{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,17]],"date-time":"2026-03-17T14:30:20Z","timestamp":1773757820301,"version":"3.50.1"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"3","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,2,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: QDD is an open access program providing a user-friendly tool for microsatellite detection and primer design from large sets of DNA sequences. The program is designed to deal with all steps of treatment of raw sequences obtained from pyrosequencing of enriched DNA libraries, but it is also applicable to data obtained through other sequencing methods, using FASTA files as input. The following tasks are completed by QDD: tag sorting, adapter\/vector removal, elimination of redundant sequences, detection of possible genomic multicopies (duplicated loci or transposable elements), stringent selection of target microsatellites and customizable primer design. It can treat up to one million sequences of a few hundred base pairs in the tag-sorting step, and up to 50 000 sequences in a single input file for the steps involving estimation of sequence similarity.<\/jats:p>\n               <jats:p>Availability: QDD is freely available under the GPL licence for Windows and Linux from the following web site: http:\/\/www.univ-provence.fr\/gsite\/Local\/egee\/dir\/meglecz\/QDD.html<\/jats:p>\n               <jats:p>Contact: \u00a0emese.meglecz@univ-provence.fr<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp670","type":"journal-article","created":{"date-parts":[[2009,12,11]],"date-time":"2009-12-11T01:51:16Z","timestamp":1260496276000},"page":"403-404","source":"Crossref","is-referenced-by-count":523,"title":["QDD: a user-friendly program to select microsatellite markers and design primers from large sequencing projects"],"prefix":"10.1093","volume":"26","author":[{"given":"Emese","family":"Megl\u00e9cz","sequence":"first","affiliation":[{"name":"1 Aix-Marseille Universit\u00e9, CNRS, IRD, UMR 6116 \u2013 IMEP, Equipe Evolution, G\u00e9nome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, 2 Institut National de la Recherche Agronomique, UMR 1301, INRA\/UNSA\/CNRS, Equipe BPI, 400, route des Chappes. BP 167. 06903 Sophia-Antipolis Cedex and 3 Montpellier SupAgro, INRA, CIRAD, IRD, Centre de Biologie et de Gestion des Populations, Campus International de Baillarguet, CS30016, 34988 Montferrier-sur-Lez, France"}]},{"given":"Caroline","family":"Costedoat","sequence":"additional","affiliation":[{"name":"1 Aix-Marseille Universit\u00e9, CNRS, IRD, UMR 6116 \u2013 IMEP, Equipe Evolution, G\u00e9nome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, 2 Institut National de la Recherche Agronomique, UMR 1301, INRA\/UNSA\/CNRS, Equipe BPI, 400, route des Chappes. BP 167. 06903 Sophia-Antipolis Cedex and 3 Montpellier SupAgro, INRA, CIRAD, IRD, Centre de Biologie et de Gestion des Populations, Campus International de Baillarguet, CS30016, 34988 Montferrier-sur-Lez, France"}]},{"given":"Vincent","family":"Dubut","sequence":"additional","affiliation":[{"name":"1 Aix-Marseille Universit\u00e9, CNRS, IRD, UMR 6116 \u2013 IMEP, Equipe Evolution, G\u00e9nome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, 2 Institut National de la Recherche Agronomique, UMR 1301, INRA\/UNSA\/CNRS, Equipe BPI, 400, route des Chappes. BP 167. 06903 Sophia-Antipolis Cedex and 3 Montpellier SupAgro, INRA, CIRAD, IRD, Centre de Biologie et de Gestion des Populations, Campus International de Baillarguet, CS30016, 34988 Montferrier-sur-Lez, France"}]},{"given":"Andr\u00e9","family":"Gilles","sequence":"additional","affiliation":[{"name":"1 Aix-Marseille Universit\u00e9, CNRS, IRD, UMR 6116 \u2013 IMEP, Equipe Evolution, G\u00e9nome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, 2 Institut National de la Recherche Agronomique, UMR 1301, INRA\/UNSA\/CNRS, Equipe BPI, 400, route des Chappes. BP 167. 06903 Sophia-Antipolis Cedex and 3 Montpellier SupAgro, INRA, CIRAD, IRD, Centre de Biologie et de Gestion des Populations, Campus International de Baillarguet, CS30016, 34988 Montferrier-sur-Lez, France"}]},{"given":"Thibaut","family":"Malausa","sequence":"additional","affiliation":[{"name":"1 Aix-Marseille Universit\u00e9, CNRS, IRD, UMR 6116 \u2013 IMEP, Equipe Evolution, G\u00e9nome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, 2 Institut National de la Recherche Agronomique, UMR 1301, INRA\/UNSA\/CNRS, Equipe BPI, 400, route des Chappes. BP 167. 06903 Sophia-Antipolis Cedex and 3 Montpellier SupAgro, INRA, CIRAD, IRD, Centre de Biologie et de Gestion des Populations, Campus International de Baillarguet, CS30016, 34988 Montferrier-sur-Lez, France"}]},{"given":"Nicolas","family":"Pech","sequence":"additional","affiliation":[{"name":"1 Aix-Marseille Universit\u00e9, CNRS, IRD, UMR 6116 \u2013 IMEP, Equipe Evolution, G\u00e9nome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, 2 Institut National de la Recherche Agronomique, UMR 1301, INRA\/UNSA\/CNRS, Equipe BPI, 400, route des Chappes. BP 167. 06903 Sophia-Antipolis Cedex and 3 Montpellier SupAgro, INRA, CIRAD, IRD, Centre de Biologie et de Gestion des Populations, Campus International de Baillarguet, CS30016, 34988 Montferrier-sur-Lez, France"}]},{"given":"Jean-Fran\u00e7ois","family":"Martin","sequence":"additional","affiliation":[{"name":"1 Aix-Marseille Universit\u00e9, CNRS, IRD, UMR 6116 \u2013 IMEP, Equipe Evolution, G\u00e9nome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, 2 Institut National de la Recherche Agronomique, UMR 1301, INRA\/UNSA\/CNRS, Equipe BPI, 400, route des Chappes. BP 167. 06903 Sophia-Antipolis Cedex and 3 Montpellier SupAgro, INRA, CIRAD, IRD, Centre de Biologie et de Gestion des Populations, Campus International de Baillarguet, CS30016, 34988 Montferrier-sur-Lez, France"}]}],"member":"286","published-online":{"date-parts":[[2009,12,10]]},"reference":[{"key":"2023012511003488900_B1","doi-asserted-by":"crossref","first-page":"573","DOI":"10.1093\/nar\/27.2.573","article-title":"Tandem repeats finder: a program to analyze DNA sequences","volume":"27","author":"Benson","year":"1999","journal-title":"Nucleic Acids Res."},{"key":"2023012511003488900_B2","article-title":"Rapid identification of thousands of copperhead snake (Agkistrodon contortrix) microsatellite loci from modest amounts of 454 shotgun genome sequence","author":"Castoe","year":"2009","journal-title":"Mol. Ecol. 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