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11. Human ApoE2 protects mice against Plasmodium berghei ANKA experimental cerebral malaria

Author

Liang, Rui, primary, Rao, Hengjun, additional, Pang, Qin, additional, Xu, Ruixue, additional, Jiao, Zhiwei, additional, Lin, Lirong, additional, Li, Li, additional, Zhong, Li, additional, Zhang, Yixin, additional, Guo, Yazhen, additional, Xiao, Nengming, additional, Liu, Shengfa, additional, Chen, Xiao-Fen, additional, Su, Xin-zhuan, additional, and Li, Jian, additional

Published
2023
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12. Dysfunction of CD169 + macrophages and blockage of erythrocyte maturation as a mechanism of anemia in Plasmodium yoelii infection

Author

Tumas, Keyla C., primary, Xu, Fangzheng, additional, Wu, Jian, additional, Hernandez, Maricarmen, additional, Pattaradilokrat, Sittiporn, additional, Xia, Lu, additional, Peng, Yu-chih, additional, Lavali, Angela Musu, additional, He, Xiao, additional, Singh, Brajesh K., additional, Zhang, Cui, additional, Percopo, Caroline, additional, Qi, Chen-Feng, additional, Huang, Suming, additional, Long, Carole A., additional, and Su, Xin-zhuan, additional

Published
2023
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13. Artemisinin resistance phenotypes and K13 inheritance in a Plasmodium falciparum cross and Aotus model

Author

Sá, Juliana M., Kaslow, Sarah R., Krause, Michael A., Melendez-Muniz, Viviana A., Salzman, Rebecca E., Kite, Whitney A., Zhang, Min, Barros, Roberto R. Moraes, Mu, Jianbing, Han, Paul K., Mershon, J. Patrick, Figan, Christine E., Caleon, Ramoncito L., Rahman, Rifat S., Gibson, Tyler J., Amaratunga, Chanaki, Nishiguchi, Erika P., Breglio, Kimberly F., Engels, Theresa M., Velmurugan, Soundarapandian, Ricklefs, Stacy, Straimer, Judith, Gnädig, Nina F., Deng, Bingbing, Liu, Anna, Diouf, Ababacar, Miura, Kazutoyo, Tullo, Gregory S., Eastman, Richard T., Chakravarty, Sumana, James, Eric R., Udenze, Kenneth, Li, Suzanne, Sturdevant, Daniel E., Gwadz, Robert W., Porcella, Stephen F., Long, Carole A., Fidock, David A., Thomas, Marvin L., Fay, Michael P., Sim, B. Kim Lee, Hoffman, Stephen L., Adams, John H., Fairhurst, Rick M., Su, Xin-zhuan, and Wellems, Thomas E.

Published
2018

14. Large-scale Artemisinin–Piperaquine Mass Drug Administration With or Without Primaquine Dramatically Reduces Malaria in a Highly Endemic Region of Africa

Author

Deng, Changsheng, Huang, Bo, Wang, Qi, Wu, Wanting, Zheng, Shaoqin, Zhang, Hongying, Li, Di, Feng, Danghong, Li, Guoming, Xue, Linlu, Yang, Tao, Tuo, Fei, Mohadji, Fouad, Su, Xin-zhuan, Xu, Qin, Wu, Zhibing, Lin, Li, Zhou, Jiuyao, Yan, Hong, Bacar, Affane, Abdallah, Kamal Said, Kéké, Rachadi A., Mliva, Ahamada Msa, Mohamed, Moussa, Wang, Xinhua, Huang, Shiguang, Oithik, Fatihou, Li, Xiao-bo, Lu, Fangli, Fay, Michael P., Liu, Xiao-hong, Wellems, Thomas E., and Song, Jianping

Published
2018

18. Genetic Diversity and Lack of Artemisinin Selection Signature on the Plasmodium falciparum ATP6 in the Greater Mekong Subregion

Author

Miao, Miao, Wang, Zenglei, Yang, Zhaoqing, Yuan, Lili, Parker, Daniel M, Putaporntip, Chaturong, Jongwutiwes, Somchai, Xangsayarath, Phonepadith, Pongvongsa, Tiengkham, Moji, Hazuhiko, Dinh Tuong, Trinh, Abe, Tomoko, Nakazawa, Shusuke, Kyaw, Myat Phone, Yan, Guiyun, Sirichaisinthop, Jeeraphat, Sattabongkot, Jetsumon, Mu, Jianbing, Su, Xin-zhuan, Kaneko, Osamu, Cui, Liwang, and Pinto, João

