{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,12]],"date-time":"2026-05-12T18:50:55Z","timestamp":1778611855571,"version":"3.51.4"},"reference-count":63,"publisher":"Springer Science and Business Media LLC","issue":"S6","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2009,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n          <jats:sec>\n            <jats:title>Background<\/jats:title>\n            <jats:p>The Distributed Annotation System (DAS) is a widely used network protocol for sharing biological information. The distributed aspects of the protocol enable the use of various reference and annotation servers for connecting biological sequence data to pertinent annotations in order to depict an integrated view of the data for the final user.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>An annotation server has been devised to provide information about the endogenous retroviruses detected and annotated by a specialized <jats:italic>in silico<\/jats:italic> tool called RetroTector. We describe the procedure to implement the DAS 1.5 protocol commands necessary for constructing the DAS annotation server. We use our server to exemplify those steps. Data distribution is kept separated from visualization which is carried out by eBioX, an easy to use open source program incorporating multiple bioinformatics utilities. Some well characterized endogenous retroviruses are shown in two different DAS clients. A rapid analysis of areas free from retroviral insertions could be facilitated by our annotations.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusion<\/jats:title>\n            <jats:p>The DAS protocol has shown to be advantageous in the distribution of endogenous retrovirus data. The distributed nature of the protocol is also found to aid in combining annotation and visualization along a genome in order to enhance the understanding of ERV contribution to its evolution. Reference and annotation servers are conjointly used by eBioX to provide visualization of ERV annotations as well as other data sources. Our DAS data source can be found in the central public DAS service repository, <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" xlink:href=\"http:\/\/www.dasregistry.org\" ext-link-type=\"uri\">http:\/\/www.dasregistry.org<\/jats:ext-link>, or at <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" xlink:href=\"http:\/\/loka.bmc.uu.se\/das\/sources\" ext-link-type=\"uri\">http:\/\/loka.bmc.uu.se\/das\/sources<\/jats:ext-link>.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1471-2105-10-s6-s18","type":"journal-article","created":{"date-parts":[[2009,6,16]],"date-time":"2009-06-16T18:15:46Z","timestamp":1245176146000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":21,"title":["Annotation and visualization of endogenous retroviral sequences using the Distributed Annotation System (DAS) and eBioX"],"prefix":"10.1186","volume":"10","author":[{"given":"\u00c1lvaro","family":"Mart\u00ednez Barrio","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Erik","family":"Lagercrantz","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"G\u00f6ran O","family":"Sperber","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jonas","family":"Blomberg","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Erik","family":"Bongcam-Rudloff","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2009,6,16]]},"reference":[{"key":"3313_CR1","doi-asserted-by":"publisher","first-page":"7","DOI":"10.1186\/1471-2105-2-7","volume":"2","author":"RD Dowell","year":"2001","unstructured":"Dowell RD, Jokerst RM, Day A, Eddy SR, Stein L: The Distributed Annotation System. BMC Bioinformatics 2001, 2: 7\u20137. 