{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,8]],"date-time":"2026-05-08T07:48:04Z","timestamp":1778226484937,"version":"3.51.4"},"reference-count":43,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2018,10,26]],"date-time":"2018-10-26T00:00:00Z","timestamp":1540512000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,1,8]]},"DOI":"10.1093\/nar\/gky998","type":"journal-article","created":{"date-parts":[[2018,10,14]],"date-time":"2018-10-14T15:07:02Z","timestamp":1539529622000},"page":"D244-D252","source":"Crossref","is-referenced-by-count":35,"title":["SSRome: an integrated database and pipelines for exploring microsatellites in all organisms"],"prefix":"10.1093","volume":"47","author":[{"given":"Morad M","family":"Mokhtar","sequence":"first","affiliation":[{"name":"Molecular Genetics and Genome Mapping Laboratory, Genome Mapping Department, Agricultural Genetic Engineering Research Institute (AGERI), ARC, Giza, 12619, Egypt"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2462-1269","authenticated-orcid":false,"given":"Mohamed A\u00a0M","family":"Atia","sequence":"additional","affiliation":[{"name":"Molecular Genetics and Genome Mapping Laboratory, Genome Mapping Department, Agricultural Genetic Engineering Research Institute (AGERI), ARC, Giza, 12619, Egypt"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2018,10,26]]},"reference":[{"key":"key\n\t\t\t\t2019012509000089400_B1","doi-asserted-by":"crossref","first-page":"435","DOI":"10.1038\/nrg1348","article-title":"Microsatellites: simple sequences with complex evolution","volume":"5","author":"Ellegren","year":"2004","journal-title":"Nat. Rev. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B2","doi-asserted-by":"crossref","first-page":"18","DOI":"10.1016\/j.gene.2007.11.006","article-title":"Distribution and evolution of short tandem repeats in closely related bacterial genomes","volume":"410","author":"Kassai-J\u00e1ger","year":"2008","journal-title":"Gene"},{"key":"key\n\t\t\t\t2019012509000089400_B3","doi-asserted-by":"crossref","first-page":"967","DOI":"10.1101\/gr.10.7.967","article-title":"Microsatellites in different eukaryotic genomes: survey and analysis","volume":"10","author":"T\u00f3th","year":"2000","journal-title":"Genome Res."},{"key":"key\n\t\t\t\t2019012509000089400_B4","doi-asserted-by":"crossref","first-page":"424","DOI":"10.1016\/0169-5347(96)10049-5","article-title":"Microsatellites, from molecules to populations and back","volume":"11","author":"Jarne","year":"1996","journal-title":"Trends Ecol. Evol."},{"key":"key\n\t\t\t\t2019012509000089400_B5","doi-asserted-by":"crossref","first-page":"194","DOI":"10.1038\/ng822","article-title":"Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes","volume":"30","author":"Morgante","year":"2002","journal-title":"Nat. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B6","doi-asserted-by":"crossref","first-page":"195","DOI":"10.1016\/j.plantsci.2004.08.001","article-title":"Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice","volume":"168","author":"Varshney","year":"2005","journal-title":"Plant Sci."},{"key":"key\n\t\t\t\t2019012509000089400_B7","doi-asserted-by":"crossref","first-page":"3800","DOI":"10.1073\/pnas.0406805102","article-title":"Microsatellite instability regulates transcription factor binding and gene expression","volume":"102","author":"Martin","year":"2005","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"key\n\t\t\t\t2019012509000089400_B8","doi-asserted-by":"crossref","first-page":"1991","DOI":"10.1093\/oxfordjournals.molbev.a004023","article-title":"Abundant raw material for cis-regulatory evolution in humans","volume":"19","author":"Rockman","year":"2002","journal-title":"Mol. Biol. Evol."},{"key":"key\n\t\t\t\t2019012509000089400_B9","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1038\/nrg3890","article-title":"The effects of chromatin organization on variation in mutation rates in the genome","volume":"16","author":"Makova","year":"2015","journal-title":"Nat. Rev. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B10","doi-asserted-by":"crossref","first-page":"22","DOI":"10.1038\/ng.3461","article-title":"Abundant contribution of short tandem repeats to gene expression variation in humans","volume":"48","author":"Gymrek","year":"2016","journal-title":"Nat. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B11","doi-asserted-by":"crossref","first-page":"98","DOI":"10.1002\/humu.9471","article-title":"Microsatellite in the 3\u2032 untranslated region of human fibroblast growth factor 9 (FGF9) gene exhibits pleiotropic effect on modulating FGF9 protein expression","volume":"28","author":"Chen","year":"2007","journal-title":"Hum. Mutat."},{"key":"key\n\t\t\t\t2019012509000089400_B12","doi-asserted-by":"crossref","first-page":"1327","DOI":"10.1038\/ng.2766","article-title":"Arabidopsis meiotic crossover hot spots overlap with H2A. Z nucleosomes at gene promoters","volume":"45","author":"Choi","year":"2013","journal-title":"Nat. