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1. Diverse RNA viruses of parasitic nematodes can elicit antibody responses in vertebrate hosts

Author

Quek, Shannon, Hadermann, Amber, Wu, Yang, De Coninck, Lander, Hegde, Shrilakshmi, Boucher, Jordan R., Cresswell, Jessica, Foreman, Ella, Steven, Andrew, LaCourse, E. James, Ward, Stephen A., Wanji, Samuel, Hughes, Grant L., Patterson, Edward I., Wagstaff, Simon C., Turner, Joseph D., Parry, Rhys H., Kohl, Alain, Heinz, Eva, Otabil, Kenneth Bentum, Matthijnssens, Jelle, Colebunders, Robert, and Taylor, Mark J.

Published
2024
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3. Pathological response following neoadjuvant immune checkpoint inhibitors in patients with hepatocellular carcinoma: a cross-trial, patient-level analysis

Author

D'Alessio, Antonio, Stefanini, Bernardo, Blanter, Julia, Adegbite, Benjamin, Crowley, Fionnuala, Yip, Vincent, Slater, Sarah, Fulgenzi, Claudia Angela Maria, Celsa, Ciro, Manfredi, Giulia Francesca, Pai, Madhava, Goldin, Robert D, Ward, Stephen C, Fiel, Maria Isabel, Shu, Daniel H, Su, Yung-Yeh, Cortellini, Alessio, Baretti, Marina, Anders, Robert, Yarchoan, Mark, Hsu, Chiun, Marron, Thomas U, and Pinato, David J

Published
2024
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4. Intratumoral dendritic cell–CD4+ T helper cell niches enable CD8+ T cell differentiation following PD-1 blockade in hepatocellular carcinoma

Author

Magen, Assaf, Hamon, Pauline, Fiaschi, Nathalie, Soong, Brian Y., Park, Matthew D., Mattiuz, Raphaël, Humblin, Etienne, Troncoso, Leanna, D’souza, Darwin, Dawson, Travis, Kim, Joel, Hamel, Steven, Buckup, Mark, Chang, Christie, Tabachnikova, Alexandra, Schwartz, Hara, Malissen, Nausicaa, Lavin, Yonit, Soares-Schanoski, Alessandra, Giotti, Bruno, Hegde, Samarth, Ioannou, Giorgio, Gonzalez-Kozlova, Edgar, Hennequin, Clotilde, Le Berichel, Jessica, Zhao, Zhen, Ward, Stephen C., Fiel, Isabel, Kou, Baijun, Dobosz, Michael, Li, Lianjie, Adler, Christina, Ni, Min, Wei, Yi, Wang, Wei, Atwal, Gurinder S., Kundu, Kunal, Cygan, Kamil J., Tsankov, Alexander M., Rahman, Adeeb, Price, Colles, Fernandez, Nicolas, He, Jiang, Gupta, Namita T., Kim-Schulze, Seunghee, Gnjatic, Sacha, Kenigsberg, Ephraim, Deering, Raquel P., Schwartz, Myron, Marron, Thomas U., Thurston, Gavin, Kamphorst, Alice O., and Merad, Miriam

Published
2023
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5. Precision Medicine in Nephrology: An Integrative Framework of Multidimensional Data in the Kidney Precision Medicine Project

