{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,5]],"date-time":"2026-10-05T16:01:09Z","timestamp":1791216069009,"version":"4.1.0"},"reference-count":77,"publisher":"Springer Science and Business Media LLC","issue":"2","license":[{"start":{"date-parts":[[2012,1,15]],"date-time":"2012-01-15T00:00:00Z","timestamp":1326585600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-sa\/3.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Nat Genet"],"published-print":{"date-parts":[[2012,2]]},"DOI":"10.1038\/ng.1065","type":"journal-article","created":{"date-parts":[[2012,1,13]],"date-time":"2012-01-13T07:41:08Z","timestamp":1326440468000},"page":"221-225","source":"Crossref","is-referenced-by-count":384,"title":["Whole-genome sequence of Schistosoma haematobium"],"prefix":"10.1038","volume":"44","author":[{"given":"Neil D","family":"Young","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aaron R","family":"Jex","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bo","family":"Li","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shiping","family":"Liu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Linfeng","family":"Yang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zijun","family":"Xiong","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yingrui","family":"Li","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cinzia","family":"Cantacessi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ross S","family":"Hall","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xun","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fangyuan","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xuan","family":"Wu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adhemar","family":"Zerlotini","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guilherme","family":"Oliveira","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andreas","family":"Hofmann","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guojie","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaodong","family":"Fang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yi","family":"Kang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bronwyn E","family":"Campbell","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alex","family":"Loukas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shoba","family":"Ranganathan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Rollinson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gabriel","family":"Rinaldi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paul J","family":"Brindley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Huanming","family":"Yang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jun","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jian","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robin B","family":"Gasser","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2012,1,15]]},"reference":[{"key":"BFng1065_CR1","doi-asserted-by":"publisher","first-page":"1593","DOI":"10.1017\/S0031182009990552","volume":"136","author":"D Rollinson","year":"2009","unstructured":"Rollinson, D. A wake up call for urinary schistosomiasis: reconciling research effort with public health importance. Parasitology 136, 1593\u20131610 (2009).","journal-title":"Parasitology"},{"key":"BFng1065_CR2","doi-asserted-by":"publisher","first-page":"659","DOI":"10.1097\/QCO.0b013e328318978f","volume":"21","author":"MJ Doenhoff","year":"2008","unstructured":"Doenhoff, M.J., Cioli, D. & Utzinger, J. Praziquantel: mechanisms of action, resistance and new derivatives for schistosomiasis. Curr. Opin. Infect. Dis. 21, 659\u2013667 (2008).","journal-title":"Curr. Opin. Infect. Dis."},{"key":"BFng1065_CR3","doi-asserted-by":"publisher","first-page":"321","DOI":"10.1016\/S1470-2045(09)70096-8","volume":"10","author":"V Bouvard","year":"2009","unstructured":"Bouvard, V. et al. A review of human carcinogens\u2014Part B: biological agents. Lancet Oncol. 