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B13","doi-asserted-by":"crossref","first-page":"37","DOI":"10.1007\/s00439-014-1485-6","article-title":"G-quadruplex formation enhances splicing efficiency of PAX9 intron 1","volume":"134","author":"Ribeiro","year":"2015","journal-title":"Hum. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B14","doi-asserted-by":"crossref","first-page":"991","DOI":"10.1093\/molbev\/msh073","article-title":"Microsatellites within genes: structure, function, and evolution","volume":"21","author":"Li","year":"2004","journal-title":"Mol. Biol. Evol."},{"key":"key\n\t\t\t\t2019012509000089400_B15","doi-asserted-by":"crossref","first-page":"312","DOI":"10.1590\/1678-4685-GMB-2016-0027","article-title":"Microsatellite markers: what they mean and why they are so useful","volume":"39","author":"Vieira","year":"2016","journal-title":"Genet. Mol. Biol."},{"key":"key\n\t\t\t\t2019012509000089400_B16","doi-asserted-by":"crossref","first-page":"2428","DOI":"10.1093\/gbe\/evx164","article-title":"Functional mechanisms of microsatellite DNA in eukaryotic genomes","volume":"9","author":"Bagshaw","year":"2017","journal-title":"Genome Biol. Evol."},{"key":"key\n\t\t\t\t2019012509000089400_B17","doi-asserted-by":"crossref","first-page":"490","DOI":"10.1016\/j.tibtech.2007.07.013","article-title":"Mining microsatellites in eukaryotic genomes","volume":"25","author":"Sharma","year":"2007","journal-title":"Trends Biotechnol."},{"key":"key\n\t\t\t\t2019012509000089400_B18","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":"key\n\t\t\t\t2019012509000089400_B19","doi-asserted-by":"crossref","first-page":"411","DOI":"10.1007\/s00122-002-1031-0","article-title":"Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.)","volume":"106","author":"Thiel","year":"2003","journal-title":"Theor. Appl. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B20","doi-asserted-by":"crossref","first-page":"1683","DOI":"10.1093\/bioinformatics\/btm157","article-title":"SciRoKo: a new tool for whole genome microsatellite search and investigation","volume":"23","author":"Kofler","year":"2007","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t2019012509000089400_B21","doi-asserted-by":"crossref","first-page":"541","DOI":"10.6026\/97320630009541","article-title":"GMATo: a novel tool for the identification and analysis of microsatellites in large genomes","volume":"9","author":"Wang","year":"2013","journal-title":"Bioinformation"},{"key":"key\n\t\t\t\t2019012509000089400_B22","doi-asserted-by":"crossref","first-page":"1181","DOI":"10.1093\/bioinformatics\/btm097","article-title":"IMEx: imperfect microsatellite extractor","volume":"23","author":"Mudunuri","year":"2007","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t2019012509000089400_B23","doi-asserted-by":"crossref","first-page":"3672","DOI":"10.1093\/nar\/gkg617","article-title":"mreps: efficient and flexible detection of tandem repeats in DNA","volume":"31","author":"Kolpakov","year":"2003","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t2019012509000089400_B24","doi-asserted-by":"crossref","first-page":"634","DOI":"10.1093\/bioinformatics\/18.4.634","article-title":"TROLL\u2014tandem repeat occurrence locator","volume":"18","author":"Castelo","year":"2002","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t2019012509000089400_B25","doi-asserted-by":"crossref","first-page":"e22","DOI":"10.1093\/nar\/gks881","article-title":"MsDetector: toward a standard computational tool for DNA microsatellites detection","volume":"41","author":"Girgis","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t2019012509000089400_B26","first-page":"412696","article-title":"SSR locator: tool for simple sequence repeat discovery integrated with primer design and PCR simulation","volume":"2008","author":"Da\u00a0Maia","year":"2008","journal-title":"Int. J. Plant Genomics"},{"key":"key\n\t\t\t\t2019012509000089400_B27","doi-asserted-by":"crossref","first-page":"538","DOI":"10.1111\/1755-0998.12078","article-title":"Predicting polymorphic EST-SSRs in silico","volume":"13","author":"Duran","year":"2013","journal-title":"Mol. Ecol. Resour."},{"key":"key\n\t\t\t\t2019012509000089400_B28","doi-asserted-by":"crossref","first-page":"1171","DOI":"10.3389\/fpls.2015.01171","article-title":"CandiSSR: an efficient pipeline used for identifying candidate polymorphic SSRs based on multiple assembled sequences","volume":"6","author":"Xia","year":"2016","journal-title":"Front. Plant Sci."},{"key":"key\n\t\t\t\t2019012509000089400_B29","first-page":"1350","article-title":"GMATA: an integrated software package for genome-scale SSR mining, marker development and viewing","volume":"7","author":"Wang","year":"2016","journal-title":"Front. Plant Sci."