Author

Lake, Blue, Zhang, Kun, Lecker, Stewart, Morales, Alexander, Bogen, Steve, Amodu, Afolarin A., Beck, Laurence, Henderson, Joel, Ilori, Titlayo, Maikhor, Shana, Onul, Ingrid, Schmidt, Insa, Verma, Ashish, Waikar, Sushrut, Yadati, Pranav, Yu, Guanghao, Colona, Mia R., McMahon, Gearoid, Hacohen, Nir, Greka, Anna, Hoover, Paul J., Marshall, Jamie L., Aulisio, Mark, Bush, William, Chen, Yijiang, Crawford, Dana, Madabhushi, Anant, Viswanathan, Vidya S., Bush, Lakeshia, Cooperman, Leslie, Gadegbeku, Crystal, Herlitz, Leal, Jolly, Stacey, Nguyen, Jane, O’Malley, Charles, O’Toole, John, Palmer, Ellen, Poggio, Emilio, Spates-Harden, Kassandra, Sedor, John, Sendrey, Dianna, Taliercio, Jonathan, Appelbaum, Paul, Balderes, Olivia, Barasch, Jonathan, Berroue, Cecilia, Bomback, Andrew, Canetta, Pietro A., D’Agati, Vivette, Kiryluk, Krzysztof, Kudose, Satoru, Mehl, Karla, Sabatello, Maya, Shang, Ning, de Pinho Gonçalves, Joana, Lardenoije, Roy, Migas, Lukasz, Van de Plas, Raf, Rennke, Helmut, Azeloglu, Evren, Campbell, Kirk, Coca, Steven, He, Cijang, He, John, Iyengar, Srinivas Ravi, Lefferts, Seanee, Nadkarni, Girish, Patel, Marissa, Tokita, Joji, Ward, Stephen, Xiong, Yuguang, Verdoes, Abraham, Sabo, Angela, Barwinska, Daria, Gisch, Debora Lidia, Williams, James, Kelly, Katherine, Dunn, Kenneth, Asghari, Mahla, Eadon, Michael, Ferkowicz, Michael, Dagher, Pierre, Ferreira, Ricardo Melo, Winfree, Seth, Bledsoe, Sharon, Wofford, Stephanie, El-Achkar, Tarek, Sutton, Timothy, Bowen, William, Cheng, Ying-Hua, Slade, Austen, Record, Elizabeth, Cheng, Yinghua, Borner, Katy, Herr, Bruce, Jain, Yashvardhan, Quardokus, Ellen, Atta, Mohamed, Bernard, Lauren, Menez, Steven, Parikh, Chirag, Corona Villalobos, Celia Pamela, Wang, Ashley, Wen, Yumeng, Xu, Alan, Chen, Sarah, Donohoe, Isabel, Johansen, Camille, Rosas, Sylvia, Sun, Jennifer, Ardayfio, Joseph, Bebiak, Jack, Campbell, Taneisha, Fox, Monica, Knight, Richard, Koewler, Robert, Pinkeney, Roy, Saul, John, Shpigel, Anna, Prasad, Pottumarthi, Madhavan, Sethu M., Parikh, Samir, Rovin, Brad, Shapiro, John P., Anderton, Christopher, Lukowski, Jessica, Pasa-Tolic, Ljiljana, Velickovic, Dusan, Oliver, George, Mao, Weiguang, Sealfon, Rachel, Troyanskaya, Olga, Pollack, Ari, Goltsev, Yury, Ginley, Brandon, Anjani, Kavya, Laszik, Zoltan G., Mukatash, Tariq, Nolan, Garry, Beyda, David, Bracamonte, Erika, Brosius, Frank, Campos, Baltazar, Marquez, Nicole, Mendoza, Katherine, Scott, Raymond, Thajudeen, Bijin, Tsosie, Rebecca, Woodhead, Gregory, Saunders, Milda, Alloway, Rita R., Lee, Paul J., Rike, Adele, Shi, Tiffany, Woodle, E. Steve, Bjornstad, Petter, Hsieh, Elena, Kendrick, Jessica, Pyle, Laura, Thurman, Joshua, Vinovskis, Carissa, Wrobel, Julia, Lucarelli, Nicholas, Sarder, Pinaki, Bui, James, Carmona-Powell; Ron Gaba, Eunice, Kelly, Tanika, Lash, James, Meza, Natalie, Redmond, Devona, Renteria, Amada, Ricardo, Ana, Setty, Suman, Srivastava, Anand, Alakwaa, Fadhl, Ascani, Heather, Balis, Ul, Bitzer, Markus, Blanc, Victoria, Bonevich, Nikki, Conser, Ninive, Demeke, Dawit, Dull, Rachel, Eddy, Sean, Frey, Renee, Hartman, John, He, Yongqun Oliver, Hodgin, Jeffrey, Kretzler, Matthias, Lienczewski, Chrysta, Luo, Jinghui, Mariani, Laura, McCown, Phillip, Menon, Rajasree, Nair, Viji, Otto, Edgar, Reamy, Rebecca, Rose, Michael, Schaub, Jennifer, Steck, Becky, Wright, Zachary, Coleman, Alyson, Henderson-Brown; Jerica Berge, Dorisann, Caramori, Maria Luiza, Adeyi, Oyedele, Nachman, Patrick, Safadi, Sami, Flanagan, Siobhan, Ma, Sisi, Klett, Susan, Wolf, Susan, Harindhanavudhi, Tasma, Rao, Via, Bream, Peter, Froment, Anne, Kelley, Sara, Mottl, Amy, Chaudhury; Evan Zeitler, Prabir Roy, Bender, Filitsa, Elder, Michele, Gilliam, Matthew, Hall, Daniel E., Kellum, John A., Murugan, Raghavan, Palevsky, Paul, Rosengart, Matthew, Tan, Roderick, Tublin, Mitchell, Winters, James, Bansal, Shweta, Montellano, Richard, Pamreddy, Annapurna, Sharma, Kumar, Venkatachalam, Manjeri, Ye, Hongping, Zhang, Guanshi, Basit, Mujeeb, Cai, Qi, Hendricks, Allen, Hedayati, Susan, Kermani, Asra, Lee, Simon C., Ma, Shihong, Miller, Richard Tyler, Moe, Orson W., Park, Harold, Patel, Jiten, Pillai, Anil, Sambandam, Kamalanathan, Torrealba, Jose, Toto, Robert D., Vazquez, Miguel, Wang, Nancy, Wen, Natasha, Zhang, Dianbo, Alpers, Charles, Berglund, Ashley, Berry, Brooke, Blank, Kristina, Brown, Keith, Carson, Jonas, Daniel, Stephen, de Boer, Ian H., Dighe, Ashveena L., Dowd, Frederick, Grewenow, Stephanie M., Himmelfarb, Jonathan, Hoofnagle, Andrew, Jefferson, Nichole, Larson, Brandon, Limonte, Christine, McClelland, Robyn, Mooney, Sean, Nam, Yunbi, Park, Christopher, Phuong, Jimmy, Rezaei, Kasra, Roberts, Glenda, Sarkisova, Natalya, Shankland, Stuart, Snyder, Jaime, Stutzke, Christy, Tuttle, Katherine, Wangperawong, Artit, Wilcox, Adam, Williams, Kayleen, Young, Bessie, Allen, Jamie, Caprioli, Richard M., de Caestecker, Mark, Djambazova, Katerina, Dufresne, Martin, Farrow, Melissa, Fogo, Agnes, Sharman, Kavya, Spraggins, Jeffrey, Basta, Jeannine, Conlon, Kristine, Diettman, Sabine M., Gaut, Joseph, Kaushal, Madhurima, Jain, Sanjay, Knoten, Amanda, Minor, Brittany, Nwanne, Gerald, Vijayan, Anitha, Zhang, Bo, Arora, Tanima, Cantley, Lloyd, Victoria Castro, Angela M., Kakade, Vijayakumar, Moeckel, Gilbert, Moledina, Dennis, Shaw, Melissa, Wilson, Francis P., El-Achkar, Tarek M., and Eadon, Michael T.