10.1186\/1471-2105-2-7","journal-title":"BMC Bioinformatics"},{"key":"3313_CR2","unstructured":"Lincoln D (Ed): Distributed Annotation System (DAS) Version 1.53In Stein, Sean Eddy, Robin Dowell; [http:\/\/www.biodas.org\/documents\/spec.html]"},{"key":"3313_CR3","unstructured":"The BioSapiens project homepage[http:\/\/www.biodas.org]"},{"key":"3313_CR4","unstructured":"ENFIN:: a European Network of Excellence for Data Integration and Systems Biology[http:\/\/www.enfin.org\/page.php?page=home]"},{"key":"3313_CR5","unstructured":"EMBRACE Network of Excellence[http:\/\/www.embracegrid.info\/]"},{"key":"3313_CR6","unstructured":"The Open-Bio DAS homepage[http:\/\/www.biodas.org]"},{"key":"3313_CR7","volume-title":"Nucleic Acids Res","author":"TJP Hubbard","year":"2007","unstructured":"Hubbard TJP, Aken BL, Beal K, Ballester B, Caccamo M, Chen Y, Clarke L, Coates G, Cunningham F, Cutts T, Down T, Dyer SC, Fitzgerald S, Fernandez-Banet J, Graf S, Haider S, Hammond M, Herrero J, Holland R, Howe K, Howe K, Johnson N, Kahari A, Keefe D, Kokocinski F, Kulesha E, Lawson D, Longden I, Melsopp C, Megy K, Meidl P, Ouverdin B, Parker A, Prlic A, Rice S, Rios D, Schuster M, Sealy I, Severin J, Slater G, Smedley D, Spudich G, Trevanion S, Vilella A, Vogel J, White S, Wood M, Cox T, Curwen V, Durbin R, Fernandez-Suarez XM, Flicek P, Kasprzyk A, Proctor G, Searle S, Smith J, Ureta-Vidal A, Birney E: Ensembl 2007. Nucleic Acids Res 2007, (35 Database):D610\u20137. 10.1093\/nar\/gkl996"},{"key":"3313_CR8","first-page":"D612","volume-title":"Nucleic Acids Res","author":"A Rogers","year":"2008","unstructured":"Rogers A, Antoshechkin I, Bieri T, Blasiar D, Bastiani C, Canaran P, Chan J, Chen WJ, Davis P, Fernandes J, Fiedler TJ, Han M, Harris TW, Kishore R, Lee R, McKay S, M\u00fcller HM, Nakamura C, Ozersky P, Petcherski A, Schindelman G, Schwarz EM, Spooner W, Tuli MA, Van Auken K, Wang D, Wang X, Williams G, Yook K, Durbin R, Stein LD, Spieth J, Sternberg PW: WormBase 2007. Nucleic Acids Res 2008, (36 Database):D612\u20137."},{"key":"3313_CR9","doi-asserted-by":"publisher","first-page":"1599","DOI":"10.1101\/gr.403602","volume":"12","author":"LD Stein","year":"2002","unstructured":"Stein LD, Mungall C, Shu S, Caudy M, Mangone M, Day A, Nickerson E, Stajich JE, Harris TW, Arva A, Lewis S: The generic genome browser: a building block for a model organism system database. Genome Res 2002, 12: 1599\u2013610. 10.1101\/gr.403602","journal-title":"Genome Res"},{"key":"3313_CR10","unstructured":"GenoViz. Tools for Genomics Data Visualization[http:\/\/genoviz.sourceforge.net\/]"},{"key":"3313_CR11","unstructured":"OmniGene BioInformatics Page[http:\/\/omnigene.sourceforge.net\/index.shtml]"},{"issue":"18","key":"3313_CR12","doi-asserted-by":"publisher","first-page":"2096","DOI":"10.1093\/bioinformatics\/btn397","volume":"24","author":"RCG Holland","year":"2008","unstructured":"Holland RCG, Down TA, Pocock M, Prlic A, Huen D, James K, Foisy S, Dr\u00e4ger A, Yates A, Heuer M, Schreiber MJ: BioJava: an open-source framework for bioinformatics. Bioinformatics 2008, 24(18):2096\u20132097. 10.1093\/bioinformatics\/btn397","journal-title":"Bioinformatics"},{"issue":"10","key":"3313_CR13","doi-asserted-by":"publisher","first-page":"1611","DOI":"10.1101\/gr.361602","volume":"12","author":"JE Stajich","year":"2002","unstructured":"Stajich JE, Block D, Boulez K, Brenner SE, Chervitz SA, Dagdigian C, Fuellen G, Gilbert JG, Korf I, Lapp H, Lehv\u00e4slaiho H, Matsalla C, Mungall CJ, Osborne BI, Pocock MR, Schattner P, Senger M, Stein LD, Stupka E, Wilkinson MD, Birney E: The Bioperl toolkit: Perl modules for the life sciences. Genome Res 2002, 12(10):1611\u20138. 