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Comparative studies on the output of different tools for finding tandem repeats highlighted significant differences among the sets of detected tandem repeats, while many authors pointed up how critical it is the right choice of parameters.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>In this paper we present <jats:italic>TReaDS - Tandem Repeats Discovery Service<\/jats:italic>, a <jats:italic>tandem repeat meta search engine<\/jats:italic>. <jats:italic>TReaDS<\/jats:italic> forwards user requests to several state of the art tools for finding tandem repeats and merges their outcome into a single report, providing a global, synthetic, and comparative view of the results. In particular, <jats:italic>TReaDS<\/jats:italic> allows the user to (<jats:italic>i<\/jats:italic>) simultaneously run different algorithms on the same data set, (<jats:italic>ii<\/jats:italic>) choose for each algorithm a different setting of parameters, and (<jats:italic>iii<\/jats:italic>) obtain a report that can be downloaded for further, off-line, investigations. We used <jats:italic>TReaDS<\/jats:italic> to investigate sequences associated with repeat expansion diseases.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusions<\/jats:title>\n            <jats:p>By using the tool <jats:italic>TReaDS<\/jats:italic> we discover that, for 27 repeat expansion diseases out of a currently known set of 29, <jats:italic>long fuzzy tandem repeats<\/jats:italic> are covering the expansion loci. Tests with control sets confirm the specificity of this association. This finding suggests that long fuzzy tandem repeats can be a new class of cis-acting elements involved in the mechanisms leading to the expansion instability.<\/jats:p>\n            <jats:p>We strongly believe that biologists can be interested in a tool that, not only gives them the possibility of using multiple search algorithm at the same time, with the same effort exerted in using just one of the systems, but also simplifies the burden of comparing and merging the results, thus expanding our capabilities in detecting important phenomena related to tandem repeats.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1471-2105-13-s4-s3","type":"journal-article","created":{"date-parts":[[2012,3,28]],"date-time":"2012-03-28T10:46:33Z","timestamp":1332931593000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":9,"title":["Tandem repeats discovery service (TReaDS) applied to finding novel cis-acting factors in repeat expansion diseases"],"prefix":"10.1186","volume":"13","author":[{"given":"Marco","family":"Pellegrini","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Maria Elena","family":"Renda","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Alessio","family":"Vecchio","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2012,3,28]]},"reference":[{"issue":"6","key":"5100_CR1","doi-asserted-by":"publisher","first-page":"909","DOI":"10.1093\/hmg\/9.6.909","volume":"9","author":"CJ Cummings","year":"2000","unstructured":"Cummings CJ, Zoghbi HY: Fourteen and counting: unraveling trinucleotide repeat diseases. 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