{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,28]],"date-time":"2026-04-28T20:39:12Z","timestamp":1777408752859,"version":"3.51.4"},"reference-count":47,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2022,11,1]],"date-time":"2022-11-01T00:00:00Z","timestamp":1667260800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"Agence National de la Recherche","award":["ANR-14-CE19-0020"],"award-info":[{"award-number":["ANR-14-CE19-0020"]}]},{"DOI":"10.13039\/501100001665","name":"ANR","doi-asserted-by":"publisher","award":["ANR-10-BTBR-04"],"award-info":[{"award-number":["ANR-10-BTBR-04"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100016842","name":"Institut Fran\u00e7ais de Bioinformatique","doi-asserted-by":"publisher","award":["ANR-11-INBS-0013"],"award-info":[{"award-number":["ANR-11-INBS-0013"]}],"id":[{"id":"10.13039\/100016842","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,1,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>SulfAtlas (https:\/\/sulfatlas.sb-roscoff.fr\/) is a knowledge-based resource dedicated to a sequence-based classification of sulfatases. Currently four sulfatase families exist (S1\u2013S4) and the largest family (S1, formylglycine-dependent sulfatases) is divided into subfamilies by a phylogenetic approach, each subfamily corresponding to either a single characterized specificity (or few specificities in some cases) or to unknown substrates. Sequences are linked to their biochemical and structural information according to an expert scrutiny of the available literature. Database browsing was initially made possible both through a keyword search engine and a specific sequence similarity (BLAST) server. In this article, we will briefly summarize the experimental progresses in the sulfatase field in the last 6 years. To improve and speed up the (sub)family assignment of sulfatases in (meta)genomic data, we have developed a new, freely-accessible search engine using Hidden Markov model (HMM) for each (sub)family. This new tool (SulfAtlas HMM) is also a key part of the internal pipeline used to regularly update the database. SulfAtlas resource has indeed significantly grown since its creation in 2016, from 4550 sequences to 162 430 sequences in August 2022.<\/jats:p>","DOI":"10.1093\/nar\/gkac977","type":"journal-article","created":{"date-parts":[[2022,11,1]],"date-time":"2022-11-01T15:50:45Z","timestamp":1667317845000},"page":"D647-D653","source":"Crossref","is-referenced-by-count":63,"title":["SulfAtlas, the sulfatase database: state of the art and new developments"],"prefix":"10.1093","volume":"51","author":[{"given":"Mark","family":"Stam","sequence":"first","affiliation":[{"name":"LABGeM, G\u00e9nomique M\u00e9tabolique, CEA, Genoscope, Institut Fran\u00e7ois Jacob, CNRS, Universit\u00e9 d'\u00c9vry, Universit\u00e9 Paris-Saclay , 91057 , Evry , Ile-de-France , France"}]},{"given":"Pernelle","family":"Leli\u00e8vre","sequence":"additional","affiliation":[{"name":"Sorbonne Universit\u00e9, CNRS, Laboratory of Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR) , 29680 Roscoff , Bretagne , France"},{"name":"Sorbonne Universit\u00e9, CNRS, FR2424, ABiMS, Station Biologique de Roscoff , 29680 , Roscoff , Bretagne , France"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6311-9752","authenticated-orcid":false,"given":"Mark","family":"Hoebeke","sequence":"additional","affiliation":[{"name":"Sorbonne Universit\u00e9, CNRS, FR2424, ABiMS, Station Biologique de Roscoff , 29680 , Roscoff , Bretagne , France"}]},{"given":"Erwan","family":"Corre","sequence":"additional","affiliation":[{"name":"Sorbonne Universit\u00e9, CNRS, FR2424, ABiMS, Station Biologique de Roscoff , 29680 , Roscoff , Bretagne , France"}]},{"given":"Tristan","family":"Barbeyron","sequence":"additional","affiliation":[{"name":"Sorbonne Universit\u00e9, CNRS, Laboratory of Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR) , 29680 Roscoff , Bretagne , France"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3009-6205","authenticated-orcid":false,"given":"Gurvan","family":"Michel","sequence":"additional","affiliation":[{"name":"Sorbonne Universit\u00e9, CNRS, Laboratory of Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR) , 29680 Roscoff , Bretagne , France"}]}],"member":"286","published-online":{"date-parts":[[2022,11,1]]},"reference":[{"key":"2023010804213996300_B1","doi-asserted-by":"crossref","first-page":"e0164846","DOI":"10.1371\/journal.pone.0164846","article-title":"Matching the diversity of sulfated biomolecules: creation of a classification database for sulfatases reflecting their substrate specificity","volume":"11","author":"Barbeyron","year":"2016","journal-title":"PLoS One"},{"key":"2023010804213996300_B2","doi-asserted-by":"crossref","first-page":"5736","DOI":"10.1002\/anie.200300632","article-title":"Sulfatases: structure, mechanism, biological activity, inhibition, and synthetic utility","volume":"43","author":"Hanson","year":"2004","journal-title":"Angew. 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