A new 39-plex analysis method for SNPs including 15 blood group loci
A novel 39-plex typing system for single nucleotide polymorphisms (SNPs) has been developed. This multiplex approach has the advantage of being able to type 38 autosomal SNPs and one sex-discriminating base exchange site on the X and Y chromosomes rapidly and simultaneously. The SNP loci on the auto...
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| Veröffentlicht in: | Forensic science international 2004-08, Vol.144 (1), p.45-57 |
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| creator | Inagaki, Sachiyo Yamamoto, Yuji Doi, Yusuke Takata, Tomoyo Ishikawa, Takaki Imabayashi, Kiyomi Yoshitome, Kei Miyaishi, Satoru Ishizu, Hideo |
| description | A novel 39-plex typing system for single nucleotide polymorphisms (SNPs) has been developed. This multiplex approach has the advantage of being able to type 38 autosomal SNPs and one sex-discriminating base exchange site on the X and Y chromosomes rapidly and simultaneously. The SNP loci on the autosomes, which we examined, contain 15 loci distributed on blood type genes: three on RhCE, two each on Km and Gc, and one each on Duffy, AcP1, Tf, MN, GPT, EsD, PI, and Kidd genes.
Thirty-seven genomic DNA fragments containing a total of 38 SNPs and one sex-discriminating site were amplified in one multiplex PCR reaction. Following the reaction, single nucleotide primer extension reaction was performed by dividing these SNP loci into five groups. The SNP type of each of the 39 loci was determined at one time by capillary electrophoresis using the newly designed multi-injection method.
The combined PD (power of discrimination) of this typing system was (1–1.1)×10
−14, and the MEC (mean exclusion chance) was 0.9990. We applied this system to forensic cases, including 16 paternity testing cases (13 non-exclusion and three exclusion cases) and one personal identification case. For the paternity testing cases, the highest Essen–Möller’s
W-value was 0.9999995. The pM (matching probability) of the personal identification case was 2.22×10
−17. These data showed that this system was an excellent tool for use in forensic cases of paternity testing and personal identification. |
| doi_str_mv | 10.1016/j.forsciint.2004.03.005 |
| format | Article |
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Thirty-seven genomic DNA fragments containing a total of 38 SNPs and one sex-discriminating site were amplified in one multiplex PCR reaction. Following the reaction, single nucleotide primer extension reaction was performed by dividing these SNP loci into five groups. The SNP type of each of the 39 loci was determined at one time by capillary electrophoresis using the newly designed multi-injection method.
The combined PD (power of discrimination) of this typing system was (1–1.1)×10
−14, and the MEC (mean exclusion chance) was 0.9990. We applied this system to forensic cases, including 16 paternity testing cases (13 non-exclusion and three exclusion cases) and one personal identification case. For the paternity testing cases, the highest Essen–Möller’s
W-value was 0.9999995. The pM (matching probability) of the personal identification case was 2.22×10
−17. These data showed that this system was an excellent tool for use in forensic cases of paternity testing and personal identification.</description><identifier>ISSN: 0379-0738</identifier><identifier>EISSN: 1872-6283</identifier><identifier>DOI: 10.1016/j.forsciint.2004.03.005</identifier><identifier>PMID: 15240020</identifier><identifier>CODEN: FSINDR</identifier><language>eng</language><publisher>Kidlington: Elsevier Ireland Ltd</publisher><subject>Analysis ; Biological and medical sciences ; Blood Group Antigens - genetics ; Blood group loci ; Blood groups ; DNA Fingerprinting - methods ; DNA Primers ; Electrophoresis, Capillary ; Female ; Forensic genetics ; Forensic sciences ; Fundamental and applied biological sciences. Psychology ; Gene Frequency ; Genes ; Genes. Genome ; Genetics ; Genomics ; Humans ; Identification ; Investigative techniques, diagnostic techniques (general aspects) ; Male ; Medical sciences ; Methods ; Microbiology ; Molecular and cellular biology ; Molecular genetics ; Mutation ; Paternity ; Paternity testing ; Personal identification ; Polymerase Chain Reaction ; Polymorphism, Single Nucleotide ; Power of discrimination ; Sequence Analysis, DNA ; Single nucleotide polymorphisms ; Single nucleotide primer extension ; Tandem Repeat Sequences</subject><ispartof>Forensic science international, 2004-08, Vol.144 (1), p.45-57</ispartof><rights>2004 Elsevier Ireland Ltd</rights><rights>2004 INIST-CNRS</rights><rights>COPYRIGHT 2004 The Lancet Publishing Group, a division of Elsevier Science Ltd.