10, 321\u2013322 (2009).","journal-title":"Lancet Oncol."},{"key":"BFng1065_CR4","doi-asserted-by":"publisher","first-page":"e430","DOI":"10.1371\/journal.pntd.0000430","volume":"3","author":"PJ Hotez","year":"2009","unstructured":"Hotez, P.J., Fenwick, A. & Kjetland, E.F. Africa's 32 cents solution for HIV\/AIDS. PLoS Negl. Trop. Dis. 3, e430 (2009).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR5","doi-asserted-by":"publisher","first-page":"593","DOI":"10.1097\/01.aids.0000210614.45212.0a","volume":"20","author":"EF Kjetland","year":"2006","unstructured":"Kjetland, E.F. et al. Association between genital schistosomiasis and HIV in rural Zimbabwean women. AIDS 20, 593\u2013600 (2006).","journal-title":"AIDS"},{"key":"BFng1065_CR6","doi-asserted-by":"publisher","first-page":"1106","DOI":"10.1016\/S0140-6736(06)69440-3","volume":"368","author":"B Gryseels","year":"2006","unstructured":"Gryseels, B., Polman, K., Clerinx, J. & Kestens, L. Human schistosomiasis. Lancet 368, 1106\u20131118 (2006).","journal-title":"Lancet"},{"key":"BFng1065_CR7","doi-asserted-by":"publisher","first-page":"145","DOI":"10.1097\/01.idc.0000269904.90155.ce","volume":"15","author":"E Palumbo","year":"2007","unstructured":"Palumbo, E. Association between schistosomiasis and cancer: a review. Infect. Dis. Clin. Prac. 15, 145\u2013148 (2007).","journal-title":"Infect. Dis. Clin. Prac."},{"key":"BFng1065_CR8","doi-asserted-by":"publisher","first-page":"352","DOI":"10.1038\/nature08160","volume":"460","author":"M Berriman","year":"2009","unstructured":"Berriman, M. et al. The genome of the blood fluke Schistosoma mansoni. Nature 460, 352\u2013358 (2009).","journal-title":"Nature"},{"key":"BFng1065_CR9","doi-asserted-by":"crossref","unstructured":"The Schistosoma japonicum Genome Sequencing and Functional Analysis Consortium. The Schistosoma japonicum genome reveals features of host-parasite interplay. Nature 460, 345\u2013351 (2009).","DOI":"10.1038\/nature08140"},{"key":"BFng1065_CR10","doi-asserted-by":"publisher","first-page":"53","DOI":"10.1038\/nature07517","volume":"456","author":"DR Bentley","year":"2008","unstructured":"Bentley, D.R. et al. Accurate whole human genome sequencing using reversible terminator chemistry. Nature 456, 53\u201359 (2008).","journal-title":"Nature"},{"key":"BFng1065_CR11","doi-asserted-by":"publisher","first-page":"e71","DOI":"10.1093\/nar\/gnh069","volume":"32","author":"JG Paez","year":"2004","unstructured":"Paez, J.G. et al. Genome coverage and sequence fidelity of \u03c629 polymerase-based multiple strand displacement whole genome amplification. Nucleic Acids Res. 32, e71 (2004).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR12","doi-asserted-by":"publisher","first-page":"81","DOI":"10.1016\/j.molbiopara.2009.02.010","volume":"166","author":"CL Valentim","year":"2009","unstructured":"Valentim, C.L., LoVerde, P.T., Anderson, T.J. & Criscione, C.D. Efficient genotyping of Schistosoma mansoni miracidia following whole genome amplification. Mol. Biochem. Parasitol. 166, 81\u201384 (2009).","journal-title":"Mol. Biochem. Parasitol."},{"key":"BFng1065_CR13","doi-asserted-by":"publisher","first-page":"1236","DOI":"10.1074\/mcp.M800538-MCP200","volume":"8","author":"F Liu","year":"2009","unstructured":"Liu, F. et al. Excretory\/secretory proteome of the adult developmental stage of human blood fluke, Schistosoma japonicum. Mol. Cell. Proteomics 8, 1236\u20131251 (2009).","journal-title":"Mol. Cell. Proteomics"},{"key":"BFng1065_CR14","doi-asserted-by":"publisher","first-page":"617","DOI":"10.1016\/j.ijpara.2009.10.014","volume":"40","author":"W Mathieson","year":"2010","unstructured":"Mathieson, W. & Wilson, R.A. A comparative proteomic study of the undeveloped and developed Schistosoma mansoni egg and its contents: the miracidium, hatch fluid and secretions. Int. J. Parasitol. 40, 617\u2013628 (2010).","journal-title":"Int. J. Parasitol."