Subjects
Serca-Type Pfatpase6, In-Vitro, Dna Polymorphism, Point Mutations, Nucleotide Substitutions, Combination Therapies, Mitochondrial-Dna, Resistant Malaria, S769n Mutation, Artesunate
Published
2013

19. Pf7: an open dataset of Plasmodium falciparum genome variation in 20,000 worldwide samples

Author

Abdel Hamid, Muzamil Mahdi, Abdelraheem, Mohamed Hassan, Acheampong, Desmond Omane, Ahouidi, Ambroise, Ali, Mozam, Almagro-Garcia, Jacob, Amambua-Ngwa, Alfred, Amaratunga, Chanaki, Amenga-Etego, Lucas, Andagalu, Ben, Anderson, Tim, Andrianaranjaka, Voahangy, Aniebo, Ifeyinwa, Aninagyei, Enoch, Ansah, Felix, Ansah, Patrick, Apinjoh, Tobias, Arnaldo, Paulo, Ashley, Elizabeth, Auburn, Sarah, Awandare, Gordon, Ba, Hampate, Baraka, Vito, Barry, Alyssa, Bejon, Philip, Bertin, Gwladys, Boni, Maciej, Borrmann, Steffen, Bousema, Teun, Bouyou-Akotet, Marielle, Branch, Oralee, Bull, Peter, Cheah, Huch, Chindavongsa, Keobouphaphone, Chookajorn, Thanat, Chotivanich, Kesinee, Claessens, Antoine, Conway, David, Corredor, Vladimir, Courtier, Erin, Craig, Alister, d'Alessandro, Umberto, Dama, Souleymane, Day, Nicholas, Denis, Brigitte, Dhorda, Mehul, Diakite, Mahamadou, Djimde, Abdoulaye, Dolecek, Christiane, Dondorp, Arjen, Doumbia, Seydou, Drakeley, Chris, Drury, Eleanor, Duffy, Patrick, Echeverry, Diego, Egwang, Thomas, Enosse, Sonia Maria Mauricio, Erko, Berhanu, Fairhurst, Rick, Faiz, Abdul, Fanello, Caterina, Fleharty, Mark, Forbes, Matthew, Fukuda, Mark, Gamboa, Dionicia, Ghansah, Anita, Golassa, Lemu, Goncalves, Sonia, Harrison, G, Healy, Sara Anne, Hendry, Jason, Hernandez-Koutoucheva, Anastasia, Hien, Tran Tinh, Hill, Catherine, Hombhanje, Francis, Hott, Amanda, Htut, Ye, Hussein, Mazza, Imwong, Mallika, Ishengoma, Deus, Jackson, Scott, Jacob, Chris, Jeans, Julia, Johnson, Kimberly, Kamaliddin, Claire, Kamau, Edwin, Keatley, Jon, Kochakarn, Theerarat, Konate, Drissa, Konaté, Abibatou, Kone, Aminatou, Kwiatkowski, Dominic, Kyaw, Myat, Kyle, Dennis, Lawniczak, Mara, Lee, Samuel, Lemnge, Martha, Lim, Pharath, Lon, Chanthap, Loua, Kovana, Mandara, Celine, Marfurt, Jutta, Marsh, Kevin, Maude, Richard James, Mayxay, Mayfong, Maïga-Ascofaré, Oumou, Miotto, Olivo, Mita, Toshihiro, Mobegi, Victor, Mohamed, Abdelrahim Osman, Mokuolu, Olugbenga, Montgomery, Jaqui, Morang'A, Collins Misita, Mueller, Ivo, Murie, Kathryn, Newton, Paul, Ngo Duc, Thang, Nguyen, Thuy, Nguyen, Thuy-Nhien, Nguyen Thi Kim, Tuyen, Nguyen Van, Hong, Noedl, Harald, Nosten, François, Noviyanti, Rintis, Ntui, Vincent Ntui-Njock, Nzila, Alexis, Ochola-Oyier, Lynette Isabella, Ocholla, Harold, Oduro, Abraham, Omedo, Irene, Onyamboko, Marie, Ouedraogo, Jean-Bosco, Oyebola, Kolapo, Oyibo, Wellington Aghoghovwia, Pearson, Richard, Peshu, Norbert, Phyo, Aung, Plowe, Christopher, Price, Ric, Pukrittayakamee, Sasithon, Quang, Huynh Hong, Randrianarivelojosia, Milijaona, Rayner, Julian, Ringwald, Pascal, Rosanas-Urgell, Anna, Rovira-Vallbona, Eduard, Ruano-Rubio, Valentin, Ruiz, Lastenia, Saunders, David, Shayo, Alex, Siba, Peter, Simpson, Victoria, Sissoko, Mahamadou, Smith, Christen, Su, Xin-Zhuan, Sutherland, Colin, Takala-Harrison, Shannon, Talman, Arthur, Tavul, Livingstone, Thanh, Ngo Viet, Thathy, Vandana, Thu, Aung Myint, Toure, Mahamoudou, Tshefu, Antoinette, Verra, Federica, Vinetz, Joseph, Wellems, Thomas, Wendler, Jason, White, Nicholas, Whitton, Georgia, Yavo, William, van der Pluijm, Rob, MalariaGEN, University of Khartoum, University of Cape Coast [Ghana], Université Cheikh Anta Diop [Dakar, Sénégal] (UCAD), The Wellcome Trust Sanger Institute [Cambridge], London School of Hygiene and Tropical Medicine [Fajara, Gambia], London School of Hygiene and Tropical Medicine (LSHTM), National Institute of Allergy and Infectious Diseases [Bethesda] (NIAID-NIH), National Institutes of Health [Bethesda] (NIH), West African Centre for Cell Biology of Infectious Pathogens [Legon, Ghana] (WACCBIP), University of Ghana, Navrongo Health Research Centre [Navrongo, Ghana] (NHRC), Kenya Medical Research Institute (KEMRI), Texas Biomedical Research Institute [San Antonio, TX], Université d'Antananarivo, University of Buéa, Instituto Nacional de Saude [Maputo, Mozambique] (INS), Centre for Tropical Medicine and Global Health [Oxford, UK], Nuffield Department of Medicine [Oxford, UK] (Big Data Institute), University of Oxford-University of Oxford, Mahidol Oxford Tropical Medicine Research Unit (MORU), University of Oxford-Mahidol University [Bangkok]-Wellcome Trust, Menzies School of Health Research [Australia], Charles Darwin University [Australia], Nuffield Department of Clinical Medicine [Oxford], University of Oxford, Institut de Recherche pour le Développement (IRD), Laboratory of Pathogen and Host Immunity [Montpellier] (LPHI), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Maladies infectieuses et vecteurs : écologie, génétique, évolution et contrôle (MIVEGEC), and Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)

