Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation

Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction metho...
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Autor*in:	Hyun-Ji Lee [verfasserIn] Kyoung-Hwa Shin [verfasserIn] Su Jeong Jeong [verfasserIn] In Suk Kim [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2021

Schlagwörter:	organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism

Übergeordnetes Werk:	In: Korean Journal of Transplantation - Korean Society for Transplantation, 2019, 35(2021), 1, Seite 7
Übergeordnetes Werk:	volume:35 ; year:2021 ; number:1 ; pages:7

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.4285/kjt.20.0035

Katalog-ID:	DOAJ028114728

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520			\|a Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified. Methods : All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci. Results : DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs. Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039).
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spelling	10.4285/kjt.20.0035 doi (DE-627)DOAJ028114728 (DE-599)DOAJ0f9c516b721c438eafb7005f1aee0652 DE-627 ger DE-627 rakwb eng R855-855.5 Hyun-Ji Lee verfasserin aut Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified. Methods : All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci. Results : DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs. Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039). organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism Medical technology Kyoung-Hwa Shin verfasserin aut Su Jeong Jeong verfasserin aut In Suk Kim verfasserin aut In Korean Journal of Transplantation Korean Society for Transplantation, 2019 35(2021), 1, Seite 7 (DE-627)1760642282 (DE-600)3072583-5 26718804 nnns volume:35 year:2021 number:1 pages:7 https://doi.org/10.4285/kjt.20.0035 kostenfrei https://doaj.org/article/0f9c516b721c438eafb7005f1aee0652 kostenfrei http://journaleditor.inforang.com/journal/view.html?doi=10.4285/kjt.20.0035 kostenfrei https://doaj.org/toc/2671-8790 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 35 2021 1 7
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allfieldsGer	10.4285/kjt.20.0035 doi (DE-627)DOAJ028114728 (DE-599)DOAJ0f9c516b721c438eafb7005f1aee0652 DE-627 ger DE-627 rakwb eng R855-855.5 Hyun-Ji Lee verfasserin aut Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified. Methods : All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci. Results : DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs. Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039). organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism Medical technology Kyoung-Hwa Shin verfasserin aut Su Jeong Jeong verfasserin aut In Suk Kim verfasserin aut In Korean Journal of Transplantation Korean Society for Transplantation, 2019 35(2021), 1, Seite 7 (DE-627)1760642282 (DE-600)3072583-5 26718804 nnns volume:35 year:2021 number:1 pages:7 https://doi.org/10.4285/kjt.20.0035 kostenfrei https://doaj.org/article/0f9c516b721c438eafb7005f1aee0652 kostenfrei http://journaleditor.inforang.com/journal/view.html?doi=10.4285/kjt.20.0035 kostenfrei https://doaj.org/toc/2671-8790 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 35 2021 1 7
allfieldsSound	10.4285/kjt.20.0035 doi (DE-627)DOAJ028114728 (DE-599)DOAJ0f9c516b721c438eafb7005f1aee0652 DE-627 ger DE-627 rakwb eng R855-855.5 Hyun-Ji Lee verfasserin aut Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified. Methods : All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci. Results : DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs. Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039). organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism Medical technology Kyoung-Hwa Shin verfasserin aut Su Jeong Jeong verfasserin aut In Suk Kim verfasserin aut In Korean Journal of Transplantation Korean Society for Transplantation, 2019 35(2021), 1, Seite 7 (DE-627)1760642282 (DE-600)3072583-5 26718804 nnns volume:35 year:2021 number:1 pages:7 https://doi.org/10.4285/kjt.20.0035 kostenfrei https://doaj.org/article/0f9c516b721c438eafb7005f1aee0652 kostenfrei http://journaleditor.inforang.com/journal/view.html?doi=10.4285/kjt.20.0035 kostenfrei https://doaj.org/toc/2671-8790 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 35 2021 1 7
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topic_facet	organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism Medical technology
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authorswithroles_txt_mv	Hyun-Ji Lee @@aut@@ Kyoung-Hwa Shin @@aut@@ Su Jeong Jeong @@aut@@ In Suk Kim @@aut@@
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callnumber-first	R - Medicine
author	Hyun-Ji Lee
spellingShingle	Hyun-Ji Lee misc R855-855.5 misc organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism misc Medical technology Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation
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topic_title	R855-855.5 Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism
topic	misc R855-855.5 misc organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism misc Medical technology
topic_unstemmed	misc R855-855.5 misc organ transplantation; single nucleotide polymorphism; short tandem repeats; chimerism misc Medical technology
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title	Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation
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title_full	Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation
author_sort	Hyun-Ji Lee
journal	Korean Journal of Transplantation
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author_browse	Hyun-Ji Lee Kyoung-Hwa Shin Su Jeong Jeong In Suk Kim
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author-letter	Hyun-Ji Lee
doi_str_mv	10.4285/kjt.20.0035
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title_sort	comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation
callnumber	R855-855.5
title_auth	Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation
abstract	Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified. Methods : All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci. Results : DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs. Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039).
abstractGer	Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified. Methods : All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci. Results : DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs. Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039).
abstract_unstemmed	Background : To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified. Methods : All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci. Results : DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs. Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039).
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title_short	Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation
url	https://doi.org/10.4285/kjt.20.0035 https://doaj.org/article/0f9c516b721c438eafb7005f1aee0652 http://journaleditor.inforang.com/journal/view.html?doi=10.4285/kjt.20.0035 https://doaj.org/toc/2671-8790
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author2	Kyoung-Hwa Shin Su Jeong Jeong In Suk Kim
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up_date	2024-07-03T15:48:52.728Z
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Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation

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