Published
2024
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6. A large-scale retrospective study enabled deep-learning based pathological assessment of frozen procurement kidney biopsies to predict graft loss and guide organ utilization

Author

Yi, Zhengzi, Xi, Caixia, Menon, Madhav C., Cravedi, Paolo, Tedla, Fasika, Soto, Alan, Sun, Zeguo, Liu, Keyu, Zhang, Jason, Wei, Chengguo, Chen, Man, Wang, Wenlin, Veremis, Brandon, Garcia-barros, Monica, Kumar, Abhishek, Haakinson, Danielle, Brody, Rachel, Azeloglu, Evren U., Gallon, Lorenzo, O’Connell, Philip, Naesens, Maarten, Shapiro, Ron, Colvin, Robert B., Ward, Stephen, Salem, Fadi, and Zhang, Weijia

Published
2024
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7. Impact of pre-transplant immune checkpoint inhibitor use on post-transplant outcomes in HCC: A systematic review and individual patient data meta-analysis

Author

Rezaee-Zavareh, Mohammad Saeid, Yeo, Yee Hui, Wang, Tielong, Guo, Zhiyong, Tabrizian, Parissa, Ward, Stephen C., Barakat, Fatma, Hassanein, Tarek I., Dave, Shravan, Ajmera, Veeral, Bhoori, Sherrie, Mazzaferro, Vincenzo, Chascsa, David M.H., Liu, Margaret C., Aby, Elizabeth S., Lake, John R., Sogbe, Miguel, Sangro, Bruno, Abdelrahim, Maen, Esmail, Abdullah, Schmiderer, Andreas, Chouik, Yasmina, Rudolph, Mark, Sohal, Davendra, Giudicelli, Heloise, Allaire, Manon, Akce, Mehmet, Guadagno, Jessica, Tow, Clara Y., Massoumi, Hatef, De Simone, Paolo, Kang, Elise, Gartrell, Robyn D., Martinez, Mercedes, Paz-Fumagalli, Ricardo, Toskich, Beau B., Tran, Nguyen H., Solino, Gabriela Azevedo, Poltronieri Pacheco, Dra Mariana, Kalman, Richard S., Agopian, Vatche G., Mehta, Neil, Parikh, Neehar D., Singal, Amit G., and Yang, Ju Dong

Published
2024
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8. Global proteomic analysis of plasma from mice infected with Plasmodium berghei ANKA using two dimensional gel electrophoresis and matrix assisted laser desorption ionization-time of flight mass spectrometry

Author

Kokwaro Gilbert O, Gitau Evelyn N, Newton Charles RJC, and Ward Stephen A

Subjects
Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background A global proteomic strategy was used to identify proteins, which are differentially expressed in the murine model of severe malaria in the hope of facilitating future development of novel diagnostic, disease monitoring and treatment strategies. Methods Mice (4-week-old CD1 male mice) were infected with Plasmodium berghei ANKA strain, and infection allowed to establish until a parasitaemia of 30% was attained. Total plasma and albumin depleted plasma samples from infected and control (non-infected) mice were separated by two-dimensional gel electrophoresis (2-DE). After staining, the gels were imaged and differential protein expression patterns were interrogated using image analysis software. Spots of interest were then digested using trypsin and the proteins identified using matrix-assisted laser desorption and ionization-time of flight (MALDI-TOF) mass spectrometry (MS) and peptide mass fingerprinting software. Results Master gels of control and infected mice, and the corresponding albumin depleted fractions exhibited distinctly different 2D patterns comparing control and infected plasma, respectively. A wide range of proteins demonstrated altered expression including; acute inflammatory proteins, transporters, binding proteins, protease inhibitors, enzymes, cytokines, hormones, and channel/receptor-derived proteins. Conclusions Malaria-infection in mice results in a wide perturbation of the host serum proteome involving a range of proteins and functions. Of particular interest is the increased secretion of anti-inflammatory and anti apoptotic proteins.

Published
2011
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9. Sequence and gene expression of chloroquine resistance transporter (pfcrt) in the association of in vitro drugs resistance of Plasmodium falciparum

Author

Bray Patrick G, Owen Andrew, Johnson David, Mungthin Mathirut, Ward Stephen A, Chaijaroenkul Wanna, and Na-Bangchang Kesara

Subjects
Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background Plasmodium falciparum chloroquine resistance (CQR) transporter protein (PfCRT) is known to be the important key of CQR. Recent studies have definitively demonstrated a link between mutations in the gene pfcrt and resistance to chloroquine in P. falciparum. Although these mutations are predictive of chloroquine resistance, they are not quantitatively predictive of the degree of resistance. Methods In this study, a total of 95 recently adapted P. falciparum isolates from Thailand were included in the analysis. Parasites were characterized for their drug susceptibility phenotypes and genotypes with respect to pfcrt. From the original 95 isolates, 20 were selected for complete pfcrt sequence analysis. Results Almost all of the parasites characterized carried the previously reported mutations K76T, A220S, Q271E, N326S, I356T and R371I. On complete sequencing, isolates were identified with novel mutations at K76A and E198K. There was a suggestion that parasites carrying E198K were less resistant than those that did not. In addition, pfcrt and pfmdr1 gene expression were investigated by real-time PCR. No relationship between the expression level of either of these genes and response to drug was observed. Conclusion Data from the present study suggest that other genes must contribute to the degree of resistance once the resistance phenotype is established through mutations in pfcrt.

Published
2011
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10. Molecular Signatures of Glomerular Neovascularization in a Patient with Diabetic Kidney Disease