Subjects
data resource, lnfectious Diseases and Global Health Radboud Institute for Health Sciences [Radboudumc 4], plasmodium falciparum, genomics, malaria, Medicine (miscellaneous), genomic epidemiology, General Biochemistry, Genetics and Molecular Biology, [SDV.MHEP]Life Sciences [q-bio]/Human health and pathology
Abstract

Contains fulltext : 291985.pdf (Publisher’s version ) (Open Access) We describe the MalariaGEN Pf7 data resource, the seventh release of Plasmodium falciparum genome variation data from the MalariaGEN network. It comprises over 20,000 samples from 82 partner studies in 33 countries, including several malaria endemic regions that were previously underrepresented. For the first time we include dried blood spot samples that were sequenced after selective whole genome amplification, necessitating new methods to genotype copy number variations. We identify a large number of newly emerging crt mutations in parts of Southeast Asia, and show examples of heterogeneities in patterns of drug resistance within Africa and within the Indian subcontinent. We describe the profile of variations in the C-terminal of the csp gene and relate this to the sequence used in the RTS,S and R21 malaria vaccines. Pf7 provides high-quality data on genotype calls for 6 million SNPs and short indels, analysis of large deletions that cause failure of rapid diagnostic tests, and systematic characterisation of six major drug resistance loci, all of which can be freely downloaded from the MalariaGEN website.

