:0002665 | Lymphoma |
Chemical(Total Drugs:0) | |
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(Waiting for update.) |
FDA approved drug and dosage information(Total Drugs:0) | |
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(Waiting for update.) |
FDA labeling changes(Total Drugs:0) | |
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(Waiting for update.) |