Author

Ferkowicz, Michael J., Verma, Ashish, Barwinska, Daria, Melo Ferreira, Ricardo, Henderson, Joel M., Kirkpatrick, Mary, Silva, Paolo S., Steenkamp, Devin W., Phillips, Carrie L., Waikar, Sushrut S., Sutton, Timothy A., Lake, Blue, Zhang, Kun, Lecker, Stewart, Morales, Alexander, Stillman, Isaac, Bogen, Steve, Amodu, Afolarin A., Beck, Laurence, Henderson, Joel, Ilori, Titlayo, Maikhor, Shana, Onul, Ingrid, Schmidt, Insa, Verma, Ashish, Waikar, Sushrut, Yadati, Pranav, Yu, Guanghao, Colona, Mia R., McMahon, Gearoid, Weins, Astrid, Hacohen, Nir, Greka, Anna, Hoover, Paul J., Marshall, Jamie L., Aulisio, Mark, Bush, William, Chen, Yijiang, Crawford, Dana, Madabhushi, Anant, Viswanathan, Vidya S., Bush, Lakeshia, Cooperman, Leslie, Gadegbeku, Crystal, Herlitz, Leal, Jolly, Stacey, Nguyen, Jane, O’Malley, Charles, O’Toole, John, Palmer, Ellen, Poggio, Emilio, Spates-Harden, Kassandra, Sedor, John, Sendrey, Dianna, Taliercio, Jonathan, Appelbaum, Paul, Balderes, Olivia, Barasch, Jonathan, Berroue, Cecilia, Bomback, Andrew, Canetta, Pietro A., D’Agati, Vivette, Kiryluk, Krzysztof, Kudose, Satoru, Mehl, Karla, Sabatello, Maya, Shang, Ning, Varela, German, de Pinho Gonçalves, Joana, Lardenoije, Roy, Migas, Lukasz, Van de Plas, Raf, Barisoni, Laura, Rennke, Helmut, Azeloglu, Evren, Campbell, Kirk, Coca, Steven, He, Cijang, He, John, Iyengar, Srinivas Ravi, Lefferts, Seanee, Nadkarni, Girish, Patel, Marissa, Tokita, Joji, Ward, Stephen, Xiong, Yuguang, Verdoes, Abraham, Sabo, Angela, Barwinska, Daria, Gisch, Debora Lidia, Williams, James, Kelly, Katherine, Dunn, Kenneth, Asghari, Mahla, Eadon, Michael, Ferkowicz, Michael, Dagher, Pierre, Ferreira, Ricardo Melo, Winfree, Seth, Bledsoe, Sharon, Wofford, Stephanie, El-Achkar, Tarek, Sutton, Timothy, Bowen, William, Cheng, Ying-Hua, Slade, Austen, Record, Elizabeth, Cheng, Yinghua, Borner, Katy, Herr, Bruce, Jain, Yashvardhan, Quardokus, Ellen, Atta, Mohamed, Bernard, Lauren, Menez, Steven, Parikh, Chirag, Corona Villalobos, Celia Pamela, Wang, Ashley, Wen, Yumeng, Xu, Alan, Chen, Sarah, Donohoe, Isabel, Johansen, Camille, Rosas, Sylvia, Sun, Jennifer, Ardayfio, Joseph, Bebiak, Jack, Brown, Keith, Campbell, Taneisha, Fox, Monica, Hayashi, Lynda, Jefferson, Nichole, Richard Knight, Jennifer Jones, Koewler, Robert, Pinkeney, Roy, Saul, John, Shpigel, Anna, Stutzke, Christy, Prasad, Pottumarthi, Madhavan, Sethu M., Parikh, Samir, Rovin, Brad, Shapiro, John P., Anderton, Christopher, Lukowski, Jessica, Pasa-Tolic, Ljiljana, Velickovic, Dusan, Oliver, George, Mao, Weiguang, Sealfon, Rachel, Troyanskaya, Olga, Wong, Aaron, Pollack, Ari, Goltsev, Yury, Ginley, Brandon, Lutnick, Brendon, Anjani, Kavya, Laszik, Zoltan G., Mukatash, Tariq, Nolan, Garry, Beyda, David, Bracamonte, Erika, Brosius, Frank, Campos, Baltazar, Marquez, Nicole, Mendoza, Katherine, Scott, Raymond, Thajudeen, Bijin, Tsosie, Rebecca, Woodhead, Gregory, Saunders, Milda, Alloway, Rita R., Lee, Paul J., Rike, Adele, Shi, Tiffany, Woodle, E. Steve, Bjornstad, Petter, Hsieh, Elena, Kendrick, Jessica, Pyle, Laura, Thurman, Joshua, Vinovskis, Carissa, Wrobel, Julia, Lucarelli, Nicholas, Sarder, Pinaki, Bui, James, Carmona-Powell, Eunice, Gaba, Ron, Kelly, Tanika, Lash, James, Meza, Natalie, Redmond, Devona, Renteria, Amada, Ricardo, Ana, Setty, Suman, Srivastava, Anand, Alakwaa, Fadhl, Ascani, Heather, Balis, Ul, Bitzer, Markus, Blanc, Victoria, Bonevich, Nikki, Conser, Ninive, Demeke, Dawit, Dull, Rachel, Eddy, Sean, Frey, Renee, Hartman, John, He, Yongqun Oliver, Hodgin, Jeffrey, Kretzler, Matthias, Lienczewski, Chrysta, Luo, Jinghui, Mariani, Laura, McCown, Phillip, Menon, Rajasree, Nair, Viji, Otto, Edgar, Reamy, Rebecca, Rose, Michael, Schaub, Jennifer, Steck, Becky, Wright, Zachary, Coleman, Alyson, Henderson-Brown, Dorisann, Berge, Jerica, Caramori, Maria Luiza, Adeyi, Oyedele, Nachman, Patrick, Safadi, Sami, Flanagan, Siobhan, Ma, Sisi, Klett, Susan, Wolf, Susan, Harindhanavudhi, Tasma, Rao, Via, Bream, Peter, Froment, Anne, Kelley, Sara, Mottl, Amy, Roy-Chaudhury, Prabir, Zeitler, Evan, Bender, Filitsa, Elder, Michele, Gilliam, Matthew, Hall, Daniel E., Kellum, John A., Murugan, Raghavan, Palevsky, Paul, Rosengart, Matthew, Tan, Roderick, Tublin, Mitchell, Winters, James, Bansal, Shweta, Montellano, Richard, Pamreddy, Annapurna, Sharma, Kumar, Venkatachalam, Manjeri, Ye, Hongping, Zhang, Guanshi, Basit, Mujeeb, Cai, Qi, Hendricks, Allen, Hedayati, Susan, and Asra

Published
2024
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11. Glycerol: An unexpected major metabolite of energy metabolism by the human malaria parasite

Author

Bray Patrick G, Fisher Nicholas, Roslaini Abd, Al-Helal Mohammed, Lian Lu-Yun, Ward Stephen A, and Biagini Giancarlo A