},{"key":"BFng1065_CR15","doi-asserted-by":"publisher","first-page":"947","DOI":"10.1016\/j.ijpara.2006.03.005","volume":"36","author":"BL Webster","year":"2006","unstructured":"Webster, B.L., Southgate, V.R. & Littlewood, D.T. A revision of the interrelationships of Schistosoma including the recently described Schistosoma guineensis. Int. J. Parasitol. 36, 947\u2013955 (2006).","journal-title":"Int. J. Parasitol."},{"key":"BFng1065_CR16","doi-asserted-by":"publisher","first-page":"273","DOI":"10.2307\/3275488","volume":"46","author":"RB Short","year":"1960","unstructured":"Short, R.B. & Menzel, M.Y. Chromosomes of nine species of schistosomes. J. Parasitol. 46, 273\u2013287 (1960).","journal-title":"J. Parasitol."},{"key":"BFng1065_CR17","doi-asserted-by":"publisher","first-page":"R71","DOI":"10.1186\/gb-2009-10-6-r71","volume":"10","author":"CD Criscione","year":"2009","unstructured":"Criscione, C.D., Valentim, C.L., Hirai, H., Loverde, P.T. & Anderson, T.J. Genomic linkage map of the human blood fluke Schistosoma mansoni. Genome Biol. 10, R71 (2009).","journal-title":"Genome Biol."},{"key":"BFng1065_CR18","doi-asserted-by":"publisher","first-page":"e543","DOI":"10.1371\/journal.pntd.0000543","volume":"3","author":"JM Fitzpatrick","year":"2009","unstructured":"Fitzpatrick, J.M. et al. Anti-schistosomal intervention targets identified by lifecycle transcriptomic analyses. PLoS Negl. Trop. Dis. 3, e543 (2009).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR19","doi-asserted-by":"publisher","first-page":"128","DOI":"10.1186\/1471-2164-10-128","volume":"10","author":"GN Gobert","year":"2009","unstructured":"Gobert, G.N., Moertel, L., Brindley, P.J. & McManus, D.P. Developmental gene expression profiles of the human pathogen Schistosoma japonicum. BMC Genomics 10, 128 (2009).","journal-title":"BMC Genomics"},{"key":"BFng1065_CR20","doi-asserted-by":"publisher","first-page":"6023","DOI":"10.4049\/jimmunol.178.10.6023","volume":"178","author":"G Schramm","year":"2007","unstructured":"Schramm, G. et al. Cutting edge: IPSE\/alpha-1, a glycoprotein from Schistosoma mansoni eggs, induces IgE-dependent, antigen-independent IL-4 production by murine basophils in vivo. J. Immunol. 178, 6023\u20136027 (2007).","journal-title":"J. Immunol."},{"key":"BFng1065_CR21","doi-asserted-by":"publisher","first-page":"e4413","DOI":"10.1371\/journal.pone.0004413","volume":"4","author":"CR Caffrey","year":"2009","unstructured":"Caffrey, C.R. et al. A comparative chemogenomics strategy to predict potential drug targets in the metazoan pathogen, Schistosoma mansoni. PLoS ONE 4, e4413 (2009).","journal-title":"PLoS ONE"},{"key":"BFng1065_CR22","doi-asserted-by":"publisher","first-page":"375","DOI":"10.1038\/nri2992","volume":"11","author":"JE Allen","year":"2011","unstructured":"Allen, J.E. & Maizels, R.M. Diversity and dialogue in immunity to helminths. Nat. Rev. Immunol. 11, 375\u2013388 (2011).","journal-title":"Nat. Rev. Immunol."},{"key":"BFng1065_CR23","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.molbiopara.2009.04.008","volume":"167","author":"JP Hewitson","year":"2009","unstructured":"Hewitson, J.P., Grainger, J.R. & Maizels, R.M. Helminth immunoregulation: the role of parasite secreted proteins in modulating host immunity. Mol. Biochem. Parasitol. 167, 1\u201311 (2009).","journal-title":"Mol. Biochem. Parasitol."},{"key":"BFng1065_CR24","doi-asserted-by":"publisher","first-page":"84","DOI":"10.4161\/viru.1.2.10487","volume":"1","author":"MC Botelho","year":"2010","unstructured":"Botelho, M.C., Machado, J.C. & Correia da Costa, J.M. Schistosoma haematobium and bladder cancer: what lies beneath? Virulence 1, 84\u201387 (2010).","journal-title":"Virulence"},{"key":"BFng1065_CR25","doi-asserted-by":"publisher","first-page":"1515","DOI":"10.1016\/j.jprot.2011.03.022","volume":"74","author":"S Verjovski-Almeida","year":"2011","unstructured":"Verjovski-Almeida, S. & DeMarco, R. Gene structure and splicing in schistosomes. J. Proteomics 74, 1515\u20131518 (2011).","journal-title":"J. Proteomics"},{"key":"BFng1065_CR26","doi-asserted-by":"publisher","first-page":"424","DOI":"10.1038\/ncomms1433","volume":"2","author":"KK Geyer","year":"2011","unstructured":"Geyer, K.K. et al. Cytosine methylation regulates oviposition in the pathogenic blood fluke Schistosoma mansoni. Nat. Commun. 