Published
2023

20. Challenges and prospects for malaria elimination in the Greater Mekong Subregion

Author

Cui, Liwang, Yan, Guiyun, Sattabongkot, Jetsumon, Chen, Bin, Cao, Yaming, Fan, Qi, Parker, Daniel, Sirichaisinthop, Jeeraphat, Su, Xin-zhuan, Yang, Henglin, Yang, Zhaoqing, Wang, Baomin, and Zhou, Guofa

Subjects
Malaria, Rare Diseases, Vector-Borne Diseases, Infectious Diseases, Infection, Good Health and Well Being, Animals, Antimalarials, Artemisinins, Asia, Southeastern, Disease Eradication, Drug Resistance, Humans, Insect Vectors, Insecticides, Malaria, Falciparum, National Health Programs, Plasmodium falciparum, Research, Research Design, Workforce, The Greater Mekong Subregion, Epidemiology, Vector systems, Drug resistance, Counterfeit drugs, Biological Sciences, Medical and Health Sciences, Tropical Medicine
Abstract

Despite significant improvement in the malaria situation of the Greater Mekong Subregion (GMS), malaria control for the region continues to face a multitude of challenges. The extremely patchy malaria distribution, especially along international borders, makes disease surveillance and targeted control difficult. The vector systems are also diverse with dramatic differences in habitat ecology, biting behavior, and vectorial capacity, and there is a lack of effective transmission surveillance and control tools. Finally, in an era of heavy deployment of artemisinin-based combination therapies, the region acts as an epicenter of drug resistance, with the emergence of artemisinin resistant Plasmodium falciparum posing a threat to both regional and global malaria elimination campaigns. This problem is further exacerbated by the circulation of counterfeit and substandard artemisinin drugs. Accordingly, this Southeast Asian Malaria Research Center, consisting of a consortium of US and regional research institutions, has proposed four interlinked projects to address these most urgent problems in malaria control. The aims of these projects will help to substantially improve our understanding of malaria epidemiology, vector systems and their roles in malaria transmission, as well as the mechanisms of drug resistance in parasites. Through the training of next-generation scientists in malaria research, this program will help build up and strengthen regional research infrastructure and capacities, which are essential for sustained malaria control in this region.

Published
2012

21. Malaria in the Greater Mekong Subregion: heterogeneity and complexity.

Author

Cui, Liwang, Yan, Guiyun, Sattabongkot, Jetsumon, Cao, Yaming, Chen, Bin, Chen, Xiaoguang, Fan, Qi, Fang, Qiang, Jongwutiwes, Somchai, Parker, Daniel, Sirichaisinthop, Jeeraphat, Kyaw, Myat Phone, Su, Xin-zhuan, Yang, Henglin, Yang, Zhaoqing, Wang, Baomin, Xu, Jianwei, Zheng, Bin, Zhong, Daibin, and Zhou, Guofa

Subjects
Animals, Humans, Anopheles, Plasmodium, Malaria, Pyrethrins, Antimalarials, Insect Vectors, Mosquito Control, Drug Resistance, Multiple, Insecticide Resistance, International Cooperation, Asia, Southeastern, Insecticide-Treated Bednets, Disease Eradication, The Greater Mekong Subregion, Epidemiology, Anopheles vectors, Drug resistance, Border malaria, Elimination, Tropical Medicine, Medical and Health Sciences, Biological Sciences
Abstract

