MRPrimerV: a database of PCR primers for RNA virus detection
Identifieur interne : 001157 ( Main/Exploration ); précédent : 001156; suivant : 001158MRPrimerV: a database of PCR primers for RNA virus detection
Auteurs : Hyerin Kim [Corée du Sud] ; Nana Kang [Corée du Sud] ; Kyuhyeon An [Corée du Sud] ; Doyun Kim [Corée du Sud] ; Jaehyung Koo [Corée du Sud] ; Min-Soo Kim [Corée du Sud]Source :
- Nucleic Acids Research [ 0305-1048 ] ; 2016.
Descripteurs français
- KwdFr :
- MESH :
- diagnostic : Maladies virales.
- génétique : Virus à ARN.
- virologie : Maladies virales.
- Amorces ADN, Bases de données d'acides nucléiques, Humains, Réaction de polymérisation en chaîne.
English descriptors
- KwdEn :
- MESH :
- chemical : DNA Primers.
- diagnosis : Virus Diseases.
- genetics : RNA Viruses.
- virology : Virus Diseases.
- Databases, Nucleic Acid, Humans, Polymerase Chain Reaction.
Abstract
Many infectious diseases are caused by viral infections, and in particular by RNA viruses such as MERS, Ebola and Zika. To understand viral disease, detection and identification of these viruses are essential. Although PCR is widely used for rapid virus identification due to its low cost and high sensitivity and specificity, very few online database resources have compiled PCR primers for RNA viruses. To effectively detect viruses, the MRPrimerV database (
Url:
DOI: 10.1093/nar/gkw1095
PubMed: 27899620
PubMed Central: 5210568
Affiliations:
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Le document en format XML
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Kim</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Department of Information and Communication Engineering, DGIST, Daegu, 42988, South Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Information and Communication Engineering, DGIST, Daegu, 42988</wicri:regionArea><wicri:noRegion>42988</wicri:noRegion></affiliation></author><author><name sortKey="Kang, Nana" sort="Kang, Nana" uniqKey="Kang N" first="Nana" last="Kang">Nana Kang</name><affiliation wicri:level="1"><nlm:aff id="AFF2">Department of Brain and Cognitive Sciences, DGIST, Daegu, 42988, South Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Brain and Cognitive Sciences, DGIST, Daegu, 42988</wicri:regionArea><wicri:noRegion>42988</wicri:noRegion></affiliation></author><author><name sortKey="An, Kyuhyeon" sort="An, Kyuhyeon" uniqKey="An K" first="Kyuhyeon" last="An">Kyuhyeon An</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Department of Information and Communication Engineering, DGIST, Daegu, 42988, South Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Information and Communication Engineering, DGIST, Daegu, 42988</wicri:regionArea><wicri:noRegion>42988</wicri:noRegion></affiliation></author><author><name sortKey="Kim, Doyun" sort="Kim, Doyun" uniqKey="Kim D" first="Doyun" last="Kim">Doyun Kim</name><affiliation wicri:level="1"><nlm:aff id="AFF2">Department of Brain and Cognitive Sciences, DGIST, Daegu, 42988, South Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Brain and Cognitive Sciences, DGIST, Daegu, 42988</wicri:regionArea><wicri:noRegion>42988</wicri:noRegion></affiliation></author><author><name sortKey="Koo, Jaehyung" sort="Koo, Jaehyung" uniqKey="Koo J" first="Jaehyung" last="Koo">Jaehyung Koo</name><affiliation wicri:level="1"><nlm:aff id="AFF2">Department of Brain and Cognitive Sciences, DGIST, Daegu, 42988, South Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Brain and Cognitive Sciences, DGIST, Daegu, 42988</wicri:regionArea><wicri:noRegion>42988</wicri:noRegion></affiliation></author><author><name sortKey="Kim, Min Soo" sort="Kim, Min Soo" uniqKey="Kim M" first="Min-Soo" last="Kim">Min-Soo Kim</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Department of Information and Communication Engineering, DGIST, Daegu, 42988, South Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Information and Communication Engineering, DGIST, Daegu, 42988</wicri:regionArea><wicri:noRegion>42988</wicri:noRegion></affiliation></author></analytic><series><title level="j">Nucleic Acids Research</title><idno type="ISSN">0305-1048</idno><idno type="eISSN">1362-4962</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>DNA Primers</term><term>Databases, Nucleic Acid</term><term>Humans</term><term>Polymerase Chain Reaction</term><term>RNA Viruses (genetics)</term><term>Virus Diseases (diagnosis)</term><term>Virus Diseases (virology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Amorces ADN</term><term>Bases de données d'acides nucléiques</term><term>Humains</term><term>Maladies