2, 424 (2011).","journal-title":"Nat. Commun."},{"key":"BFng1065_CR27","doi-asserted-by":"publisher","first-page":"96","DOI":"10.1016\/j.ygeno.2011.05.007","volume":"98","author":"M de Souza Gomes","year":"2011","unstructured":"de Souza Gomes, M., Muniyappa, M.K., Carvalho, S.G., Guerra-Sa, R. & Spillane, C. Genome-wide identification of novel microRNAs and their target genes in the human parasite Schistosoma mansoni. Genomics 98, 96\u2013111 (2011).","journal-title":"Genomics"},{"key":"BFng1065_CR28","doi-asserted-by":"publisher","first-page":"e538","DOI":"10.1371\/journal.pntd.0000538","volume":"3","author":"PJ Brindley","year":"2009","unstructured":"Brindley, P.J., Mitreva, M., Ghedin, E. & Lustigman, S. Helminth genomics: The implications for human health. PLoS Negl. Trop. Dis. 3, e538 (2009).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR29","doi-asserted-by":"publisher","first-page":"451","DOI":"10.1017\/S0031182009991211","volume":"137","author":"VH Mann","year":"2010","unstructured":"Mann, V.H., Morales, M.E., Rinaldi, G. & Brindley, P.J. Culture for genetic manipulation of developmental stages of Schistosoma mansoni. Parasitology 137, 451\u2013462 (2010).","journal-title":"Parasitology"},{"key":"BFng1065_CR30","doi-asserted-by":"publisher","first-page":"e1348","DOI":"10.1371\/journal.pntd.0001348","volume":"5","author":"G Rinaldi","year":"2011","unstructured":"Rinaldi, G. et al. Genetic manipulation of Schistosoma haematobium, the neglected schistosome. PLoS Negl. Trop. Dis. 5, e1348 (2011).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR31","doi-asserted-by":"publisher","first-page":"e267","DOI":"10.1371\/journal.pntd.0000267","volume":"2","author":"FA Lewis","year":"2008","unstructured":"Lewis, F.A., Liang, Y.S., Raghavan, N. & Knight, M. The NIH-NIAID schistosomiasis resource center. PLoS Negl. Trop. Dis. 2, e267 (2008).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR32","doi-asserted-by":"publisher","first-page":"222","DOI":"10.1016\/j.biotechadv.2009.12.003","volume":"28","author":"ND Young","year":"2010","unstructured":"Young, N.D., Hall, R.S., Jex, A.J., Cantacessi, C. & Gasser, R.B. Elucidating the transcriptome of Fasciola hepatica\u2014a key to fundamental and biotechnological discoveries for a neglected parasite. Biotechnol. Adv. 28, 222\u2013231 (2010).","journal-title":"Biotechnol. Adv."},{"key":"BFng1065_CR33","doi-asserted-by":"publisher","first-page":"29","DOI":"10.1017\/S0031182097001091","volume":"115","author":"JP Dalton","year":"1997","unstructured":"Dalton, J.P., Day, S.R., Drew, A.C. & Brindley, P.J. A method for the isolation of schistosome eggs and miracidia free of contaminating host tissues. Parasitology 115, 29\u201332 (1997).","journal-title":"Parasitology"},{"key":"BFng1065_CR34","doi-asserted-by":"publisher","first-page":"243","DOI":"10.1016\/0166-6851(89)90172-2","volume":"36","author":"PJ Brindley","year":"1989","unstructured":"Brindley, P.J., Lewis, F.A., McCutchan, T.F., Bueding, E. & Sher, A. A genomic change associated with the development of resistance to hycanthone in Schistosoma mansoni. Mol. Biochem. Parasitol. 36, 243\u2013252 (1989).","journal-title":"Mol. Biochem. Parasitol."},{"key":"BFng1065_CR35","doi-asserted-by":"publisher","first-page":"311","DOI":"10.1038\/nature08696","volume":"463","author":"R Li","year":"2010","unstructured":"Li, R. et al. The sequence and de novo assembly of the giant panda genome. Nature 463, 311\u2013317 (2010).","journal-title":"Nature"},{"key":"BFng1065_CR36","doi-asserted-by":"publisher","first-page":"265","DOI":"10.1101\/gr.097261.109","volume":"20","author":"R Li","year":"2010","unstructured":"Li, R. et al. De novo assembly of human genomes with massively parallel short read sequencing. Genome Res. 20, 265\u2013272 (2010).","journal-title":"Genome Res."