10.1101\/gr.361602","journal-title":"Genome Res"},{"key":"3313_CR14","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1186\/1471-2105-8-333","volume":"8","author":"A Prlic","year":"2007","unstructured":"Prlic A, Down TA, Kulesha E, Finn RD, Kahari A, Hubbard TPJ: Integrating sequence and structural biology with DAS. BMC Bioinformatics 2007, 8: 333\u2013342. 10.1186\/1471-2105-8-333","journal-title":"BMC Bioinformatics"},{"key":"3313_CR15","unstructured":"DAS registration server \u2013 Distributed Annotation System[http:\/\/www.dasregistry.org\/]"},{"key":"3313_CR16","unstructured":"DAS version 1.53 Extended[http:\/\/www.dasregistry.org\/spec_1.53E.jsp]"},{"issue":"Suppl 8","key":"3313_CR17","doi-asserted-by":"publisher","first-page":"S3","DOI":"10.1186\/1471-2105-9-S8-S3","volume":"9","author":"AM Jenkinson","year":"2008","unstructured":"Jenkinson AM, Albrecht M, Birney E, Blankenburg H, Down T, Finn RD, Hermjakob H, Hubbard TJ, Jimenez RC, Jones P, K\u00e4h\u00e4ri A, Kulesha E, Mac\u00edas JR, Reeves GA, Prlic A: Integrating biological data \u2013 the Distributed Annotation System. BMC Bioinformatics 2008, 9(Suppl 8):S3. 10.1186\/1471-2105-9-S8-S3","journal-title":"BMC Bioinformatics"},{"key":"3313_CR18","unstructured":"Help on coordinate systems[http:\/\/www.dasregistry.org\/help_coordsys.jsp]"},{"issue":"18","key":"3313_CR19","doi-asserted-by":"publisher","first-page":"2119","DOI":"10.1093\/bioinformatics\/btn387","volume":"24","author":"RC Jimenez","year":"2008","unstructured":"Jimenez RC, Quinn AF, Garcia A, Labarga A, O'Neill K, Martinez F, Salazar GA, Hermjakob H: Dasty2, an Ajax protein DAS client. Bioinformatics 2008, 24(18):2119\u201321. 10.1093\/bioinformatics\/btn387","journal-title":"Bioinformatics"},{"issue":"Suppl 2","key":"3313_CR20","doi-asserted-by":"publisher","first-page":"ii40","DOI":"10.1093\/bioinformatics\/bti1106","volume":"21","author":"A Prli\u0107","year":"2005","unstructured":"Prli\u0107 A, Down TA, Hubbard TJ: Adding some SPICE to DAS. Bioinformatics 2005, 21(Suppl 2):ii40\u201341. 10.1093\/bioinformatics\/bti1106","journal-title":"Bioinformatics"},{"key":"3313_CR21","unstructured":"About Proview[http:\/\/www.efamily.org.uk\/software\/dasclients\/proview\/]"},{"key":"3313_CR22","first-page":"W468","volume-title":"Nucleic Acids Research","author":"PI \u00d3lason","year":"2005","unstructured":"\u00d3lason PI: Integrating protein annotation resources through the Distributed Annotation System. Nucleic Acids Research 2005, (33 Web Server):W468-W470. 10.1093\/nar\/gki463"},{"key":"3313_CR23","doi-asserted-by":"publisher","first-page":"426","DOI":"10.1093\/bioinformatics\/btg430","volume":"20","author":"M Clamp","year":"2004","unstructured":"Clamp M, Cuff J, Searle SM, Barton GJ: The Jalview Java Alignment Editor. Bioinformatics 2004, 20: 426\u2013427. 10.1093\/bioinformatics\/btg430","journal-title":"Bioinformatics"},{"key":"3313_CR24","unstructured":"PeppeR \u2013 Graphical 3D-EM DAS Client[http:\/\/biocomp.cnb.uam.es\/das\/PeppeR\/]"},{"key":"3313_CR25","unstructured":"DASMIweb \u2013 dynamic online integration and annotation of molecular interaction data[http:\/\/dasmi.bioinf.mpi-inf.mpg.de\/]"},{"key":"3313_CR26","unstructured":"DAS Ontology extension[http:\/\/www.dasregistry.org\/extension_ontology.jsp]"},{"key":"3313_CR27","doi-asserted-by":"publisher","first-page":"860","DOI":"10.1038\/35057062","volume":"409","author":"Int Human Genome Sequencing Consort","year":"2001","unstructured":"Int Human Genome Sequencing Consort: Initial sequencing and analysis of the human genome. Nature 2001, 409: 860\u2013921. 