virales (diagnostic)</term><term>Maladies virales (virologie)</term><term>Réaction de polymérisation en chaîne</term><term>Virus à ARN (génétique)</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>DNA Primers</term></keywords><keywords scheme="MESH" qualifier="diagnosis" xml:lang="en"><term>Virus Diseases</term></keywords><keywords scheme="MESH" qualifier="diagnostic" xml:lang="fr"><term>Maladies virales</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>RNA Viruses</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Virus à ARN</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Maladies virales</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Virus Diseases</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Databases, Nucleic Acid</term><term>Humans</term><term>Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Amorces ADN</term><term>Bases de données d'acides nucléiques</term><term>Humains</term><term>Réaction de polymérisation en chaîne</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><title>Abstract</title><p>Many infectious diseases are caused by viral infections, and in particular by RNA viruses such as MERS, Ebola and Zika. To understand viral disease, detection and identification of these viruses are essential. Although PCR is widely used for rapid virus identification due to its low cost and high sensitivity and specificity, very few online database resources have compiled PCR primers for RNA viruses. To effectively detect viruses, the MRPrimerV database (<ext-link ext-link-type="uri" xlink:href="http://MRPrimerV.com">http://MRPrimerV.com</ext-link>) contains 152 380 247 PCR primer pairs for detection of 1818 viruses, covering 7144 coding sequences (CDSs), representing 100% of the RNA viruses in the most up-to-date NCBI RefSeq database. Due to rigorous similarity testing against all human and viral sequences, every primer in MRPrimerV is highly target-specific. Because MRPrimerV ranks CDSs by the penalty scores of their best primer, users need only use the first primer pair for a single-phase PCR or the first two primer pairs for two-phase PCR. Moreover, MRPrimerV provides the list of genome neighbors that can be detected using each primer pair, covering 22 192 variants of 532 RefSeq RNA viruses. We believe that the public availability of MRPrimerV will facilitate viral metagenomics studies aimed at evaluating the variability of viruses, as well as other scientific tasks.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Sands, P" uniqKey="Sands P">P. Sands</name></author><author><name sortKey="Mundaca Shah, C" uniqKey="Mundaca Shah C">C. Mundaca-Shah</name></author><author><name sortKey="Dzau, V J" uniqKey="Dzau V">V.J. Dzau</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wang, X" uniqKey="Wang X">X. Wang</name></author><author><name sortKey="Spandidos, A" uniqKey="Spandidos A">A. Spandidos</name></author><author><name sortKey="Wang, H" uniqKey="Wang H">H. Wang</name></author><author><name sortKey="Seed, B" uniqKey="Seed B">B. 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Timm</name></author><author><name sortKey="Binger, T" uniqKey="Binger T">T. Binger</name></author><author><name sortKey="Meyer, B" uniqKey="Meyer B">B. Meyer</name></author><author><name sortKey="Kreher, P" uniqKey="Kreher P">P. Kreher</name></author><author><name sortKey="Lattwein, E" uniqKey="Lattwein E">E. Lattwein</name></author><author><name sortKey="Eschbach Bludau, M" uniqKey="Eschbach Bludau M">M. Eschbach-Bludau</name></author><author><name sortKey="Nitsche, A" uniqKey="Nitsche A">A. Nitsche</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Lee, S I" uniqKey="Lee S">S.I. Lee</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Corée du Sud</li></country></list><tree><country name="Corée du Sud"><noRegion><name sortKey="Kim, Hyerin" sort="Kim, Hyerin" uniqKey="Kim H" first="Hyerin" last="Kim">Hyerin Kim</name></noRegion><name sortKey="An, Kyuhyeon" sort="An, Kyuhyeon" uniqKey="An K" first="Kyuhyeon" last="An">Kyuhyeon An</name><name sortKey="Kang, Nana" sort="Kang, Nana" uniqKey="Kang N" first="Nana" last="Kang">Nana Kang</name><name sortKey="Kim, Doyun" sort="Kim, Doyun" uniqKey="Kim D" first="Doyun" last="Kim">Doyun Kim</name><name sortKey="Kim, Min Soo" sort="Kim, Min Soo" uniqKey="Kim M" first="Min-Soo" last="Kim">Min-Soo Kim</name><name sortKey="Koo, Jaehyung" sort="Koo, Jaehyung" uniqKey="Koo J" first="Jaehyung" last="Koo">Jaehyung Koo</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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