Subjects
Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background Malaria is a global health emergency, and yet our understanding of the energy metabolism of the principle causative agent of this devastating disease, Plasmodium falciparum, remains rather basic. Glucose was shown to be an essential nutritional requirement nearly 100 years ago and since this original observation, much of the current knowledge of Plasmodium energy metabolism is based on early biochemical work, performed using basic analytical techniques (e.g. paper chromatography), carried out almost exclusively on avian and rodent malaria. Data derived from malaria parasite genome and transcriptome studies suggest that the energy metabolism of the parasite may be more complex than hitherto anticipated. This study was undertaken in order to further characterize the fate of glucose catabolism in the human malaria parasite, P. falciparum. Methods Products of glucose catabolism were determined by incubating erythrocyte-freed parasites with D-[1-13C] glucose under controlled conditions and metabolites were identified using 13C-NMR spectroscopy. Results Following a 2 h incubation of freed-P. falciparum parasites with 25 mM D-[1-13C] glucose (n = 4), the major metabolites identified included; [3-13C] lactate, [1,3-13C] glycerol, [3-13C] pyruvate, [3-13C] alanine and [3-13C] glycerol-3-phosphate. Control experiments performed with uninfected erythrocytes incubated under identical conditions did not show any metabolism of D-[1-13C] glucose to glycerol or glycerol-3-phosphate. Discussion The identification of glycerol as a major glucose metabolite confirms the view that energy metabolism in this parasite is more complex than previously proposed. It is hypothesized here that glycerol production by the malaria parasite is the result of a metabolic adaptation to growth in O2-limited (and CO2 elevated) conditions by the operation of a glycerol-3-phosphate shuttle for the re-oxidation of assimilatory NADH. Similar metabolic adaptations have been reported previously for other microaerobic/anaerobic organisms, such as yeast, rumen protozoa and human parasitic protozoa. Conclusion These data highlight the need to re-evaluate the carbon and redox balance of this important human pathogen, ultimately leading to a better understanding of how the parasite is able to adapt to the variable environments encountered during parasite development and disease progression.

Published
2009
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15. In vitro antimalarial drug susceptibility in Thai border areas from 1998–2003

Author

Mungthin Mathirut, Na Bangchang Kesara, Chaijaroenkul Wanna, and Ward Stephen A

Subjects
Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background The Thai-Myanmar and Thai-Cambodia borders have been historically linked with the emergence and spread of Plasmodium falciparum parasites resistant to antimalarial drugs. Indeed, the areas are often described as harbouring multi-drug resistant parasites. These areas of Thailand have experienced significant changes in antimalarial drug exposure patterns over the past decade. This study describes the in vitro antimalarial susceptibility patterns of 95 laboratory-adapted P. falciparum isolates, collected between 1998 and 2003,. Methods Ninety five P. falciparum isolates were collected from five sites in Thailand between 1998 and 2003. After laboratory adaptation to in vitro culture, the susceptibility of these parasites to a range of established antimalarial drugs (chloroquine [CQ], mefloquine [MQ], quinine [QN] and dihydroartemisinin [DHA]) was determined by the isotopic microtest. Results Mefloquine (MQ) sensitivity remained poorest in areas previously described as MQ-resistant areas. Sensitivity to MQ of parasites from this area was significantly lower than those from areas reported to harbour moderate (p = 0.002) of low level MQ resistance (p = 000001). Importantly for all drugs tested, there was a considerable range in absolute parasite sensitivities. There was a weak, but statistically positive correlation between parasite sensitivity to CQ and sensitivity to both QN and MQ and a positive correlation between MQ and QN. In terms of geographical distribution, parasites from the Thai-Cambodia were tended to be less sensitive to all drugs tested compared to the Thai-Myanmar border. Parasite sensitivity to all drugs was stable over the 6-year collection period with the exception of QN. Conclusion This study highlights the high degree of variability in parasite drug sensitivity in Thailand. There were geographical differences in the pattern of resistance which might reflect differences in drug usage in each area. In contrast to many other studies there were weak, but statistically significant positive, correlations between sensitivity to CQ and sensitivity to MQ and QN. Over the six years of sample collection, parasite sensitivity appears to have stabilized to these drugs in these sites.

Published
2005
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17. Towards a roadmap for space-based observations of the land sector for the UNFCCC global stocktake

Author

Ochiai, Osamu, Poulter, Benjamin, Seifert, Frank Martin, Ward, Stephen, Jarvis, Ian, Whitcraft, Alyssa, Sahajpal, Ritvik, Gilliams, Sven, Herold, Martin, Carter, Sarah, Duncanson, Laura Innice, Kay, Heather, Lucas, Richard, Wilson, Sylvia N., Melo, Joana, Post, Joanna, Briggs, Stephen, Quegan, Shaun, Dowell, Mark, Cescatti, Alessandro, Crisp, David, Saatchi, Sassan, Tadono, Takeo, Steventon, Matt, and Rosenqvist, Ake

Published
2023
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21. Neoadjuvant clinical trials provide a window of opportunity for cancer drug discovery

Author

Marron, Thomas U., Galsky, Matthew D., Taouli, Bachir, Fiel, Maria Isabel, Ward, Stephen, Kim, Edward, Yankelevitz, David, Doroshow, Deborah, Guttman-Yassky, Emma, Ungar, Benjamin, Mehandru, Saurabh, Golas, Benjamin J., Labow, Daniel, Sfakianos, John, Nair, Sujit S., Chakravarty, Dimple, Buckstein, Michael, Song, Xiaoyu, Kenigsberg, Effi, Gnjatic, Sacha, Brown, Brian D., Sparano, Joseph, Tewari, Ashutosh, Schwartz, Myron, Bhardwaj, Nina, and Merad, Miriam

Published
2022
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22. Neoadjuvant cemiplimab for resectable hepatocellular carcinoma: a single-arm, open-label, phase 2 trial