10.1038\/35057062","journal-title":"Nature"},{"issue":"1","key":"3313_CR28","doi-asserted-by":"publisher","first-page":"251","DOI":"10.1023\/A:1006344508454","volume":"42","author":"JL Bennetzen","year":"2000","unstructured":"Bennetzen JL: Transposable element contributions to plant gene and genome evolution. Plant Mol Biol 2000, 42(1):251\u201369. 10.1023\/A:1006344508454","journal-title":"Plant Mol Biol"},{"issue":"3","key":"3313_CR29","doi-asserted-by":"publisher","first-page":"803","DOI":"10.1104\/pp.010745","volume":"128","author":"D Sandhu","year":"2002","unstructured":"Sandhu D, Gill KS: Gene-containing regions of wheat and the other grass genomes. Plant Physiol 2002, 128(3):803\u201311. 10.1104\/pp.010745","journal-title":"Plant Physiol"},{"key":"3313_CR30","doi-asserted-by":"publisher","first-page":"R914","DOI":"10.1016\/S0960-9822(01)00553-X","volume":"11","author":"JP Stoye","year":"2001","unstructured":"Stoye JP: Endogenous retroviruses: still active after all these years? Curr Biol 2001, 11: R914\u2013916. 10.1016\/S0960-9822(01)00553-X","journal-title":"Curr Biol"},{"key":"3313_CR31","doi-asserted-by":"publisher","first-page":"10712","DOI":"10.1128\/JVI.00410-07","volume":"81","author":"A Katzourakis","year":"2007","unstructured":"Katzourakis A, Pereira V, Tristem M: Effects of recombination rate on human endogenous retrovirus fixation and persistence. J Virol 2007, 81: 10712\u201310717. 10.1128\/JVI.00410-07","journal-title":"J Virol"},{"issue":"21","key":"3313_CR32","doi-asserted-by":"publisher","first-page":"3348","DOI":"10.1007\/s00018-008-8495-2","volume":"65","author":"V Blikstad","year":"2008","unstructured":"Blikstad V, Benachenhou F, Sperber GO, Blomberg J: Endogenous retroviruses: Evolution of human endogenous retroviral sequences: a conceptual account. Cell Mol Life Sci 2008, 65(21):3348\u201365. 10.1007\/s00018-008-8495-2","journal-title":"Cell Mol Life Sci"},{"issue":"13","key":"3313_CR33","doi-asserted-by":"publisher","first-page":"4040","DOI":"10.1093\/nar\/gki718","volume":"33","author":"K Han","year":"2005","unstructured":"Han K, Sen SK, Wang J, Callinan PA, Lee J, Cordaux R, Liang P, Batzer MA: Genomic rearrangements by LINE-1 insertion-mediated deletion in the human and chimpanzee lineages. Nucleic Acids Res 2005, 33(13):4040\u20134052. 10.1093\/nar\/gki718","journal-title":"Nucleic Acids Res"},{"key":"3313_CR34","doi-asserted-by":"publisher","first-page":"19","DOI":"10.1038\/ng0598-19","volume":"19","author":"HH Kazazian Jr","year":"1998","unstructured":"Kazazian HH Jr, Moran JV: The impact of L1 retrotransposons on the human genome. Nat Genet 1998, 19: 19\u201324. 10.1038\/ng0598-19","journal-title":"Nat Genet"},{"issue":"4","key":"3313_CR35","first-page":"257","volume":"52","author":"P Yu","year":"2008","unstructured":"Yu P, Zhang L, Li SF, Cheng JQ, Lu YR, Li YP, Bu H: Transmission of porcine endogenous retrovirus to human cells in nude mouse. Acta Virol 2008, 52(4):257\u201360.","journal-title":"Acta Virol"},{"issue":"47","key":"3313_CR36","doi-asserted-by":"publisher","first-page":"17608","DOI":"10.1073\/pnas.0603224103","volume":"103","author":"J Xing","year":"2006","unstructured":"Xing J, Wang H, Belancio VP, Cordaux R, Deininger PL, Batzer MA: Emergence of primate genes by retrotransposon-mediated sequence transduction. PNAS 2006, 103(47):17608\u201317613. 10.1073\/pnas.0603224103","journal-title":"PNAS"},{"issue":"6","key":"3313_CR37","doi-asserted-by":"publisher","first-page":"651","DOI":"10.1016\/j.gde.2003.10.013","volume":"13","author":"PL Deininger","year":"2003","unstructured":"Deininger PL, Moran JV, Batzer MA, Kazazian HH Jr: Mobile elements and mammalian genome evolution. Curr Opin Genet Dev 2003, 13(6):651\u20138. 