},{"key":"BFng1065_CR37","doi-asserted-by":"publisher","first-page":"1966","DOI":"10.1093\/bioinformatics\/btp336","volume":"25","author":"R Li","year":"2009","unstructured":"Li, R. et al. SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 25, 1966\u20131967 (2009).","journal-title":"Bioinformatics"},{"key":"BFng1065_CR38","doi-asserted-by":"publisher","first-page":"e23590","DOI":"10.1371\/journal.pone.0023590","volume":"6","author":"C Cantacessi","year":"2011","unstructured":"Cantacessi, C. et al. The transcriptome of Trichuris suis\u2014first molecular insights into a parasite with curative properties for key immune diseases of humans. PLoS ONE 6, e23590 (2011).","journal-title":"PLoS ONE"},{"key":"BFng1065_CR39","doi-asserted-by":"publisher","first-page":"529","DOI":"10.1038\/nature10553","volume":"479","author":"AR Jex","year":"2011","unstructured":"Jex, A.R. et al. Ascaris suum draft genome. Nature 479, 529\u2013533 (2011).","journal-title":"Nature"},{"key":"BFng1065_CR40","doi-asserted-by":"publisher","first-page":"783","DOI":"10.1016\/j.jmb.2004.05.028","volume":"340","author":"JD Dyrl\u00f8v Bendtsen","year":"2004","unstructured":"Dyrl\u00f8v Bendtsen, J.D., Nielsen, H., von Heijne, G. & Brunak, S. Improved prediction of signal peptides: SignalP 3.0. J. Mol. Biol. 340, 783\u2013795 (2004).","journal-title":"J. Mol. Biol."},{"key":"BFng1065_CR41","doi-asserted-by":"publisher","first-page":"567","DOI":"10.1006\/jmbi.2000.4315","volume":"305","author":"A Krogh","year":"2001","unstructured":"Krogh, A., Larsson, B., von Heijne, G. & Sonnhammer, E.L. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305, 567\u2013580 (2001).","journal-title":"J. Mol. Biol."},{"key":"BFng1065_CR42","doi-asserted-by":"publisher","first-page":"3389","DOI":"10.1093\/nar\/25.17.3389","volume":"25","author":"SF Altschul","year":"1997","unstructured":"Altschul, S.F. et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389\u20133402 (1997).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR43","doi-asserted-by":"publisher","first-page":"D169","DOI":"10.1093\/nar\/gki093","volume":"33","author":"Y Chen","year":"2005","unstructured":"Chen, Y. et al. SPD\u2013a web-based secreted protein database. Nucleic Acids Res. 33, D169\u2013D173 (2005).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR44","doi-asserted-by":"publisher","first-page":"e1000192","DOI":"10.1371\/journal.ppat.1000192","volume":"4","author":"SP Bellafiore","year":"2008","unstructured":"Bellafiore, S.P. et al. Direct identification of the Meloidogyne incognita secretome reveals proteins with host cell reprogramming potential. PLoS Pathog. 4, e1000192 (2008).","journal-title":"PLoS Pathog."},{"key":"BFng1065_CR45","doi-asserted-by":"publisher","first-page":"84","DOI":"10.1016\/j.molbiopara.2007.06.002","volume":"155","author":"CL Cass","year":"2007","unstructured":"Cass, C.L. et al. Proteomic analysis of Schistosoma mansoni egg secretions. Mol. Biochem. Parasitol. 155, 84\u201393 (2007).","journal-title":"Mol. Biochem. Parasitol."},{"key":"BFng1065_CR46","doi-asserted-by":"publisher","first-page":"32","DOI":"10.1016\/j.molbiopara.2008.11.005","volume":"164","author":"X-J Wu","year":"2009","unstructured":"Wu, X.-J. Proteomic analysis of Schistosoma mansoni proteins released during in vitro miracidium-to-sporocyst transformation. Mol. Biochem. Parasitol. 164, 32\u201344 (2009).","journal-title":"Mol. Biochem. Parasitol."},{"key":"BFng1065_CR47","doi-asserted-by":"publisher","first-page":"8","DOI":"10.1016\/j.molbiopara.2008.02.007","volume":"160","author":"JP Hewitson","year":"2008","unstructured":"Hewitson, J.P. et al. The secretome of the filarial parasite, Brugia malayi: proteomic profile of adult excretory-secretory products. Mol. Biochem. Parasitol. 