Author

Marron, Thomas U, Fiel, Maria Isabel, Hamon, Pauline, Fiaschi, Nathalie, Kim, Edward, Ward, Stephen C, Zhao, Zhen, Kim, Joel, Kennedy, Paul, Gunasekaran, Ganesh, Tabrizian, Parissa, Doroshow, Deborah, Legg, Meredith, Hammad, Ashley, Magen, Assaf, Kamphorst, Alice O, Shareef, Muhammed, Gupta, Namita T, Deering, Raquel, Wang, Wei, Wang, Fang, Thanigaimani, Pradeep, Mani, Jayakumar, Troncoso, Leanna, Tabachnikova, Alexandra, Chang, Christie, Akturk, Guray, Buckup, Mark, Hamel, Steven, Ioannou, Giorgio, Hennequin, Clotilde, Jamal, Hajra, Brown, Haley, Bonaccorso, Antoinette, Labow, Daniel, Sarpel, Umut, Rosenbloom, Talia, Sung, Max W, Kou, Baijun, Li, Siyu, Jankovic, Vladimir, James, Nicola, Hamon, Sara C, Cheung, Hung Kam, Sims, Jennifer S, Miller, Elizabeth, Bhardwaj, Nina, Thurston, Gavin, Lowy, Israel, Gnjatic, Sacha, Taouli, Bachir, Schwartz, Myron E, and Merad, Miriam

Published
2022
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23. Exploring Consumer Experiences of Barriers and Enablers to Accessing Rehabilitation That Meets Their Needs: The Rehabilitation Choices Study, Part 2—Consumer Perspectives.

Author

Mason, Gillian, Ribbons, Karen, Bailey, Lucy, O'Malley, Adrian, Ward, Tracy, Ward, Stephen, Pollack, Michael, Walker, Frederick R., Nilsson, Michael, and Hodyl, Nicolette

Subjects
HEALTH services accessibility, HEALTH attitudes, QUALITATIVE research, PATIENT safety, RESEARCH funding, REHABILITATION, INTERVIEWING, QUESTIONNAIRES, PATIENT-family relations, DECISION making, DESCRIPTIVE statistics, THEMATIC analysis, CAREGIVERS, CHRONIC diseases, RESEARCH methodology, MEDICAL needs assessment, COMPARATIVE studies, CAREGIVER attitudes, PATIENTS' attitudes
Abstract

Introduction: Improved access to rehabilitation is highlighted as a key pathway to achieving the World Health Organisation's (WHO) goal of ensuring healthy lives and promoting well‐being for all (Sustainable Development Goal 3). This article is the second in a two‐part series outlining the findings from the Rehabilitation Choices study, which aimed to identify how health professionals and consumers in Australia are informed to make decisions about rehabilitation, and their experience with barriers and enablers to accessing that rehabilitation. In this study, we present the perspectives of consumers with different health conditions and a range of experiences with rehabilitation services. Methods: This was a qualitative study using focus groups and semi‐structured interviews. People with self‐reported lived experience of rehabilitation and carers were recruited using maximum variation sampling. Thematic analysis of data was conducted using an inductive approach. Results: Fifty‐six consumers with diverse lived experiences of rehabilitation (19–80 years, 49 patients, 7 carers) participated in focus groups and interviews to discuss how they sourced information about rehabilitation and their experiences of what made it hard or easy to access rehabilitative care to meet their needs. Four themes were produced from the data: (1) service‐centricity of options limits access, (2) access is the patient's responsibility, (3) enabling decision‐making about rehabilitation with appropriate information and (4) provision of a psychologically safe environment. Conclusions: Any planned (re)design of services to improve consumer access to rehabilitation should consider the themes identified in this study. This will ensure that consumers are provided with rehabilitation options that suit their holistic and unique needs beyond consideration of their medical diagnoses, and are actively supported to navigate this access, provided with information to help them make informed choices and provided a psychologically safe environment to engage effectively with rehabilitation. Patient or Public Contribution: Three consumer research partners with lived experience of rehabilitation as patients or carers were core team members. They were involved in the design and implementation of the recruitment and communications strategies, design of the interview approach and discussion guide, contributed to the interpretation and contextualisation of findings and writing of this manuscript and are included as co‐authors (A. O., T. W. and S. W.). [ABSTRACT FROM AUTHOR]

Published
2024
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24. Single‐cell RNA sequencing data identify a conserved population of metallothionein‐expressing macrophages that may be ubiquitous in vital human organs.

Author

Daccache, Joseph A., Eng, Francis, Cao, Lei, Ma, Ning, Ward, Stephen C., Schiano, Thomas, Miller, Mark, Herron, Daniel, Azzara, Anthony V., Pullen, Steven S., Guarnieri, Paolo, Aloman, Costica, and Branch, Andrea D.

Subjects
ORGANS (Anatomy), IMMUNOHISTOCHEMISTRY techniques, GENE expression, ALVEOLAR macrophages, MYELOID cells
Abstract

The article in Clinical & Translational Discovery identifies a rare population of metallothionein-expressing macrophages present in all vital human organs. Using single-cell RNA sequencing data, the study characterizes these macrophages in the liver, kidney, and lung, highlighting their gene expression patterns and potential functional roles. Immunohistochemistry techniques confirm the presence of these macrophages in human liver tissue, suggesting a role in neoangiogenesis. The research sets the stage for further studies on the functional role of these macrophages in tissue homeostasis and remodeling. [Extracted from the article]

Published
2024
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25. A Phase 1, Randomized, Double‐Blind, Placebo‐Controlled, Single Ascending Dose Trial of AWZ1066S, an Anti‐Wolbachia Candidate Macrofilaricide.

Author

Devereux, Graham, Bula, Marcin, Tripp, Karen, Fitzgerald, Richard, Eraut, Nicola, Alam, Muhammad Salman, Moriyama, Tomoyuki, Shinkyo, Raku, Walker, Lauren, Wang, Duolao, Gusovsky, Fabian, van der Velde, Jeannette, Turner, Joseph D., Hong, Weiqian David, O'Neill, Paul M., Taylor, Mark J., and Ward, Stephen A.

