{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,29]],"date-time":"2026-08-29T05:04:46Z","timestamp":1787979886597,"version":"build-2784847793"},"reference-count":59,"publisher":"SAGE Publications","issue":"1","license":[{"start":{"date-parts":[[2022,2,1]],"date-time":"2022-02-01T00:00:00Z","timestamp":1643673600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.sagepub.com\/page\/policies\/text-and-data-mining-license"}],"content-domain":{"domain":["journals.sagepub.com"],"crossmark-restriction":true},"short-container-title":["The CRISPR Journal"],"published-print":{"date-parts":[[2022,2,1]]},"abstract":"<jats:p>\n                    Functional characterization of the multitude of poorly described proteins in the human malarial pathogen,\n                    <jats:italic toggle=\"yes\">Plasmodium falciparum<\/jats:italic>\n                    , requires tools to enable genome-scale perturbation studies. Here, we present GeneTargeter (\n                    <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/genetargeter.mit.edu\">genetargeter.mit.edu<\/jats:ext-link>\n                    ), a software tool for automating the design of homology-directed repair donor vectors to achieve gene knockouts, conditional knockdowns, and epitope tagging of\n                    <jats:italic toggle=\"yes\">P. falciparum<\/jats:italic>\n                    genes. We demonstrate GeneTargeter-facilitated genome-scale design of six different types of knockout and conditional knockdown constructs for the\n                    <jats:italic toggle=\"yes\">P. falciparum<\/jats:italic>\n                    genome and validate the computational design process experimentally with successful donor vector assembly and transfection. The software's modular nature accommodates arbitrary destination vectors and allows customizable designs that extend the genome manipulation outcomes attainable in\n                    <jats:italic toggle=\"yes\">Plasmodium<\/jats:italic>\n                    and other organisms.\n                  <\/jats:p>","DOI":"10.1089\/crispr.2021.0069","type":"journal-article","created":{"date-parts":[[2022,2,22]],"date-time":"2022-02-22T10:08:59Z","timestamp":1645524539000},"page":"155-164","update-policy":"https:\/\/doi.org\/10.1177\/sage-journals-update-policy","source":"Crossref","is-referenced-by-count":6,"title":["GeneTargeter: Automated\n                    <i>In Silico<\/i>\n                    Design for Genome Editing in the Malaria Parasite,\n                    <i>Plasmodium falciparum<\/i>"],"prefix":"10.1177","volume":"5","author":[{"given":"Pablo","family":"C\u00e1rdenas","sequence":"first","affiliation":[{"name":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lisl Y.","family":"Esherick","sequence":"additional","affiliation":[{"name":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ga\u00ebl","family":"Chambonnier","sequence":"additional","affiliation":[{"name":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sumanta","family":"Dey","sequence":"additional","affiliation":[{"name":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christopher V.","family":"Turlo","sequence":"additional","affiliation":[{"name":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Armiyaw Sebastian","family":"Nasamu","sequence":"additional","affiliation":[{"name":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jacquin C.","family":"Niles","sequence":"additional","affiliation":[{"name":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA."},{"name":"Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"179","published-online":{"date-parts":[[2022,2,22]]},"reference":[{"key":"e_1_3_5_2_2","volume-title":"World Malaria Report 2021","author":"World Health Organization","year":"2020","unstructured":"World Health Organization. World Malaria Report 2021. Geneva: World Health Organization, 2020."},{"key":"e_1_3_5_3_2","volume-title":"The Potential Impact of Health Service Disruptions on the Burden of","author":"World Health Organization","year":"2020","unstructured":"World Health Organization. The Potential Impact of Health Service Disruptions on the Burden of. Malaria: A Modelling Analysis for Countries in sub-Saharan Africa. Geneva: World Health Organization, 2020."},{"key":"e_1_3_5_4_2","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMc0805011"},{"key":"e_1_3_5_5_2","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMoa1314981"},{"key":"e_1_3_5_6_2","doi-asserted-by":"publisher","DOI":"10.1038\/srep20100"},{"key":"e_1_3_5_7_2","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(15)00525-3"},{"key":"e_1_3_5_8_2","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(17)30524-8"},{"key":"e_1_3_5_9_2","doi-asserted-by":"publisher","DOI":"10.1051\/parasite\/2010174273"},{"key":"e_1_3_5_10_2","doi-asserted-by":"publisher","DOI":"10.1111\/jeu.12176"},{"key":"e_1_3_5_11_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2017.06.030"},{"key":"e_1_3_5_12_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.aap7847"},{"key":"e_1_3_5_13_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn814"},{"key":"e_1_3_5_14_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1009442"},{"key":"e_1_3_5_15_2","doi-asserted-by":"publisher","DOI":"10.1111\/mmi.12206"},{"key":"e_1_3_5_16_2","doi-asserted-by":"publisher","DOI":"10.1038\/srep21800"},{"key