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c627t-d6a049698c8921b0d0ec421f5185a937963bf49f2a9ec58da8585009bc6141763</citedby><cites>FETCH-LOGICAL-c627t-d6a049698c8921b0d0ec421f5185a937963bf49f2a9ec58da8585009bc6141763</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S037907380400146X$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65306</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=15932473$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15240020$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Inagaki, Sachiyo</creatorcontrib><creatorcontrib>Yamamoto, Yuji</creatorcontrib><creatorcontrib>Doi, Yusuke</creatorcontrib><creatorcontrib>Takata, Tomoyo</creatorcontrib><creatorcontrib>Ishikawa, Takaki</creatorcontrib><creatorcontrib>Imabayashi, Kiyomi</creatorcontrib><creatorcontrib>Yoshitome, Kei</creatorcontrib><creatorcontrib>Miyaishi, Satoru</creatorcontrib><creatorcontrib>Ishizu, Hideo</creatorcontrib><title>A new 39-plex analysis method for SNPs including 15 blood group loci</title><title>Forensic science international</title><addtitle>Forensic Sci Int</addtitle><description>A novel 39-plex typing system for single nucleotide polymorphisms (SNPs) has been developed. This multiplex approach has the advantage of being able to type 38 autosomal SNPs and one sex-discriminating base exchange site on the X and Y chromosomes rapidly and simultaneously. The SNP loci on the autosomes, which we examined, contain 15 loci distributed on blood type genes: three on RhCE, two each on Km and Gc, and one each on Duffy, AcP1, Tf, MN, GPT, EsD, PI, and Kidd genes.
Thirty-seven genomic DNA fragments containing a total of 38 SNPs and one sex-discriminating site were amplified in one multiplex PCR reaction. Following the reaction, single nucleotide primer extension reaction was performed by dividing these SNP loci into five groups. The SNP type of each of the 39 loci was determined at one time by capillary electrophoresis using the newly designed multi-injection method.
The combined PD (power of discrimination) of this typing system was (1–1.1)×10
−14, and the MEC (mean exclusion chance) was 0.9990. We applied this system to forensic cases, including 16 paternity testing cases (13 non-exclusion and three exclusion cases) and one personal identification case. For the paternity testing cases, the highest Essen–Möller’s
W-value was 0.9999995. The pM (matching probability) of the personal identification case was 2.22×10
−17. These data showed that this system was an excellent tool for use in forensic cases of paternity testing and personal identification.</description><subject>Analysis</subject><subject>Biological and medical sciences</subject><subject>Blood Group Antigens - genetics</subject><subject>Blood group loci</subject><subject>Blood groups</subject><subject>DNA Fingerprinting - methods</subject><subject>DNA Primers</subject><subject>Electrophoresis, Capillary</subject><subject>Female</subject><subject>Forensic genetics</subject><subject>Forensic sciences</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gene Frequency</subject><subject>Genes</subject><subject>Genes. Genome</subject><subject>Genetics</subject><subject>Genomics</subject><subject>Humans</subject><subject>Identification</subject><subject>Investigative techniques, diagnostic techniques (general aspects)</subject><subject>Male</subject><subject>Medical sciences</subject><subject>Methods</subject><subject>Microbiology</subject><subject>Molecular and cellular biology</subject><subject>Molecular genetics</subject><subject>Mutation</subject><subject>Paternity</subject><subject>Paternity testing</subject><subject>Personal identification</subject><subject>Polymerase Chain Reaction</subject><subject>Polymorphism, Single Nucleotide</subject><subject>Power of discrimination</subject><subject>Sequence Analysis, DNA</subject><subject>Single nucleotide polymorphisms</subject><subject>Single nucleotide primer extension</subject><subject>Tandem Repeat