Subjects
NEGLECTED diseases, LYMPHATIC diseases, ONCHOCERCIASIS, FILARIASIS, LIVER enzymes
Abstract

AWZ1066S has been developed as a potential treatment for the neglected tropical diseases lymphatic filariasis and onchocerciasis. AWZ1066S targets the Wolbachia bacterial endosymbiont present in the causative nematode parasites. This phase 1, first‐in‐human study aimed to assess the safety and pharmacokinetics of AWZ1066S in healthy human participants. In a randomized double‐blind, placebo‐controlled, single ascending dose study, healthy adults received a single oral dose of AWZ1066S (or placebo) and were followed up for 10 days. The planned single doses of AWZ1066S ranged from 100 to 1600 mg, and each dose was administered to a cohort of 8 participants (6 AWZ1066S and 2 placebo). In total 30 people participated, 18 (60%) female, median age 30.0 years (minimum 20, maximum 61). The cohorts administered 100, 200, 300, and 400 mg of AWZ1066S progressed unremarkably. After single 700‐mg doses all 4 participants developed symptoms of acute gastritis and transient increases in liver enzymes. The severity of these adverse events ranged from mild to severe, with 1 participant needing hospital admission. Pharmacokinetic analysis indicated that AWZ1066S is rapidly absorbed with predictable pharmacokinetics. In conclusion, safety concerns prevented this study from reaching the human exposures needed for AWZ1066S to be clinically effective against lymphatic filariasis and onchocerciasis. [ABSTRACT FROM AUTHOR]

Published
2024
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33. Barriers and Enablers for Accessing Rehabilitation Services: Findings From the Rehabilitation Choices Study, Part 1—Healthcare Professionals' Perspectives.

Author

Hodyl, Nicolette, Mason, Gillian, Ribbons, Karen, Bailey, Lucy, O'Malley, Adrian, Ward, Tracy, Ward, Stephen, Pollack, Michael, Nilsson, Michael, and Walker, Frederick Rohan

Subjects
HEALTH services accessibility, NURSES, RESEARCH funding, QUALITATIVE research, HEALTH facility administration, REHABILITATION, INTERVIEWING, DECISION making, ALLIED health personnel, THEMATIC analysis, HEALTH services administrators, ATTITUDES of medical personnel, RESEARCH, RESEARCH methodology, PHYSICIANS, HEALTH care teams, MEDICAL referrals, REHABILITATION research
Abstract

Introduction: Globally, there is an increasing demand for quality medical rehabilitation services. This is the first article of a two‐part series showing the findings from the Rehabilitation Choices study in which the main aim was to understand the current landscape of decision‐making, enablers and barriers to access appropriate rehabilitation services in the Australian setting. In Part 1, these insights were sought from a healthcare professionals' perspective. Methods: This was an exploratory, qualitative study, using semi‐structured interviews with a discussion guide that was codesigned together with rehabilitation clinicians and rehabilitation researchers. Themes and sub‐themes were identified using an inductive approach. Results: We interviewed a heterogeneous group of 31 professionals who are involved in making referral decisions about rehabilitation or who design and deliver rehabilitation programs, including specialist rehabilitation physicians and other medical doctors across in‐patient, outpatient, and primary care settings, allied health professionals, rehabilitation service managers, nurses, multicultural health liaison officers and rehabilitation research scientists. Three key themes relevant to barriers and enablers to service access were identified from the data: defining rehabilitation; a lack of timely access to patient and rehabilitation service data; and patient diversity not expected by the system. Conclusions: Healthcare professionals who make decisions about rehabilitation referrals and services feel that it was necessary for them to keep up to date with information relating to rehabilitation services. There was some concern regarding what rehabilitation constituted and what services were available for different clinical indications. They also indicated that current systems did not consider diversity among patients' needs and goals. Their recommendations included the need for better communication pathways, improved referral systems and resources that could help provide best practice of rehabilitative care in the future. Patient or Public Contribution: Three study team members had a lived experience of rehabilitation as a patient or carer, and previous experience participating in qualitative research. They worked with the study team to codesign the recruitment strategy, participant‐facing communications, the interview discussion guide, and the approach to the conduct of activities with participants and in the interpretation and contextualization of findings and all were involved in writing this manuscript. [ABSTRACT FROM AUTHOR]

Published
2024
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36. AWZ1066S, a highly specific anti- Wolbachia drug candidate for a short-course treatment of filariasis

Author

Hong, W. David, Benayoud, Farid, Nixon, Gemma L., Ford, Louise, Johnston, Kelly L., Clare, Rachel H., Cassidy, Andrew, Cook, Darren A. N., Siu, Amy, Shiotani, Motohiro, Webborn, Peter J. H., Kavanagh, Stefan, Aljayyoussi, Ghaith, Murphy, Emma, Steven, Andrew, Archer, John, Struever, Dominique, Frohberger, Stefan J., Ehrens, Alexandra, Hübner, Marc P., Hoerauf, Achim, Roberts, Adam P., Hubbard, Alasdair T. M., Tate, Edward W., Serwa, Remigiusz A., Leung, Suet C., Qie, Li, Berry, Neil G., Gusovsky, Fabian, Hemingway, Janet, Turner, Joseph D., Taylor, Mark J., Ward, Stephen A., and O’Neill, Paul M.