":"e_1_3_5_17_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.4223"},{"key":"e_1_3_5_18_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0073783"},{"key":"e_1_3_5_19_2","doi-asserted-by":"publisher","DOI":"10.1038\/ncomms6329"},{"key":"e_1_3_5_20_2","doi-asserted-by":"publisher","DOI":"10.1038\/ncomms10727"},{"key":"e_1_3_5_21_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-020-77644-4"},{"key":"e_1_3_5_22_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth1132"},{"key":"e_1_3_5_23_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1018449108"},{"key":"e_1_3_5_24_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.3063"},{"key":"e_1_3_5_25_2","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.2925"},{"key":"e_1_3_5_26_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gku1143"},{"key":"e_1_3_5_27_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.1742"},{"key":"e_1_3_5_28_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2014.09.029"},{"key":"e_1_3_5_29_2","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-017-1581-4"},{"key":"e_1_3_5_30_2","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.3437"},{"key":"e_1_3_5_31_2","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.2647"},{"key":"e_1_3_5_32_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.1318"},{"key":"e_1_3_5_33_2","doi-asserted-by":"publisher","DOI":"10.26508\/lsa.201900626"},{"key":"e_1_3_5_34_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.4104"},{"key":"e_1_3_5_35_2","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-017-1793-7"},{"key":"e_1_3_5_36_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature26155"},{"key":"e_1_3_5_37_2","doi-asserted-by":"publisher","DOI":"10.1128\/msphere.00457-20"},{"key":"e_1_3_5_38_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2016.08.019"},{"key":"e_1_3_5_39_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.aan1478"},{"key":"e_1_3_5_40_2","doi-asserted-by":"publisher","DOI":"10.1111\/cmi.12719"},{"key":"e_1_3_5_41_2","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.29865"},{"key":"e_1_3_5_42_2","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.RA118.002552"},{"key":"e_1_3_5_43_2","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.02021-17"},{"key":"e_1_3_5_44_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.2005895"},{"key":"e_1_3_5_45_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41564-018-0222-7"},{"key":"e_1_3_5_46_2","doi-asserted-by":"publisher","DOI":"10.1021\/acsinfecdis.8b00277"},{"key":"e_1_3_5_47_2","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.40529"},{"key":"e_1_3_5_48_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-10214-z"},{"key":"e_1_3_5_49_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.3000136"},{"key":"e_1_3_5_50_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-020-2220-1"},{"key":"e_1_3_5_51_2","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.RA120.012646"},{"key":"e_1_3_5_52_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1919501117"},{"key":"e_1_3_5_53_2","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.50807"},{"key":"e_1_3_5_54_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-020-70246-0"},{"key":"e_1_3_5_55_2","doi-asserted-by":"publisher","DOI":"10.1111\/cmi.13168"},{"key":"e_1_3_5_56_2","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.03078-19"},{"key":"e_1_3_5_57_2","article-title":"Oligomerization of the antimalarial drug target PfATP4 is essential for parasite survival","author":"Ramanathan AA","unstructured":"Ramanathan AA, , Morrisey JM, , Daly TM, et al. Oligomerization of the antimalarial drug target PfATP4 is essential for parasite survival. bioRxiv DOI: 10.1101\/2019.12.12.874826.","journal-title":"bioRxiv"},{"key":"e_1_3_5_58_2","doi-asserted-by":"publisher","DOI":"10.1128\/mSphere.00710-18"},{"key":"e_1_3_5_59_2","article-title":"A druggable oxidative folding pathway in the endoplasmic reticulum of human malaria parasites","author":"Cobb DW","unstructured":"Cobb DW, , Kudyba HM, , Villegas A, et al. A druggable oxidative folding pathway in the endoplasmic reticulum of human malaria parasites. bioRxiv DOI: 10.1101\/2020.05.13.093591.","journal-title":"bioRxiv"},{"key":"e_1_3_5_60_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0100450"}],"container-title":["The CRISPR Journal"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.sagepub.com\/doi\/full-xml\/10.1089\/crispr.2021.0069","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.1089\/crispr.2021.0069","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.1089\/crispr.2021.0069","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,5,1]],"date-time":"2026-05-01T13:59:34Z","timestamp":1777643974000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.sagepub.com\/doi\/10.1089\/crispr.2021.0069"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,2,1]]},"references-count":59,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2022,2,1]]}},"alternative-id":["10.1089\/crispr.2021.0069"],"URL":"https:\/\/doi.org\/10.1089\/crispr.2021.0069","relation":{"has-preprint":[{"id-type":"doi","id":"10.21203\/rs.3.rs-565539\/v1","asserted-by":"object"}]},"ISSN":["2573-1599","2573-1602"],"issn-type":[{"value":"2573-1599","type":"print"},{"value":"2573-1602","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,2,1]]}}}