160, 8\u201321 (2008).","journal-title":"Mol. Biochem. Parasitol."},{"key":"BFng1065_CR48","doi-asserted-by":"publisher","first-page":"e410","DOI":"10.1371\/journal.pntd.0000410","volume":"3","author":"S Bennuru","year":"2009","unstructured":"Bennuru, S. et al. Brugia malayi excreted\/secreted proteins at the host\/parasite interface: stage- and gender-specific proteomic profiling. PLoS Negl. Trop. Dis. 3, e410 (2009).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR49","doi-asserted-by":"crossref","first-page":"1063","DOI":"10.1002\/pmic.200900393","volume":"10","author":"J Mulvenna","year":"2010","unstructured":"Mulvenna, J. et al. The secreted and surface proteomes of the adult stage of the carcinogenic human liver fluke Opisthorchis viverrini. Proteomics 10, 1063\u20131078 (2010).","journal-title":"Proteomics"},{"key":"BFng1065_CR50","doi-asserted-by":"publisher","first-page":"1891","DOI":"10.1074\/mcp.M900045-MCP200","volume":"8","author":"MW Robinson","year":"2009","unstructured":"Robinson, M.W., Menon, R., Donnelly, S.M., Dalton, J.P. & Ranganathan, S. An integrated transcriptomics and proteomics analysis of the secretome of the helminth pathogen Fasciola hepatica: proteins associated with invasion and infection of the mammalian host. Mol. Cell Proteomics 8, 1891\u20131907 (2009).","journal-title":"Mol. Cell Proteomics"},{"key":"BFng1065_CR51","doi-asserted-by":"publisher","first-page":"W36","DOI":"10.1093\/nar\/gki410","volume":"33","author":"K Bryson","year":"2005","unstructured":"Bryson, K. et al. Protein structure prediction servers at University College London. Nucleic Acids Res. 33, W36\u2013W38 (2005).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR52","doi-asserted-by":"publisher","first-page":"1761","DOI":"10.1093\/bioinformatics\/btp302","volume":"25","author":"A Lobley","year":"2009","unstructured":"Lobley, A., Sadowski, M.I. & Jones, D.T. pGenTHREADER and pDomTHREADER: new methods for improved protein fold recognition and superfamily discrimination. Bioinformatics 25, 1761\u20131767 (2009).","journal-title":"Bioinformatics"},{"key":"BFng1065_CR53","doi-asserted-by":"publisher","first-page":"539","DOI":"10.1016\/j.tig.2008.08.009","volume":"24","author":"A Kuzniar","year":"2008","unstructured":"Kuzniar, A., van Ham, R.C.H.J., Pongor, S.N. & Leunissen, J.A.M. The quest for orthologs: finding the corresponding gene across genomes. Trends Genet. 24, 539\u2013551 (2008).","journal-title":"Trends Genet."},{"key":"BFng1065_CR54","doi-asserted-by":"publisher","first-page":"e719","DOI":"10.1371\/journal.pntd.0000719","volume":"4","author":"ND Young","year":"2010","unstructured":"Young, N.D. et al. Unlocking the transcriptomes of two carcinogenic parasites, Clonorchis sinensis and Opisthorchis viverrini. PLoS Negl. Trop. Dis. 4, e719 (2010).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR55","doi-asserted-by":"publisher","first-page":"e1004","DOI":"10.1371\/journal.pntd.0001004","volume":"5","author":"ND Young","year":"2011","unstructured":"Young, N.D. et al. A portrait of the transcriptome of the neglected trematode, Fasciola gigantica\u2014biological and biotechnological implications. PLoS Negl. Trop. Dis. 5, e1004 (2011).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR56","doi-asserted-by":"crossref","first-page":"573","DOI":"10.1093\/nar\/27.2.573","volume":"27","author":"G Benson","year":"1999","unstructured":"Benson, G. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 27, 573\u2013580 (1999).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR57","doi-asserted-by":"publisher","first-page":"621","DOI":"10.1038\/nmeth.1226","volume":"5","author":"A Mortazavi","year":"2008","unstructured":"Mortazavi, A., Williams, B.A., McCue, K., Schaeffer, L. & Wold, B. Mapping and quantifying mammalian transcriptomes by RNA-seq. Nat. Methods 5, 621\u2013628 (2008).","journal-title":"Nat. Methods"},{"key":"BFng1065_CR58","doi-asserted-by":"publisher","first-page":"986","DOI":"10.1101\/gr.7.10.986","volume":"7","author":"S Audic","year":"1997","unstructured":"Audic, S. & Claverie, J.M. The significance of digital gene expression profiles. Genome Res. 7, 986\u2013995 (1997).","journal-title":"Genome Res."