The Greater Mekong Subregion (GMS), comprised of six countries including Cambodia, China's Yunnan Province, Lao PDR, Myanmar (Burma), Thailand and Vietnam, is one of the most threatening foci of malaria. Since the initiation of the WHO's Mekong Malaria Program a decade ago, malaria situation in the GMS has greatly improved, reflected in the continuous decline in annual malaria incidence and deaths. However, as many nations are moving towards malaria elimination, the GMS nations still face great challenges. Malaria epidemiology in this region exhibits enormous geographical heterogeneity with Myanmar and Cambodia remaining high-burden countries. Within each country, malaria distribution is also patchy, exemplified by 'border malaria' and 'forest malaria' with high transmission occurring along international borders and in forests or forest fringes, respectively. 'Border malaria' is extremely difficult to monitor, and frequent malaria introductions by migratory human populations constitute a major threat to neighboring, malaria-eliminating countries. Therefore, coordination between neighboring countries is essential for malaria elimination from the entire region. In addition to these operational difficulties, malaria control in the GMS also encounters several technological challenges. Contemporary malaria control measures rely heavily on effective chemotherapy and insecticide control of vector mosquitoes. However, the spread of multidrug resistance and potential emergence of artemisinin resistance in Plasmodium falciparum make resistance management a high priority in the GMS. This situation is further worsened by the circulation of counterfeit and substandard artemisinin-related drugs. In most endemic areas of the GMS, P. falciparum and Plasmodium vivax coexist, and in recent malaria control history, P. vivax has demonstrated remarkable resilience to control measures. Deployment of the only registered drug (primaquine) for the radical cure of vivax malaria is severely undermined due to high prevalence of glucose-6-phosphate dehydrogenase deficiency in target human populations. In the GMS, the dramatically different ecologies, diverse vector systems, and insecticide resistance render traditional mosquito control less efficient. Here we attempt to review the changing malaria epidemiology in the GMS, analyze the vector systems and patterns of malaria transmission, and identify the major challenges the malaria control community faces on its way to malaria elimination.