},{"key":"key\n\t\t\t\t2019012509000089400_B30","doi-asserted-by":"crossref","first-page":"D53","DOI":"10.1093\/nar\/gkm811","article-title":"UgMicroSat db: database for mining microsatellites from unigenes","volume":"36","author":"Aishwarya","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t2019012509000089400_B31","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1186\/1471-2164-8-225","article-title":"EuMicroSatdb: a database for microsatellites in the sequenced genomes of eukaryotes","volume":"8","author":"Aishwarya","year":"2007","journal-title":"BMC Genomics"},{"key":"key\n\t\t\t\t2019012509000089400_B32","doi-asserted-by":"crossref","first-page":"264","DOI":"10.1270\/jsbbs.64.264","article-title":"Kazusa Marker DataBase: a database for genomics, genetics, and molecular breeding in plants","volume":"64","author":"Shirasawa","year":"2014","journal-title":"Breed. Sci."},{"key":"key\n\t\t\t\t2019012509000089400_B33","doi-asserted-by":"crossref","first-page":"D1133","DOI":"10.1093\/nar\/gkv1179","article-title":"Gramene 2016: comparative plant genomics and pathway resources","volume":"44","author":"Tello-Ruiz","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t2019012509000089400_B34","doi-asserted-by":"crossref","first-page":"1797","DOI":"10.1093\/gbe\/evx132","article-title":"MSDB: a comprehensive database of simple sequence repeats","volume":"9","author":"Avvaru","year":"2017","journal-title":"Genome Biol. Evol."},{"key":"key\n\t\t\t\t2019012509000089400_B35","doi-asserted-by":"crossref","first-page":"e115","DOI":"10.1093\/nar\/gks596","article-title":"Primer3\u2013new capabilities and interfaces","volume":"40","author":"Untergasser","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t2019012509000089400_B36","doi-asserted-by":"crossref","first-page":"9","DOI":"10.1139\/g98-104","article-title":"A set of conserved PCR primers for the analysis of simple sequence repeat polymorphisms in chloroplast genomes of dicotyledonous angiosperms","volume":"42","author":"Weising","year":"1999","journal-title":"Genome"},{"key":"key\n\t\t\t\t2019012509000089400_B37","first-page":"397","article-title":"A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat within the cardiac muscle actin gene","volume":"44","author":"Litt","year":"1989","journal-title":"Am. J. Hum. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B38","doi-asserted-by":"crossref","first-page":"33741","DOI":"10.1038\/srep33741","article-title":"Genome-wide in silico analysis, characterization and identification of microsatellites in Spodoptera littoralis multiple nucleopolyhedrovirus (SpliMNPV)","volume":"6","author":"Atia","year":"2016","journal-title":"Sci. Rep."},{"key":"key\n\t\t\t\t2019012509000089400_B39","doi-asserted-by":"crossref","first-page":"e0159268","DOI":"10.1371\/journal.pone.0159268","article-title":"Genic and intergenic SSR database generation, SNPs determination and pathway annotations, in date palm (Phoenix dactylifera L.)","volume":"11","author":"Mokhtar","year":"2016","journal-title":"PLOS one"},{"key":"key\n\t\t\t\t2019012509000089400_B40","doi-asserted-by":"crossref","first-page":"10774","DOI":"10.1073\/pnas.95.18.10774","article-title":"Equilibrium distributions of microsatellite repeat length resulting from a balance between slippage events and point mutations","volume":"95","author":"Kruglyak","year":"1998","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"key\n\t\t\t\t2019012509000089400_B41","doi-asserted-by":"crossref","first-page":"402","DOI":"10.1007\/s00122-004-1645-5","article-title":"Assignment of allelic configuration in polyploids using the MAC-PR (microsatellite DNA allele counting\u2014peak ratios) method","volume":"109","author":"Esselink","year":"2004","journal-title":"Theor. Appl. Genet."},{"key":"key\n\t\t\t\t2019012509000089400_B42","doi-asserted-by":"crossref","first-page":"309","DOI":"10.1007\/s10681-010-0286-9","article-title":"Microsatellite markers: an overview of the recent progress in plants","volume":"177","author":"Kalia","year":"2011","journal-title":"Euphytica"},{"key":"key\n\t\t\t\t2019012509000089400_B43","doi-asserted-by":"crossref","first-page":"3750","DOI":"10.1093\/nar\/gkw219","article-title":"Polymorphic tandem repeats within gene promoters act as modifiers of gene expression and DNA methylation in humans","volume":"44","author":"Quilez","year":"2016","journal-title":"Nucleic Acids Res."}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/47\/D1\/D244\/27436509\/gky998.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,10,26]],"date-time":"2019-10-26T12:45:13Z","timestamp":1572093913000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article\/47\/D1\/D244\/5144968"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,10,26]]},"references-count":43,"journal-issue":{"issue":"D1","published-online":{"date-parts":[[2018,10,26]]},"published-print":{"date-parts":[[2019,1,8]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gky998","relation":{},"ISSN":["0305-1048","1362-4962"],"issn-type":[{"value":"0305-1048","type":"print"},{"value":"1362-4962","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2019,1,8]]},"published":{"date-parts":[[2018,10,26]]}}}