10.1016\/j.gde.2003.10.013","journal-title":"Curr Opin Genet Dev"},{"key":"3313_CR38","doi-asserted-by":"publisher","first-page":"709","DOI":"10.1146\/annurev.genet.42.110807.091501","volume":"42","author":"P Jern","year":"2008","unstructured":"Jern P, Coffin JM: Effects of Retroviruses on Host Genome Function. Annu Rev Genet 2008, 42: 709\u2013732. 10.1146\/annurev.genet.42.110807.091501","journal-title":"Annu Rev Genet"},{"key":"3313_CR39","doi-asserted-by":"publisher","first-page":"1568","DOI":"10.1093\/bioinformatics\/btl650","volume":"23","author":"RD Finn","year":"2007","unstructured":"Finn RD, Stalker JW, Jackson DK, Kulesha E, Clements J, Pettett R: ProServer: a simple, extensible Perl DAS server. Bioinformatics 2007, 23: 1568\u20131570. 10.1093\/bioinformatics\/btl650","journal-title":"Bioinformatics"},{"key":"3313_CR40","unstructured":"ProServer DAS Server[http:\/\/www.sanger.ac.uk\/Software\/analysis\/proserver\/]"},{"key":"3313_CR41","unstructured":"Distributed Annotation System. Retrieving the Stylesheet[http:\/\/www.biodas.org\/documents\/spec.html#stylesheet]"},{"key":"3313_CR42","unstructured":"dasstyle.dtd[http:\/\/www.biodas.org\/dtd\/dasstyle.dtd]"},{"issue":"15","key":"3313_CR43","doi-asserted-by":"publisher","first-page":"4964","DOI":"10.1093\/nar\/gkm515","volume":"35","author":"GO Sperber","year":"2007","unstructured":"Sperber GO, Airola T, Jern P, Blomberg J: Automated recognition of retroviral sequences in genomic data \u2013 RetroTector. Nucleic Acids Res 2007, 35(15):4964\u201376. 10.1093\/nar\/gkm515","journal-title":"Nucleic Acids Res"},{"key":"3313_CR44","unstructured":"Custom annotation[http:\/\/www.ensembl.org\/info\/data\/ensembl_das.html]"},{"key":"3313_CR45","doi-asserted-by":"publisher","first-page":"470","DOI":"10.1186\/1471-2164-8-470","volume":"8","author":"C Simons","year":"2007","unstructured":"Simons C, Makunin IV, Pheasant M, Mattick JS: Maintenance of transposon-free regions throughout vertebrate evolution. BMC Genomics 2007, 8: 470. 10.1186\/1471-2164-8-470","journal-title":"BMC Genomics"},{"key":"3313_CR46","unstructured":"Maintenance of transposon-free regions throughout vertebrate evolution. Supplementary data[http:\/\/jsm-group.imb.uq.edu.au\/tfr07\/]"},{"key":"3313_CR47","doi-asserted-by":"publisher","first-page":"D50","DOI":"10.1093\/nar\/gkh075","volume":"32","author":"J Paces","year":"2004","unstructured":"Paces J, Pavlicek A, Zika R, Kapitonov VV, Jurka J, Paces V: HERVd: the Human Endogenous RetroViruses Database: update. Nucleic Acids Res 2004, 32: D50. 10.1093\/nar\/gkh075","journal-title":"Nucleic Acids Res"},{"key":"3313_CR48","unstructured":"RetroSearch: ERV database (Annotated HERV ORFs in the human genome)[http:\/\/www.daimi.au.dk\/~biopv\/herv\/]"},{"key":"3313_CR49","doi-asserted-by":"publisher","first-page":"32","DOI":"10.1186\/1742-4690-1-32","volume":"1","author":"P Villesen","year":"2004","unstructured":"Villesen P, Aagaard L, Wiuf C, Pedersen FS: Identification of endogenous retroviral reading frames in the human genome. Retrovirology 2004, 1: 32. 10.1186\/1742-4690-1-32","journal-title":"Retrovirology"},{"key":"3313_CR50","unstructured":"RepeatMasker Home Page[http:\/\/www.repeatmasker.org\/]"},{"key":"3313_CR51","first-page":"D755","volume-title":"Nucleic Acids Res","author":"RM Kuhn","year":"2009","unstructured":"Kuhn RM, Karolchik D, Zweig AS, Wang T, Smith KE, Rosenbloom KR, Rhead B, Raney BJ, Pohl A, Pheasant M, Meyer L, Hsu F, Hinrichs AS, Harte RA, Giardine B, Fujita P, Diekhans M, Dreszer T, Clawson H, Barber GP, Haussler D, Kent WJ: The UCSC Genome Browser Database: update 2009. Nucleic Acids Res 2009, (37 Database):D755\u201361. 