Published
2012

22. Pf7: an open dataset of Plasmodium falciparum genome variation in 20,000 worldwide samples

Author

MalariaGEN, Abdel Hamid, Muzamil Mahdi, Abdelraheem, Mohamed Hassan, Acheampong, Desmond Omane, Ahouidi, Ambroise, Ali, Mozam, Almagro-Garcia, Jacob, Amambua-Ngwa, Alfred, Amaratunga, Chanaki, Amenga-Etego, Lucas, Andagalu, Ben, Anderson, Tim, Andrianaranjaka, Voahangy, Aniebo, Ifeyinwa, Aninagyei, Enoch, Ansah, Felix, Ansah, Patrick O, Apinjoh, Tobias, Arnaldo, Paulo, Ashley, Elizabeth, Auburn, Sarah, Awandare, Gordon A, Ba, Hampate, Baraka, Vito, Barry, Alyssa, Bejon, Philip, Bertin, Gwladys I, Boni, Maciej F, Borrmann, Steffen, Bousema, Teun, Bouyou-Akotet, Marielle, Branch, Oralee, Bull, Peter C, Cheah, Huch, Chindavongsa, Keobouphaphone, Chookajorn, Thanat, Chotivanich, Kesinee, Claessens, Antoine, Conway, David J, Corredor, Vladimir, Courtier, Erin, Craig, Alister, D'Alessandro, Umberto, Dama, Souleymane, Day, Nicholas, Denis, Brigitte, Dhorda, Mehul, Diakite, Mahamadou, Djimde, Abdoulaye, Dolecek, Christiane, Dondorp, Arjen, Doumbia, Seydou, Drakeley, Chris, Drury, Eleanor, Duffy, Patrick, Echeverry, Diego F, Egwang, Thomas G, Enosse, Sonia Maria Mauricio, Erko, Berhanu, Fairhurst, Rick M, Faiz, Abdul, Fanello, Caterina A, Fleharty, Mark, Forbes, Matthew, Fukuda, Mark, Gamboa, Dionicia, Ghansah, Anita, Golassa, Lemu, Goncalves, Sonia, Harrison, GL Abby, Healy, Sara Anne, Hendry, Jason A, Hernandez-Koutoucheva, Anastasia, Hien, Tran Tinh, Hill, Catherine A, Hombhanje, Francis, Hott, Amanda, Htut, Ye, Hussein, Mazza, Imwong, Mallika, Ishengoma, Deus, Jackson, Scott A, Jacob, Chris G, Jeans, Julia, Johnson, Kimberly J, Kamaliddin, Claire, Kamau, Edwin, Keatley, Jon, Kochakarn, Theerarat, Konate, Drissa S, Konaté, Abibatou, Kone, Aminatou, Kwiatkowski, Dominic P, Kyaw, Myat P, Kyle, Dennis, Lawniczak, Mara, Lee, Samuel K, Lemnge, Martha, Lim, Pharath, Lon, Chanthap, Loua, Kovana M, Mandara, Celine I, Marfurt, Jutta, Marsh, Kevin, Maude, Richard James, Mayxay, Mayfong, Maïga-Ascofaré, Oumou, Miotto, Olivo, Mita, Toshihiro, Mobegi, Victor, Mohamed, Abdelrahim Osman, Mokuolu, Olugbenga A, Montgomery, Jaqui, Morang'a, Collins Misita, Mueller, Ivo, Murie, Kathryn, Newton, Paul N, Ngo Duc, Thang, Nguyen, Thuy, Nguyen, Thuy-Nhien, Nguyen Thi Kim, Tuyen, Nguyen Van, Hong, Noedl, Harald, Nosten, Francois, Noviyanti, Rintis, Ntui, Vincent Ntui-Njock, Nzila, Alexis, Ochola-Oyier, Lynette Isabella, Ocholla, Harold, Oduro, Abraham, Omedo, Irene, Onyamboko, Marie A, Ouedraogo, Jean-Bosco, Oyebola, Kolapo, Oyibo, Wellington Aghoghovwia, Pearson, Richard, Peshu, Norbert, Phyo, Aung P, Plowe, Christopher V, Price, Ric N, Pukrittayakamee, Sasithon, Quang, Huynh Hong, Randrianarivelojosia, Milijaona, Rayner, Julian C, Ringwald, Pascal, Rosanas-Urgell, Anna, Rovira-Vallbona, Eduard, Ruano-Rubio, Valentin, Ruiz, Lastenia, Saunders, David, Shayo, Alex, Siba, Peter, Simpson, Victoria J, Sissoko, Mahamadou S, Smith, Christen, Su, Xin-Zhuan, Sutherland, Colin, Takala-Harrison, Shannon, Talman, Arthur, Tavul, Livingstone, Thanh, Ngo Viet, Thathy, Vandana, Thu, Aung Myint, Toure, Mahamoudou, Tshefu, Antoinette, Verra, Federica, Vinetz, Joseph, Wellems, Thomas E, Wendler, Jason, White, Nicholas J, Whitton, Georgia, Yavo, William, Van Der Pluijm, Rob W, Amenga-Etego, Lucas [0000-0003-4468-0506], Anderson, Tim [0000-0002-0191-0204], Ansah, Patrick O [0000-0002-3214-5621], Ashley, Elizabeth [0000-0002-7620-4822], Ba, Hampate [0000-0002-9299-5775], Baraka, Vito [0000-0001-9694-9293], Bejon, Philip [0000-0002-2135-7549], Bertin, Gwladys I [0000-0002-2218-9591], Boni, Maciej F [0000-0002-0830-9630], Bousema, Teun [0000-0003-2666-094X], Chookajorn, Thanat [0000-0003-2876-6203], Claessens, Antoine [0000-0002-4277-0914], Conway, David J [0000-0002-8711-3037], Craig, Alister [0000-0003-0914-6164], D'Alessandro, Umberto [0000-0001-6341-5009], Day, Nicholas [0000-0003-2309-1171], Diakite, Mahamadou [0000-0002-4268-8857], Djimde, Abdoulaye [0000-0003-0062-2283], Dondorp, Arjen [0000-0001-5190-2395], Drakeley, Chris [0000-0003-4863-075X], Echeverry, Diego F [0000-0003-0301-4478], Erko, Berhanu [0000-0003-1685-752X], Faiz, Abdul [0000-0002-3460-7535], Fanello, Caterina A [0000-0003-1932-9562], Gamboa, Dionicia [0000-0002-1420-7729], Golassa, Lemu [0000-0002-1216-8711], Healy, Sara Anne [0000-0003-3078-6094], Ishengoma, Deus [0000-0003-2040-3416], Jackson, Scott A [0000-0002-3172-1607], Kamaliddin, Claire [0000-0001-8198-6235], Kamau, Edwin [0000-0002-5761-7883], Konate, Drissa S [0000-0002-4177-9642], Kwiatkowski, Dominic P [0000-0002-5023-0176], Kyle, Dennis [0000-0002-0238-965X], Lawniczak, Mara [0000-0002-3006-2080], Loua, Kovana M [0000-0003-0571-0944], Marsh, Kevin [0000-0001-8377-5466], Mayxay, Mayfong [0000-0002-6056-4516], Miotto, Olivo [0000-0001-8060-6771], Mita, Toshihiro [0000-0001-8180-2344], Mobegi, Victor [0000-0002-1962-5583], Morang'a, Collins Misita [0000-0002-6988-150X], Nguyen, Thuy-Nhien [0000-0002-4101-5706], Nosten, Francois [0000-0002-7951-0745], Ntui, Vincent Ntui-Njock [0000-0002-7532-9930], Oduro, Abraham [0000-0002-4191-7419], Onyamboko, Marie A [0000-0002-7501-5931], Ouedraogo, Jean-Bosco [0000-0003-0412-8733], Oyebola, Kolapo [0000-0002-1003-2570], Pearson, Richard [0000-0002-7386-3566], Phyo, Aung P [0000-0002-0383-9624], Price, Ric N [0000-0003-2000-2874], Rayner, Julian C [0000-0002-9835-1014], Rosanas-Urgell, Anna [0000-0002-0432-5203], Shayo, Alex [0000-0002-7099-8537], Su, Xin-Zhuan [0000-0003-3246-3248], Vinetz, Joseph [0000-0001-8344-2004], Wellems, Thomas E [0000-0003-3899-8454], and Apollo - University of Cambridge Repository

