DNA-protein quasi-mapping for rapid differential gene expression analysis in non-model organisms

Autor: Kyle Christian L. Santiago, Anish M. S. Shrestha

Publikováno v: BMC Bioinformatics, Vol 25, Iss S2, Pp 1-15 (2024)

Abstract Background Conventional differential gene expression analysis pipelines for non-model organisms require computationally expensive transcriptome assembly. We recently proposed an alternative strategy of directly aligning RNA-seq reads to a pr

Externí odkaz: https://doaj.org/article/be4eff8e04bf4b17b00e898db06e75f0

WRF-Comfort: simulating microscale variability in outdoor heat stress at the city scale with a mesoscale model

Autor: A. Martilli, N. Nazarian, E. S. Krayenhoff, J. Lachapelle, J. Lu, E. Rivas, A. Rodriguez-Sanchez, B. Sanchez, J. L. Santiago

Publikováno v: Geoscientific Model Development, Vol 17, Pp 5023-5039 (2024)

Urban overheating and its ongoing exacerbation due to global warming and urban development lead to increased exposure to urban heat and increased thermal discomfort and heat stress. To quantify thermal stress, specific indices have been proposed that

Externí odkaz: https://doaj.org/article/5530e06911fa4d9097e878ac9edde12c

Immunotherapy-induced cytotoxic T follicular helper cells reduce numbers of retrovirus-infected reservoir cells in B cell follicles.

Autor: Anna Malyshkina, Wibke Bayer, Philip Podschwadt, Lucas Otto, Zehra Karakoese, Kathrin Sutter, Kirsten Bruderek, Baoxiao Wang, Kerry J Lavender, Mario L Santiago, Pia Madeleine Leipe, Carina Elsner, Stefan Esser, Sven Brandau, Matthias Gunzer, Ulf Dittmer

Publikováno v: PLoS Pathogens, Vol 19, Iss 10, p e1011725 (2023)

Antiretroviral therapy (ART) transformed HIV from a life-threatening disease to a chronic condition. However, eliminating the virus remains an elusive therapy goal. For several decades, Friend virus (FV) infection serves as a murine model to study re

Externí odkaz: https://doaj.org/article/a81ed88024bb4e859ce8d252a4270370

Global associations of key populations with HIV-1 recombinants: a systematic review, global survey, and individual participant data meta-analysis

