The First Quarter Century of the Dense Alignment Surface Transmembrane Prediction Method

https://m2.mtmt.hu/ hun 2026-10-25 07:58 JournalArticle 34173459 VALIDATED true 0 false 2026-10-23T21:06:50.387+0000 2026-04-22T21:06:32.053+0000 2023-10-04T10:01:17.486+0000 true 10000064 Magyar Csaba /api/author/10000064 Author Magyar Csaba (Fehérjék szerkezeti stabilitása, szerkezet alapú hatóanyag tervezés) true 10000064 2025-07-01T19:15:59.069+0000 2025-07-01T19:15:59.069+0000 2023-10-09T10:45:19.262+0000 true 10080205 Szalóky-Siki Ágnes /api/admin/10080205 Admin Szalóky-Siki Ágnes (SE_KK_Admin5_SZSA, admin) true Admin 10014568 /api/admin/10014568 Vándor Andrea (VA, admin) Vándor Andrea true 10014568 true 2024-04-04T10:41:59.112+0000 true false true 24 24 /api/publicationtype/24 PublicationType Folyóiratcikk 1 true 24 JournalArticle true 10000059 Article true 24 24 /api/publicationtype/24 PublicationType Folyóiratcikk 1 true 24 JournalArticle /api/subtype/10000059 Szakcikk SubType Szakcikk (Folyóiratcikk) 101 true 10000059 true 1 /api/category/1 Category Tudományos true 1 Cserző, Miklós The First Quarter Century of the Dense Alignment Surface Transmembrane Prediction Method true true /api/journal/10003252 REVIEWED INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 1661-6596 1422-0067 true false 10003252 false 10003252 true 1661-6596 1422-0067 Journal FOREIGN 24 18 14016 14016 9 2023 The dense alignment surface (DAS) transmembrane (TM) prediction method was first published more than 25 years ago. DAS was the one of the earliest tools to discriminate TM proteins from globular ones and to predict the sequence positions of TM helices in proteins with high accuracy from their amino acid sequence alone. The algorithmic improvements that followed in 2002 (DAS-TMfilter) made it one of the best performing tools among those relying on local sequence information for TM prediction. Since then, many more experimental data about membrane proteins (including thousands of 3D structures of membrane proteins) have accumulated but there has been no significant improvement concerning performance in the area of TM helix prediction tools. Here, we report a new implementation of the DAS-TMfilter prediction web server. We reevaluated the performance of the method using a five-times-larger, updated test dataset. We found that the method performs at essentially the same accuracy as the original even without any change to the parametrization of the program despite the much larger dataset. Thus, the approach captures the physico-chemistry of TM helices well, essentially solving this scientific problem. true 2023 true true true false true false GOLD 2026-10-23 false http://www.mdpi.com/journal/ijms 2 0 2 1 0 2 2 2 1 2 2 1 1 1 1 0 2 1 2 1 0 5 5 Folyóiratcikk Journal Article 24 2 Könyvrészlet Chapter in Book 25 0 Könyv Book 23 0 Egyéb konferenciaközlemény Conference paper 31 0 Egyéb konferenciakötet Conference proceedings 32 0 Oltalmi formák Protection forms 26 0 Disszertáció Thesis 28 0 Egyéb Miscellaneous 29 0 Alkotás Achievement 22 0 Kutatási adat Research data 33 0 Folyóiratcikk Journal Article 24 0 0 0 Könyvrészlet Chapter in Book 25 0 0 0 Könyv Book 23 0 0 0 Egyéb konferenciaközlemény Conference paper 31 0 0 0 Egyéb konferenciakötet Conference proceedings 32 0 0 0 Oltalmi formák Protection forms 26 0 0 0 Disszertáció Thesis 28 0 0 0 Egyéb Miscellaneous 29 0 0 0 Alkotás Achievement 22 0 0 0 Kutatási adat Research data 33 0 0 0 2024 0 1 0 1 0 2025 0 1 1 1 1 D1 false 10000249 false false false 2023-10-08T10:45:19.071+0000 Akadémikus bibliográfia; Enzimológiai Intézet (TTK); Élettani Intézet (SE / AOK / I) 3 17 3 5 0 true 10014568 Language 10002 /api/language/10002 Angol Angol English true 2 true PersonAuthorship 110167179 /api/authorship/110167179 Cserző, Miklós [Cserző, Miklós (Fehérjék molekulá...), szerző] Enzimológiai Intézet (TTK); Élettani Intézet (SE / AOK / I) 1 0.2 true false false Author 10015497 /api/author/10015497 Cserző Miklós (Fehérjék molekuláris modellezése) Cserző Miklós true 10015497 true Cserző Miklós true false false AuthorshipType 1 /api/authorshiptype/1 Szerző 0 true 0 true false true PersonAuthorship 110167180 /api/authorship/110167180 Eisenhaber, Birgit 2 0.2 false false false Eisenhaber Birgit true false false AuthorshipType 1 /api/authorshiptype/1 Szerző 0 true 0 true false true PersonAuthorship 110167181 /api/authorship/110167181 Eisenhaber, Frank 3 0.2 false false false Eisenhaber Frank true false false AuthorshipType 1 /api/authorshiptype/1 Szerző 0 true 0 true false true PersonAuthorship 110167182 /api/authorship/110167182 Magyar, Csaba [Magyar, Csaba (Fehérjék szerkeze...), szerző] Enzimológiai Intézet (TTK) 4 0.2 false false false Author 10000064 /api/author/10000064 Magyar Csaba (Fehérjék szerkezeti stabilitása, szerkezet alapú hatóanyag tervezés) Magyar Csaba true 10000064 true Magyar Csaba true false false AuthorshipType 1 /api/authorshiptype/1 Szerző 0 true 0 true false true PersonAuthorship 110167183 /api/authorship/110167183 Simon, István ✉ [Simon, István (biofizika, biokém...), szerző] Enzimológiai Intézet (TTK) 5 0.2 false true true Author 10000249 /api/author/10000249 Simon István (biofizika, biokémia, bioinformatika) Simon István true 10000249 true Simon István true false false AuthorshipType 1 /api/authorshiptype/1 Szerző 0 true 0 true false true Institute 19040 /api/institute/19040 Akadémikus bibliográfia [2016-] 0 false false true Akadémikus bibliográfia Bibliografy of Hungarian of Academy of Sciences' academicians true 19040 true PublicationIdentifier 24453857 /api/publicationidentifier/24453857 DOI: 10.3390/ijms241814016 PlainSource 6 /api/publicationsource/6 DOI PublicationSourceType 10001 /api/publicationsourcetype/10001 DOI true true true DOI DOI https://doi.org/@@@ true true 6 true IDENTICAL 10.3390/ijms241814016 https://doi.org/10.3390/ijms241814016 false true PublicationIdentifier 25461739 /api/publicationidentifier/25461739 WoS: 001145293600001 PlainSource 1 /api/publicationsource/1 WoS PublicationSourceType 10003 /api/publicationsourcetype/10003 Indexelő adatbázis false true true WoS WoS https://www.webofscience.com/wos/woscc/full-record/@@@ true true 1 true IDENTICAL 001145293600001 https://www.webofscience.com/wos/woscc/full-record/001145293600001 true true PublicationIdentifier 24481319 /api/publicationidentifier/24481319 Scopus: 85172928896 PlainSource 3 /api/publicationsource/3 Scopus PublicationSourceType 10003 /api/publicationsourcetype/10003 Indexelő adatbázis false true true Scopus Scopus http://www.scopus.com/record/display.url?origin=inward&eid=2-s2.0-@@@ true true 3 true IDENTICAL 85172928896 http://www.scopus.com/record/display.url?origin=inward&eid=2-s2.0-85172928896 true true PublicationIdentifier 24481331 /api/publicationidentifier/24481331 PubMed: 37762320 PlainSource 17 /api/publicationsource/17 PubMed PublicationSourceType 10003 /api/publicationsourcetype/10003 Indexelő adatbázis false true true PubMed PubMed http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=@@@&dopt=Abstract true true 17 true IDENTICAL 37762320 http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=37762320&dopt=Abstract true true SjrRating 11388415 /api/sjrrating/11388415 sjr:D1 (2023) Scopus - Inorganic Chemistry INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 1661-6596 1422-0067 7 0.1 journal RatingType 10002 /api/ratingtype/10002 sjr sjr true true ClassificationExternal 1604 /api/classificationexternal/1604 Scopus - Inorganic Chemistry true 1604 true D1 DIRECT true true Reference 45625582 /api/reference/45625582 1. 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(2023) INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 1661-6596 1422-0067 24 18<div class="JournalArticle Publication long-list"> <div class="authors"> <img title="Forrásközlemény" style="float: left" src="/frontend/resources/grid/publication-core-icon.png"> <img title="Idézőközlemény" style="float: left" src="/frontend/resources/grid/publication-citation-icon.png"> <div class="autype autype0"> <span class="author-name" mtid="10015497"><a href="/gui2/?type=authors&mode=browse&sel=10015497" target="_blank">Cserző Miklós (<span class="authorship-author-name">Cserző Miklós</span> <span class="authorAux-mtmt"> Fehérjék molekuláris modellezése</span>) </a> </span> <span class="author-affil"><span title="Természettudományi Kutatóközpont">TTK</span>/Enzimológiai Intézet; <span title="Semmelweis Egyetem">SE</span>/<span title="Általános Orvostudományi Kar">AOK</span>/<span title="Intézet">I</span>/Élettani Intézet</span> ;    <span class="author-name" >Eisenhaber Birgit </span> ;    <span class="author-name" >Eisenhaber Frank </span> ;    <span class="author-name" mtid="10000064"><a href="/gui2/?type=authors&mode=browse&sel=10000064" target="_blank">Magyar Csaba (<span class="authorship-author-name">Magyar Csaba</span> <span class="authorAux-mtmt"> Fehérjék szerkezeti stabilitása, szerkezet alap...