Subjects
data resource, plasmodium falciparum, genomics, malaria, genomic epidemiology
Abstract

We describe the MalariaGEN Pf7 data resource, the seventh release of Plasmodium falciparum genome variation data from the MalariaGEN network. It comprises over 20,000 samples from 82 partner studies in 33 countries, including several malaria endemic regions that were previously underrepresented. For the first time we include dried blood spot samples that were sequenced after selective whole genome amplification, necessitating new methods to genotype copy number variations. We identify a large number of newly emerging crt mutations in parts of Southeast Asia, and show examples of heterogeneities in patterns of drug resistance within Africa and within the Indian subcontinent. We describe the profile of variations in the C-terminal of the csp gene and relate this to the sequence used in the RTS,S and R21 malaria vaccines. Pf7 provides high-quality data on genotype calls for 6 million SNPs and short indels, analysis of large deletions that cause failure of rapid diagnostic tests, and systematic characterisation of six major drug resistance loci, all of which can be freely downloaded from the MalariaGEN website.

Published
2023

25. A Plasmodium falciparum RING Finger E3 Ubiquitin Ligase Modifies the Roles of PfMDR1 and PfCRT in Parasite Drug Responses

Author

Singh, Brajesh K., primary, Zhang, Cui, additional, Wu, Jian, additional, Peng, Yu-Chih, additional, He, Xiao, additional, Tumas, Keyla C., additional, Sá, Juliana M., additional, Lane, Kristin D., additional, Eastman, Richard T., additional, Narum, David L., additional, Wellems, Thomas E., additional, and Su, Xin-zhuan, additional

Published
2023
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32. Activation of cGAS‐STING by Lethal Malaria N67C Dictates Immunity and Mortality through Induction of CD11b+Ly6Chi Proinflammatory Monocytes

Author

Du, Yang, primary, Luo, Yien, additional, Hu, Zhiqiang, additional, Lu, Jiansen, additional, Liu, Xin, additional, Xing, Changsheng, additional, Wu, Jian, additional, Duan, Tianhao, additional, Chu, Junjun, additional, Wang, Helen Y., additional, Su, Xin‐zhuan, additional, Yu, Xiao, additional, and Wang, Rong‐Fu, additional

Published
2022
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35. A Specific Inhibitor of PfCDPK4 Blocks Malaria Transmission: Chemical-genetic Validation

Author

Ojo, Kayode K., Eastman, Richard T., Vidadala, RamaSubbaRao, Zhang, Zhongsheng, Rivas, Kasey L., Choi, Ryan, Lutz, Justin D., Reid, Molly C., Fox, Anna M. W., Hulverson, Matthew A., Kennedy, Mark, Isoherranen, Nina, Kim, Laura M., Comess, Kenneth M., Kempf, Dale J., Verlinde, Christophe L. M. J., Su, Xin-zhuan, Kappe, Stefan H. I., Maly, Dustin J., Fan, Erkang, and Van Voorhis, Wesley C.

