Analysis of differential β variable region of T cell receptor expression and NAV3/TNFRSF1B gene mutation in mycosis fungoides

Cui, Hongzhou; Liu, Jie; Li, Li; Ren, Jingyu; Guo, Shuangshuang; Bai, Li

doi:10.18632/oncotarget.7673

Cited by 4 publications

(2 citation statements)

References 9 publications

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“…As these different allelic variants are shared within con ned human populations 4 , they contribute also to more extreme diversity of receptors at the population level 5 . These population-speci c germline variations have been shown to introduce varying disease prevalences in speci c population [6][7][8][9] . For example, in Asian and Caucasian populations, TRBV17 plays a pivotal role in In uenza A virus speci c T-cell immunity 10 .…”

Section: Introductionmentioning

confidence: 99%

pmTR Database: Population Matched (PM) Germline Allelic Variants of T-Cell Receptor ( <i>TR</i>) Loci

et al. 2021

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T-cell receptor (TR) germline allele sequences are arranged, organized and made available to the research community by the IMGT database. This state-of-the-art database, however, does not provide information regarding population speci city and allelic frequencies of the four human TR loci (TRA, TRB, TRG and TRD). The speci city of allelic variants to different human populations can, however, be a rich source of information when studying the genetic basis of population-speci c immune responses in disease and in vaccination. To make TR germline alleles available for such population-speci c studies, we meticulously identi ed true germline alleles enriched with complete TR allele sequences and their frequencies across 26 different human populations, pro led by "1,000 Genomes data". We identi ed 205 TRAV, 249 TRBV, 16 TRGV and 5 TRDV germline alleles supported by at least four haplotypes (= minimum of two unrelated individuals). The diversity of germline allelic variants in the TR loci is highest in Africans, while the majority of the Non-African alleles are speci c to the Asian populations, suggesting a diverse pro le of TR germline alleles in different human populations. Interestingly, the alleles known in the IMGT database are frequent and common across all ve super-populations. We believe that this new set of genuine germline TR sequences represents a valuable new resource which we have made available through the new population-matched TR (pmTR) database, accessible via https://pmtrig.lumc.nl/.

show abstract

Section: Introductionmentioning

confidence: 99%

pmTR Database: Population Matched (PM) Germline Allelic Variants of T-Cell Receptor ( <i>TR</i>) Loci

et al. 2021

View full text Add to dashboard Cite

show abstract

“…As these different allelic variants are shared within confined human populations [4], they contribute also to more extreme diversity of receptors at the population level [5]. These population-specific germline variations have been shown to introduce varying disease prevalences in specific population [6][7][8][9]. For example, in Asian and Caucasian populations, TRBV17 plays a pivotal role in Influenza A virus specific T-cell immunity [10].…”

Section: Introductionmentioning

confidence: 99%

pmTR database: population matched (PM) germline allelic variants of T-cell receptor (TR) loci

Dekker

Dongen

Reinders

et al. 2020

Preprint

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T-cell receptor (TR) germline alleles are arranged, organized and made available to the research community by the IMGT database. This state-of-the-art database, however, does not provide information regarding population specificity and allelic frequencies of the genes all four human TR loci (TRA, TRB, TRG and TRD). The specificity of allelic variants to different human populations can, however, be a rich source of information when studying the genetic basis of population-specific immune responses in vaccination and disease. To make TR germline alleles available for such population-specific studies, we meticulously identified true germline alleles enriched with complete TR allele sequences and their frequencies across 26 different human populations, profiled by “1,000 Genomes data”. We identified 205 TRAV, 249 TRBV, 16 TRGV and 5 TRDV germline alleles supported by at least four haplotypes (= minimum of two individuals). The diversity of germline allelic variants in the TR loci is highest in Africans followed by Non-African populations. A majority of the Non-African alleles are specific to the Asian populations, suggesting a diverse profile of TR germline alleles in different human populations. Interestingly, the alleles known in the IMGT database are frequent and common across all the superpopulations. We believe that this new set of genuine germline TR sequences represents a valuable new resource which we have made available through the new population-matched TR (pmTR) database, accessible via https://pmtrig.lumc.nl/.

show abstract

pmTR database: population matched (pm) germline allelic variants of T-cell receptor (TR) loci

et al. 2022

View full text Add to dashboard Cite

The IMGT database profiles the TR germline alleles for all four TR loci (TRA, TRB, TRG and TRD), however, it does not comprise of the information regarding population specificity and allelic frequencies of these germline alleles. The specificity of allelic variants to different human populations can, however, be a rich source of information when studying the genetic basis of population-specific immune responses in disease and in vaccination. Therefore, we meticulously identified true germline alleles enriched with complete TR allele sequences and their frequencies across 26 different human populations, profiled by “1000 Genomes data”. We identified 205 TRAV, 249 TRBV, 16 TRGV and 5 TRDV germline alleles supported by at least four haplotypes. The diversity of germline allelic variants in the TR loci is the highest in Africans, while the majority of the Non-African alleles are specific to the Asian populations, suggesting a diverse profile of TR germline alleles in different human populations. Interestingly, the alleles in the IMGT database are frequent and common across all five super-populations. We believe that this new set of germline TR sequences represents a valuable new resource which we have made available through the new population-matched TR (pmTR) database, accessible via https://pmtrig.lumc.nl/.

show abstract

Analysis of differential β variable region of T cell receptor expression and NAV3/TNFRSF1B gene mutation in mycosis fungoides

Cited by 4 publications

References 9 publications

pmTR Database: Population Matched (PM) Germline Allelic Variants of T-Cell Receptor ( <i>TR</i>) Loci

pmTR Database: Population Matched (PM) Germline Allelic Variants of T-Cell Receptor ( <i>TR</i>) Loci

pmTR database: population matched (PM) germline allelic variants of T-cell receptor (TR) loci

pmTR database: population matched (pm) germline allelic variants of T-cell receptor (TR) loci

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