},{"key":"BFng1065_CR59","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","volume":"57","author":"Y Benjamini","year":"1995","unstructured":"Benjamini, Y. & Hochberg, Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. Roy. Stat. Soc. B Met. 57, 289\u2013300 (1995).","journal-title":"J. Roy. Stat. Soc. B Met."},{"key":"BFng1065_CR60","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.molbiopara.2005.01.007","volume":"141","author":"JM Fitzpatrick","year":"2005","unstructured":"Fitzpatrick, J.M. et al. An oligonucleotide microarray for transcriptome analysis of Schistosoma mansoni and its application\/use to investigate gender-associated gene expression. Mol. Biochem. Parasitol. 141, 1\u201313 (2005).","journal-title":"Mol. Biochem. Parasitol."},{"key":"BFng1065_CR61","doi-asserted-by":"crossref","unstructured":"The Schistosoma japonicum Genome Sequencing and Functional Analysis Consortium. The Schistosoma japonicum genome reveals features of host-parasite interplay. Nature 460, 345\u2013351 (2009).","DOI":"10.1038\/nature08140"},{"key":"BFng1065_CR62","doi-asserted-by":"publisher","first-page":"D599","DOI":"10.1093\/nar\/gkm684","volume":"36","author":"SM Robb","year":"2008","unstructured":"Robb, S.M., Ross, E. & Sanchez Alvarado, A. SmedGD: the Schmidtea mediterranea genome database. Nucleic Acids Res. 36, D599\u2013D606 (2008).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR63","doi-asserted-by":"publisher","first-page":"205","DOI":"10.1006\/jmbi.2000.4042","volume":"302","author":"C Notredame","year":"2000","unstructured":"Notredame, C., Higgins, D.G. & Heringa, J. T-coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol. 302, 205\u2013217 (2000).","journal-title":"J. Mol. Biol."},{"key":"BFng1065_CR64","doi-asserted-by":"publisher","first-page":"1115","DOI":"10.1016\/j.ympev.2010.04.024","volume":"56","author":"P K\u00fcck","year":"2010","unstructured":"K\u00fcck, P. & Meusemann, K. FASconCAT: convenient handling of data matrices. Mol. Phylogenet. Evol. 56, 1115\u20131118 (2010).","journal-title":"Mol. Phylogenet. Evol."},{"key":"BFng1065_CR65","doi-asserted-by":"publisher","first-page":"783","DOI":"10.1111\/j.1558-5646.1985.tb00420.x","volume":"39","author":"J Felsenstein","year":"1985","unstructured":"Felsenstein, J. Confidence-limits on phylogenies\u2014an approach using the bootstrap. Evolution 39, 783\u2013791 (1985).","journal-title":"Evolution"},{"key":"BFng1065_CR66","doi-asserted-by":"publisher","first-page":"1572","DOI":"10.1093\/bioinformatics\/btg180","volume":"19","author":"F Ronquist","year":"2003","unstructured":"Ronquist, F. & Huelsenbeck, J.P. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19, 1572\u20131574 (2003).","journal-title":"Bioinformatics"},{"key":"BFng1065_CR67","doi-asserted-by":"publisher","first-page":"2104","DOI":"10.1093\/bioinformatics\/bti263","volume":"21","author":"F Abascal","year":"2005","unstructured":"Abascal, F., Zardoya, R. & Posada, D. ProtTest: selection of best-fit models of protein evolution. Bioinformatics 21, 2104\u20132105 (2005).","journal-title":"Bioinformatics"},{"key":"BFng1065_CR68","doi-asserted-by":"publisher","first-page":"1481","DOI":"10.1126\/science.1123287","volume":"311","author":"W Zhong","year":"2006","unstructured":"Zhong, W. & Sternberg, P.W. Genome-wide prediction of Caenorhabditis elegans genetic interactions. Science 311, 1481\u20131484 (2006).","journal-title":"Science"},{"key":"BFng1065_CR69","doi-asserted-by":"publisher","first-page":"e171","DOI":"10.1093\/nar\/gkq667","volume":"38","author":"C Cantacessi","year":"2010","unstructured":"Cantacessi, C. et al. A practical, bioinformatic workflow system for large data sets generated by next-generation sequencing. Nucleic Acids Res. 38, e171 (2010).