Published
2014

43. Genetic loci associated with delayed clearance of Plasmodium falciparum following artemisinin treatment in Southeast Asia

Author

Takala-Harrison, Shannon, Clark, Taane G., Jacob, Christopher G., Cummings, Michael P., Miotto, Olivo, Dondorp, Arjen M., Fukuda, Mark M., Nosten, Francois, Noedl, Harald, Imwong, Mallika, Bethell, Delia, Se, Youry, Lon, Chanthap, Tyner, Stuart D., Saunders, David L., Socheat, Duong, Ariey, Frederic, Phyo, Aung Pyae, Starzengruber, Peter, Fuehrer, Hans-Peter, Swoboda, Paul, Stepniewska, Kasia, Flegg, Jennifer, Arze, Cesar, Cerqueira, Gustavo C., Silva, Joana C., Ricklefs, Stacy M., Porcella, Stephen F., Stephens, Robert M., Adams, Matthew, Kenefic, Leo J., Campino, Susana, Auburn, Sarah, Maclnnis, Bronwyn, Kwiatkowski, Dominic P., Su, Xin-zhuan, White, Nicholas J., Ringwald, Pascal, and Plowe, Christopher V.

Published
2013

44. Additional file 7 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Author

Zhang, Yan-hui, Su, Xin-zhuan, Li, Jian, Shi, Jia-jian, and Xie, Li-hua

Abstract

Additional file 7: Figure S7. Immunophenotyping of whole-blood samples in malaria-infected and uninfected groups in GSE117613 datasets based on ssGSEA. The ssGSEA scores (enrichment level) were compared between noninfected and malaria-infected groups in each dataset. The statistical analyses were performed using the unpaired t-test. * p

Published
2022
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45. Additional file 3 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Author

Zhang, Yan-hui, Su, Xin-zhuan, Li, Jian, Shi, Jia-jian, and Xie, Li-hua

Abstract

Additional file 3: FigureS3. Functional enrichment of upregulated genes and downregulated genes in the M1 module. A, GO enrichment analysis of upregulated genes. B, GO enrichment analysis of downregulated genes. 'Gene ratio' is the percentage of total DEGs in the given GO term. The size of the dots represents the number of genes in DEGs associated with the GO term and the colour of the dots represents the P-adjusted values.

Published
2022
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46. Additional file 2 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Author

Zhang, Yan-hui, Su, Xin-zhuan, Li, Jian, Shi, Jia-jian, and Xie, Li-hua

Abstract

Additional file 2: Figure S2. Genes in M2 modules. M2 module of DEGs was identified using Molecular Complex Detection (MCODE) plug-in in Cytoscape. Genes in red indicate upregulated genes, while genes in blue indicate downregulated genes in the malaria-infected group compared to the noninfected group.

Published
2022
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47. Additional file 5 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Author

Zhang, Yan-hui, Su, Xin-zhuan, Li, Jian, Shi, Jia-jian, and Xie, Li-hua

Abstract

Additional file 5: FigureS5. GO enrichment of highly conserved modules between malaria-infected groups of GSE117613 and GSE34404 datasets analysed using multicohort WGCNA. A, GO enrichment of blue module. B, GO enrichment of turquoise module. C, GO enrichment of brown module. D, GO enrichment of yellow module. 'Gene ratio' is the percentage of total DEGs in the given GO term. The size of the dots represents the number of genes in DEGs associated with the GO term and the colour of the dots represents the P-adjusted values.

Published
2022
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48. Additional file 8 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Author

Zhang, Yan-hui, Su, Xin-zhuan, Li, Jian, Shi, Jia-jian, and Xie, Li-hua

Abstract

Additional file 8: Figure S8. Immunophenotyping of whole-blood samples in the mild and severe malaria group in GSE35858 datasets based on ssGSEA. The ssGSEA scores (enrichment level) were compared between the mild malaria group and severe malaria group in each dataset. The statistical analyses were performed using the unpaired t-test. * p

Published
2022
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50. Additional file 4 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Author

Zhang, Yan-hui, Su, Xin-zhuan, Li, Jian, Shi, Jia-jian, and Xie, Li-hua

Abstract

Additional file 4: Figure.S4. GO enrichment of highly conserved modules between noninfected groups of GSE117613 and GSE34404 datasets analysed by multicohort WGCNA. A, GO enrichment of red module. B, GO enrichment of green module. 'Gene ratio' is the percentage of total DEGs in the given GO term. The size of the dots represents the number of genes in DEGs associated with the GO term and the colour of the dots represents the P-adjusted values.

Published
2022
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