Published
2019

42. Author Correction: Neoadjuvant clinical trials provide a window of opportunity for cancer drug discovery

Author

Marron, Thomas U., Galsky, Matthew D., Taouli, Bachir, Fiel, Maria Isabel, Ward, Stephen, Kim, Edward, Yankelevitz, David, Doroshow, Deborah, Guttman-Yassky, Emma, Ungar, Benjamin, Mehandru, Saurabh, Golas, Benjamin J., Labow, Daniel, Sfakianos, John, Nair, Sujit S., Chakravarty, Dimple, Buckstein, Michael, Song, Xiaoyu, Kenigsberg, Effi, Gnjatic, Sacha, Brown, Brian D., Sparano, Joseph, Tewari, Ashutosh, Schwartz, Myron, Bhardwaj, Nina, and Merad, Miriam

Published
2022
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48. Acute respiratory distress syndrome subphenotypes and differential response to simvastatin: secondary analysis of a randomised controlled trial

Author

Johnston, Andrew J, Paikray, Archana, Yates, Cat, Polgarova, Petra, Price, Esther, McInerney, Amy, Zamoscik, Katarzyna, Dempsey, Ged, Seasman, Colette, Gilfeather, Lynn, Hemmings, Noel, O'Kane, Sinead, Johnston, Paul, Pokorny, Lukas, Nutt, Chris, O'Neill, Orla, Prashast, Prashast, Smalley, Chris, Jacob, Reni, O'Rourke, James, Sultan, Syed Farjad, Schilling, Carole, Perkins, Gavin D, Melody, Teresa, Couper, Keith, Daniels, Ron, Gao, Fang, Hull, Julian, Gould, Timothy, Thomas, Matthew, Sweet, Katie, Breen, Dorothy, Neau, Emer, Peel, Willis J, Jardine, Catherine, Jefferson, Paul, Wright, Stephen E, Harris, Kayla, Hierons, Sarah, Laffey, John, McInerney, Veronica, Camporota, Luigi, Lei, Katie, Kaul, Sundeep, Chibvuri, Molly, Gratrix, Andrew, Bennett, Rachael, Martinson, Victoria, Sleight, Lisa, Smith, Neil, Hopkins, Philip A, Hadfield, Daniel, Casboult, Sarah, Wade-Smith, Fiona, Dawson, Julie, Mellis, Clare, Harris, Clair, Parsons, Georgina, Helyar, Sinead, Bodenham, Andrew R, Elliot, Stuart, Beardow, Zoe, Birch, Sian, Marsh, Brian, Martin, Teresa, Dhrampal, Akesh, Rosbergen, Melissa, Webb, Stephen, Bottrill, Fiona, Reschreiter, Henrik, Barcraft-Barnes, Helena, Camsooksai, Julie, Johnston, Andrew, Clarkson, Aisling, Bentley, Conor, Cooper, Lauren, Qui, Yongyan, Mitchell, Natalie, Carrera, Ronald, Whitehouse, Arlo, Danbury, Christopher M, Jacques, Nicola, Brown, Abby, Rogerson, David, Morris, Craig, Walsh, Timothy, Gillies, Mike, Price, Grant, Kefala, Kallirroi, Young, Neil, Hope, David, McCulloch, Corrienne, Antonelli, Jean, Ramsay, Pam, Everingham, Kirsty, Boardman, Louise, Dawson, Heidi, Pollock, Fiona, Thompson, Joanne, Welters, Ingeborg D, Poole, Lee, Hampshire, Peter, Hall, Alison, Williams, Karen, Walker, Anna, Youds, Laura, Hendry, Samantha, Waugh, Victoria, Patrick-Heselton, Julie, Shaw, David, Chaudry, Irfan, Baldwin, Jacqueline, Drage, Stephen, Ortiz-Ruiz de Gordoa, Laura, McAuley, Daniel, Bannon, Leona, Quinn, Vanessa, McNamee, Lia, White, Griania, Cecconi, Maurizio, Mellinghoff, Johannes, Ryan, Donal, Nichol, Alistair, Agarwal, Banwari, Meale, Paula, James, Sarah, Dhadwal, Kulwant, Martin, Daniel, Walecka, Agnieszka, Ward, Stephen, Trinder, John, Hagan, Samantha, Montgomery, Janice, Leonard, Catherine, Lemon, Elizabeth, Trinick, Tom, Buddhavarapu, Murthy, Ward, Geraldine, Bassford, Christopher, Davidson, Alan, McGuigan, Kate, Benchiheub, Anissa, Hickey, Naomi, Binning, Alexander, Henderson, Steven, Wood, J A, Burtenshaw, Andrew J, Kelly, Dawn, Martin, Terry, Thrush, Jessica, Wollaston, Julie, Graystone, Stephen, Nicol, Gavin, Sellors, Gareth, Calfee, Carolyn S, Delucchi, Kevin L, Sinha, Pratik, Matthay, Michael A, Hackett, Jonathan, Shankar-Hari, Manu, McDowell, Cliona, Laffey, John G, O'Kane, Cecilia M, and McAuley, Daniel F

Published
2018
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49. Synthesis and profiling of benzylmorpholine 1,2,4,5-tetraoxane analogue N205: Towards tetraoxane scaffolds with potential for single dose cure of malaria

Author

O' Neill, Paul M., Stocks, Paul A., Sabbani, Sunil, Roberts, Natalie L., Amewu, Richard K., Shore, Emma R., Aljayyoussi, Ghaith, Angulo-Barturén, Iñigo, Belén, María, Jiménez-Díaz, Bazaga, Santiago Ferrer, Martínez, María Santos, Campo, Brice, Sharma, Raman, Charman, Susan A., Ryan, Eileen, Chen, Gong, Shackleford, David M., Davies, Jill, Nixon, Gemma L., Biagini, Giancarlo A., and Ward, Stephen A.

Published
2018
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50. The Paddington International Virtual Chromoendoscopy Score in ulcerative colitis exhibits very good inter-rater agreement after computerized module training: a multicenter study across academic and community practice (with video)

Author

Trivedi, Palak J., Kiesslich, Ralf, Hodson, James, Bhala, Neeraj, Boulton, Ralph A., Cooney, Rachel, Gui, Xianyong, Iqbal, Tariq, Li, Ka-kit, Mumtaz, Saqib, Pathmakanthan, Shri, Quraishi, Mohammed Nabil, Sagar, Vandana M., Shah, Ashit, Sharma, Naveen, Siau, Keith, Smith, Samuel, Ward, Stephen, Widlak, Monika M., Bisschops, Raf, Ghosh, Subrata, and Iacucci, Marietta

Published
2018
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