Sequences</subject><issn>0379-0738</issn><issn>1872-6283</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2004</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>BENPR</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNqFklGLEzEQxxdRvHr6FXRB9G3XSbLJJo_l1DvhUEF9Dml2tqakSU12T-_bm9LiqRSOPAQyv__MZOZfVS8ItASIeLNpx5iydS5MLQXoWmAtAH9QLYjsaSOoZA-rBbBeNdAzeVY9yXkDheBUPK7OCKcdAIVF9XZZB_xZM9XsPP6qTTD-Nrtcb3H6Hoe6VKm_fPycaxesnwcX1jXh9crHElunOO9qH617Wj0ajc_47HifV9_ev_t6cdVcf7r8cLG8bqyg_dQMwkCnhJJWKkpWMADajpKRE8mNKr0Ktho7NVKj0HI5GMklB1ArK0hHesHOq9eHvLsUf8yYJ7112aL3JmCcsxZCSN4xeS9IeilpGUYBX_4HbuKcyhAKA4wBA676O2ptPGoXxjglY_cp9ZIw2neSkq5QzQlqjQGT8THg6MrzP3x7gi9nwK2zJwX9QWBTzDnhqHfJbU26Lb3qvS30Rv-xhd7bQgPTZelF-fz4zXm1xeFOd_RBAV4dAZOt8WMywbr8F6cY7XpWuOWBw7LmG4dJl2oYLA4uoZ30EN29zfwGdcTT-w</recordid><startdate>20040811</startdate><enddate>20040811</enddate><creator>Inagaki, Sachiyo</creator><creator>Yamamoto, Yuji</creator><creator>Doi, Yusuke</creator><creator>Takata, Tomoyo</creator><creator>Ishikawa, Takaki</creator><creator>Imabayashi, Kiyomi</creator><creator>Yoshitome, Kei</creator><creator>Miyaishi, Satoru</creator><creator>Ishizu, Hideo</creator><general>Elsevier Ireland Ltd</general><general>Elsevier</general><general>The Lancet Publishing Group, a division of Elsevier Science Ltd</general><general>Elsevier Limited</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>ILT</scope><scope>3V.</scope><scope>7QP</scope><scope>7RV</scope><scope>7U7</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB0</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>M7P</scope><scope>MBDVC</scope><scope>NAPCQ</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>Q9U</scope><scope>7TM</scope><scope>7X8</scope></search><sort><creationdate>20040811</creationdate><title>A new 39-plex analysis method for SNPs including 15 blood group loci</title><author>Inagaki, Sachiyo ; Yamamoto, Yuji ; Doi, Yusuke ; Takata, Tomoyo ; Ishikawa, Takaki ; Imabayashi, Kiyomi ; Yoshitome, Kei ; Miyaishi, Satoru ; Ishizu, Hideo</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c627t-d6a049698c8921b0d0ec421f5185a937963bf49f2a9ec58da8585009bc6141763</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2004</creationdate><topic>Analysis</topic><topic>Biological and medical sciences</topic><topic>Blood Group Antigens - genetics</topic><topic>Blood group loci</topic><topic>Blood groups</topic><topic>DNA Fingerprinting - methods</topic><topic>DNA Primers</topic><topic>Electrophoresis, Capillary</topic><topic>Female</topic><topic>Forensic genetics</topic><topic>Forensic sciences</topic><topic>Fundamental and applied biological sciences. 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This multiplex approach has the advantage of being able to type 38 autosomal SNPs and one sex-discriminating base exchange site on the X and Y chromosomes rapidly and simultaneously. The SNP loci on the autosomes, which we examined, contain 15 loci distributed on blood type genes: three on RhCE, two each on Km and Gc, and one each on Duffy, AcP1, Tf, MN, GPT, EsD, PI, and Kidd genes.
Thirty-seven genomic DNA fragments containing a total of 38 SNPs and one sex-discriminating site were amplified in one multiplex PCR reaction. Following the reaction, single nucleotide primer extension reaction was performed by dividing these SNP loci into five groups. The SNP type of each of the 39 loci was determined at one time by capillary electrophoresis using the newly designed multi-injection method.
The combined PD (power of discrimination) of this typing system was (1–1.1)×10
−14, and the MEC (mean exclusion chance) was 0.9990. We applied this system to forensic cases, including 16 paternity testing cases (13 non-exclusion and three exclusion cases) and one personal identification case. For the paternity testing cases, the highest Essen–Möller’s
W-value was 0.9999995. The pM (matching probability) of the personal identification case was 2.22×10
−17. These data showed that this system was an excellent tool for use in forensic cases of paternity testing and personal identification.</abstract><cop>Kidlington</cop><pub>Elsevier Ireland Ltd</pub><pmid>15240020</pmid><doi>10.1016/j.forsciint.2004.03.005</doi><tpages>13</tpages></addata></record> |
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| subjects | Analysis Biological and medical sciences Blood Group Antigens - genetics Blood group loci Blood groups DNA Fingerprinting - methods DNA Primers Electrophoresis, Capillary Female Forensic genetics Forensic sciences Fundamental and applied biological sciences. Psychology Gene Frequency Genes Genes. Genome Genetics Genomics Humans Identification Investigative techniques, diagnostic techniques (general aspects) Male Medical sciences Methods Microbiology Molecular and cellular biology Molecular genetics Mutation Paternity Paternity testing Personal identification Polymerase Chain Reaction Polymorphism, Single Nucleotide Power of discrimination Sequence Analysis, DNA Single nucleotide polymorphisms Single nucleotide primer extension Tandem Repeat Sequences |
| title | A new 39-plex analysis method for SNPs including 15 blood group loci |
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