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR70","doi-asserted-by":"publisher","first-page":"e684","DOI":"10.1371\/journal.pntd.0000684","volume":"4","author":"C Cantacessi","year":"2010","unstructured":"Cantacessi, C. et al. Massively parallel sequencing and analysis of the Necator americanus transcriptome. PLoS Negl. Trop. Dis. 4, e684 (2010).","journal-title":"PLoS Negl. Trop. Dis."},{"key":"BFng1065_CR71","doi-asserted-by":"publisher","first-page":"222","DOI":"10.1186\/1471-2164-11-222","volume":"11","author":"MA Doyle","year":"2010","unstructured":"Doyle, M.A., Gasser, R.B., Woodcroft, B.J., Hall, R.S. & Ralph, S.A. Drug target prediction and prioritization: using orthology to predict essentiality in parasite genomes. BMC Genomics 11, 222 (2010).","journal-title":"BMC Genomics"},{"key":"BFng1065_CR72","doi-asserted-by":"publisher","first-page":"D555","DOI":"10.1093\/nar\/gkn788","volume":"37","author":"S Tweedie","year":"2009","unstructured":"Tweedie, S. et al. FlyBase: enhancing Drosophila Gene Ontology annotations. Nucleic Acids Res. 37, D555\u2013D559 (2009).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR73","doi-asserted-by":"publisher","first-page":"D463","DOI":"10.1093\/nar\/gkp952","volume":"38","author":"TW Harris","year":"2010","unstructured":"Harris, T.W. et al. WormBase: a comprehensive resource for nematode research. Nucleic Acids Res. 38, D463\u2013D467 (2010).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR74","doi-asserted-by":"publisher","first-page":"D724","DOI":"10.1093\/nar\/gkm961","volume":"36","author":"CJ Bult","year":"2008","unstructured":"Bult, C.J., Eppig, J.T., Kadin, J.A., Richardson, J.E. & Blake, J.A. The Mouse Genome Database (MGD): mouse biology and model systems. Nucleic Acids Res. 36, D724\u2013D728 (2008).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR75","doi-asserted-by":"publisher","first-page":"195","DOI":"10.1007\/s10822-009-9260-9","volume":"23","author":"W Warr","year":"2009","unstructured":"Warr, W. ChEMBL. An interview with John Overington, team leader, chemogenomics at the European Bioinformatics Institute Outstation of the European Molecular Biology Laboratory (EMBL-EBI). J. Comput. Aided Mol. Des. 23, 195\u2013198 (2009).","journal-title":"J. Comput. Aided Mol. Des."},{"key":"BFng1065_CR76","doi-asserted-by":"publisher","first-page":"D1035","DOI":"10.1093\/nar\/gkq1126","volume":"39","author":"C Knox","year":"2011","unstructured":"Knox, C. et al. DrugBank 3.0: a comprehensive resource for 'omics' research on drugs. Nucleic Acids Res. 39, D1035\u2013D1041 (2011).","journal-title":"Nucleic Acids Res."},{"key":"BFng1065_CR77","doi-asserted-by":"publisher","first-page":"876","DOI":"10.1016\/S1359-6446(03)02831-9","volume":"8","author":"M Congreve","year":"2003","unstructured":"Congreve, M., Carr, R., Murray, C. & Jhoti, H. A 'rule of three' for fragment-based lead discovery? Drug Discov. Today 8, 876\u2013877 (2003).","journal-title":"Drug Discov. Today"}],"container-title":["Nature Genetics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/www.nature.com\/articles\/ng.1065.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/ng.1065","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/ng.1065.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,3,18]],"date-time":"2025-03-18T19:28:22Z","timestamp":1742326102000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/ng.1065"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,1,15]]},"references-count":77,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2012,2]]}},"alternative-id":["BFng1065"],"URL":"https:\/\/doi.org\/10.1038\/ng.1065","relation":{},"ISSN":["1061-4036","1546-1718"],"issn-type":[{"value":"1061-4036","type":"print"},{"value":"1546-1718","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012,1,15]]}}}