</span>) </a> </span> <span class="author-affil"><span title="Természettudományi Kutatóközpont">TTK</span>/Enzimológiai Intézet</span> ;    <span class="author-name" mtid="10000249"><a href="/gui2/?type=authors&mode=browse&sel=10000249" target="_blank">Simon István ✉ (<span class="authorship-author-name">Simon István</span> <span class="authorAux-mtmt"> biofizika, biokémia, bioinformatika</span>) </a> </span> <span class="author-affil"><span title="Természettudományi Kutatóközpont">TTK</span>/Enzimológiai Intézet</span> </div> </div> <div class="title"><a href="/gui2/?mode=browse&params=publication;34173459" target="_blank">The First Quarter Century of the Dense Alignment Surface Transmembrane Prediction Method</a></div> <div> <span class="journal-title">INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES</span> <span class="journal-issn">(<a target="_blank" href="https://portal.issn.org/resource/ISSN/1661-6596">1661-6596</a> <a target="_blank" href="https://portal.issn.org/resource/ISSN/1422-0067">1422-0067</a>)</span>: <span class="journal-volume">24</span> <span class="journal-issue">18</span> <span class="page"> Paper 14016. 9 p. </span> <span class="year">(2023)</span> </div> <div class="pub-footer"> <span class="language" xmlns="http://www.w3.org/1999/html">Nyelv: Angol | </span> <span class="identifiers"> <span class="id identifier oa_none" title="none"> <a style="color:blue" title="10.3390/ijms241814016" target="_blank" href="https://doi.org/10.3390/ijms241814016"> DOI </a> </span> <span class="id identifier oa_none" title="none"> <a style="color:blue" title="001145293600001" target="_blank" href="https://www.webofscience.com/wos/woscc/full-record/001145293600001"> WoS </a> </span> <span class="id identifier oa_none" title="none"> <a style="color:blue" title="85172928896" target="_blank" href="http://www.scopus.com/record/display.url?origin=inward&eid=2-s2.0-85172928896"> Scopus </a> </span> <span class="id identifier oa_none" title="none"> <a style="color:blue" title="37762320" target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=37762320&dopt=Abstract"> PubMed </a> </span> </span> <OnlyViewableByAuthor><div class="ratings"> <div class="journal-subject">Folyóirat szakterülete: Scopus - Inorganic Chemistry   SJR indikátor: D1</div> <div class="journal-subject">Folyóirat szakterülete: Scopus - Organic Chemistry   SJR indikátor: D1</div> <div class="journal-subject">Folyóirat szakterülete: Scopus - Spectroscopy   SJR indikátor: D1</div> <div class="journal-subject">Folyóirat szakterülete: Scopus - Computer Science Applications   SJR indikátor: Q1</div> <div class="journal-subject">Folyóirat szakterülete: Scopus - Medicine (miscellaneous)   SJR indikátor: Q1</div> <div class="journal-subject">Folyóirat szakterülete: Scopus - Physical and Theoretical Chemistry   SJR indikátor: Q1</div> <div class="journal-subject">Folyóirat szakterülete: Scopus - Catalysis   SJR indikátor: Q2</div> <div class="journal-subject">Folyóirat szakterülete: Scopus - Molecular Biology   SJR indikátor: Q2</div> </div></OnlyViewableByAuthor> <div class="publication-citation" style="margin-left: 0.5cm;"> <span title="Nyilvános idézőközlemények összesen, említések nélkül" class="citingPub-count">Nyilvános idéző összesen: 2</span> | Független: 1 | Függő: 1 | Nem jelölt: 0 | WoS jelölt: 2 | Scopus jelölt: 1 | WoS/Scopus jelölt: 2 | DOI jelölt: 2 </div> <div class="publication-citation"> <a target="_blank" href="/api/publication?cond=citations.related;eq;34173459&sort=publishedYear,desc&sort=title"> Idézett közlemények száma: 5 </a> </div> <div class="mtid"><span class="long-pub-mtid">Közlemény: 34173459</span> | <span class="status-data status-VALIDATED"> Egyeztetett </span> Forrás Idéző | <span class="type-subtype">Folyóiratcikk ( Szakcikk ) </span> | <span class="pub-category">Tudományos</span> | <span class="publication-sourceOfData">kézi felvitel</span> </div> <div class="special-affiliations"> Speciális affiliáció: Akadémikus bibliográfia </div> <div class="lastModified">Utolsó módosítás: 2026.04.22. 23:06 Pécsi Éva (MTMT Közp 2,3, admin) </div> <div class="lockedBy">Központi kezelésű 2024.04.04. 12:41 Vándor Andrea (VA, admin) </div> </div></div>