10.1093\/nar\/gkn875"},{"key":"3313_CR52","doi-asserted-by":"publisher","first-page":"462","DOI":"10.1159\/000084979","volume":"110","author":"J Jurka","year":"2005","unstructured":"Jurka J, Kapitonov VV, Pavlicek A, Klonowski P, Kohany O, Walichiewicz J: Repbase Update, a database of eukaryotic repetitive elements. Cytogenet Genome Res 2005, 110: 462\u2013467. 10.1159\/000084979","journal-title":"Cytogenet Genome Res"},{"issue":"2","key":"3313_CR53","doi-asserted-by":"publisher","first-page":"205","DOI":"10.1016\/j.jsb.2007.02.004","volume":"158","author":"JR Mac\u00edas","year":"2007","unstructured":"Mac\u00edas JR, Jim\u00e9nez-Lozano N, Carazo JM: Integrating electron microscopy information into existing Distributed Annotation Systems. J Struct Biol 2007, 158(2):205\u2013213. 10.1016\/j.jsb.2007.02.004","journal-title":"J Struct Biol"},{"issue":"14","key":"3313_CR54","doi-asserted-by":"publisher","first-page":"3198","DOI":"10.1093\/bioinformatics\/bti506","volume":"21","author":"P Jones","year":"2005","unstructured":"Jones P, Vinod N, Down T, Hackmann A, Kahari A, Kretschmann E, Quinn A, Wieser D, Hermjakob H, Apweiler R: Dasty and UniProt DAS: a perfect pair for protein feature visualization. Bioinformatics 2005, 21(14):3198\u20133199. 10.1093\/bioinformatics\/bti506","journal-title":"Bioinformatics"},{"key":"3313_CR55","first-page":"193","volume-title":"Proceedings of the International Provenance and Annotation Workshop (IPAW'06)","author":"R Bose","year":"2006","unstructured":"Bose R, Mann R, Prina-Ricotti D: AstroDAS: Sharing Assertions across Astronomy Catalogues through Distributed Annotation. In Proceedings of the International Provenance and Annotation Workshop (IPAW'06). Volume 4145. Chicago, IL, USA, Lecture Notes in Computer Science (LNCS); 2006:193\u2013202."},{"key":"3313_CR56","unstructured":"DAS\/2 \u2013 BioDAS[http:\/\/www.biodas.org\/wiki\/DAS\/2]"},{"key":"3313_CR57","unstructured":"RFC 3920 \u2013 Extensible Messaging and Presence Protocol (XMPP): Core[http:\/\/tools.ietf.org\/html\/rfc3920]"},{"key":"3313_CR58","unstructured":"RFC 3921 \u2013 Extensible Messaging and Presence Protocol (XMPP): Instant Messaging and Presence[http:\/\/tools.ietf.org\/html\/rfc3921]"},{"key":"3313_CR59","unstructured":"D3.1.1 Report on Technology Survey[http:\/\/www.embracegrid.info\/files\/pub\/Deliverables\/D3.1.1_v2.0.doc]"},{"key":"3313_CR60","unstructured":"SOAP Message Transmission Optimization Mechanism[http:\/\/www.w3.org\/TR\/soap12-mtom\/]"},{"key":"3313_CR61","unstructured":"Dasobert DAS client library[http:\/\/www.spice-3d.org\/dasobert\/]"},{"key":"3313_CR62","unstructured":"XEP-0096: SI File Transfer[http:\/\/xmpp.org\/extensions\/xep-0096.html]"},{"key":"3313_CR63","unstructured":"XEP-0234: Jingle File Transfer[http:\/\/xmpp.org\/extensions\/xep-0234.html]"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-10-S6-S18.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,8,31]],"date-time":"2021-08-31T22:04:27Z","timestamp":1630447467000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-10-S6-S18"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2009,6]]},"references-count":63,"journal-issue":{"issue":"S6","published-print":{"date-parts":[[2009,6]]}},"alternative-id":["3313"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-10-s6-s18","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2009,6]]},"assertion":[{"value":"16 June 2009","order":1,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"S18"}}