Autor: Nkazi Nchinda, Ramyiadarsini Elangovan, Jason Yun, Leslie Dickson-Tetteh, Shona Kirtley, Joris Hemelaar, WHO-UNAIDS Network for HIV Isolation and Characterisation, Alash'le G. Abimiku, Simon Agwale, Chris Archibald, Boaz Avidor, Barbás María Gabriela, Francoise Barre-Sinoussi, Banson Barugahare, El Hadj Belabbes, Silvia Bertagnolio, Deborah Birx, Aleksei F. Bobkov, James Brandful, Helba Bredell, Catherine A. Brennan, James Brooks, Marie Bruckova, Luigi Buonaguro, Franco Buonaguro, Stefano Buttò, Anne Buve, Mary Campbell, Jean Carr, Alex Carrera, Manuel Gómez Carrillo, Connie Celum, Beth Chaplin, Macarthur Charles, Dimitrios Chatzidimitriou, Zhiwei Chen, Katsumi Chijiwa, David Cooper, Philip Cunningham, Anoumou Dagnra, Cillian F. de Gascun, Julia Del Amo, Elena Delgado, Ursula Dietrich, Dominic Dwyer, Dennis Ellenberger, Barbara Ensoli, Max Essex, Herve Fleury, Peter N. Fonjungo, Vincent Foulongne, Deepak A. Gadkari, Feng Gao, Federico García, Roger Garsia, Guy Michel Gershy-Damet, Judith R. Glynn, Ruth Goodall, Zehava Grossman, Monick Lindenmeyer Guimarães, Beatrice Hahn, Raph L. Hamers, Osamah Hamouda, Ray Handema, Xiang He, Joshua Herbeck, David D. Ho, Africa Holguin, Mina Hosseinipour, Gillian Hunt, Masahiko Ito, Mohamed Ali Bel Hadj Kacem, Erin Kahle, Pontiano Kaleebu, Marcia Kalish, Adeeba Kamarulzaman, Chun Kang, Phyllis Kanki, Edward Karamov, Jean-Claude Karasi, Kayitesi Kayitenkore, Tony Kelleher, Dwip Kitayaporn, Leondios G. Kostrikis, Claudia Kucherer, Claudia Lara, Thomas Leitner, Kirsi Liitsola, Jai Lingappa, Marek Linka, Ivette Lorenzana de Rivera, Vladimir Lukashov, Shlomo Maayan, Luzia Mayr, Francine McCutchan, Nicolas Meda, Elisabeth Menu, Fred Mhalu, Doreen Mloka, John L. Mokili, Brigitte Montes, Orna Mor, Mariza Morgado, Fausta Mosha, Awatef Moussi, James Mullins, Rafael Najera, Mejda Nasr, Nicaise Ndembi, Joel R. Neilson, Vivek R. Nerurkar, Florian Neuhann, Claudine Nolte, Vlad Novitsky, Philippe Nyambi, Marianna Ofner, Fem J. Paladin, Anna Papa, Jean Pape, Neil Parkin, Chris Parry, Martine Peeters, Alexandra Pelletier, Lucía Pérez-Álvarez, Deenan Pillay, Angie Pinto, Trinh Duy Quang, Cecilia Rademeyer, Filimone Raikanikoda, Mark A. Rayfield, Jean-Marc Reynes, Tobias Rinke de Wit, Kenneth E. Robbins, Morgane Rolland, Christine Rousseau, Jesus Salazar-Gonzales, Hanan Salem, Mika Salminen, Horacio Salomon, Paul Sandstrom, Mario L. Santiago, Abdoulaye D. Sarr, Bryan Schroeder, Michel Segondy, Philippe Selhorst, Sylvester Sempala, Jean Servais, Ansari Shaik, Yiming Shao, Amine Slim, Marcelo A. Soares, Elijah Songok, Debbie Stewart, Julie Stokes, Shambavi Subbarao, Ruengpung Sutthent, Jun Takehisa, Amilcar Tanuri, Kok Keng Tee, Kiran Thapa, Michael Thomson, Tyna Tran, Willy Urassa, Hiroshi Ushijima, Philippe van de Perre, Guido van der Groen, Kristel van Laethem, Joep van Oosterhout, Ard van Sighem, Eric van Wijngaerden, Anne-Mieke Vandamme, Jurgen Vercauteren, Nicole Vidal, Lesley Wallace, Carolyn Williamson, Dawit Wolday, Jianqing Xu, Chunfu Yang, Linqi Zhang, Rong Zhang

Publikováno v: Frontiers in Public Health, Vol 11 (2023)

IntroductionGlobal HIV infections due to HIV-1 recombinants are increasing and impede prevention and treatment efforts. Key populations suffer most new HIV infections, but their role in the spread of HIV-1 recombinants is unknown. We conducted a glob

Externí odkaz: https://doaj.org/article/c1dc28e1047a4d5f998d0e6d54278633

Pharmacokinetics of hydroxychloroquine in paediatric lupus: data from a novel, direct-to-family clinical trial

Autor: E Schmitt, C Smith, G Schulert, S Canna, A Grom, E Mellins, A Brown, J Smith, A Stevens, M Watson, S Jones, K Stewart, E Baker, A Kemp, T Davis, A Smith, S Jackson, C Williams, K Jones, T Mason, A Hanson, Y Zhao, B Thomas, A Reed, J Jones, J Cooper, T Lee, J Chang, M Holland, S Joshi, L Lim, C Ramírez, A Murphy, K Moore, E Pagano, B ferreira, S Li, P Lee, H Schmeling, K Abulaban, R Agbayani, S Akoghlanian, E Anderson, L Barillas-Arias, K Baszis, M Becker, H Bell-Brunson, H Benham, S Benseler, T Beukelman, H Brunner, H Bukulmez, L Cerracchio, E Chalom, K Chundru, J Dean, F Dedeoglu, V Dempsey, J Drew, B Feldman, P Ferguson, C Fleming, L Franco, I Goh, D Goldsmith, B Gottlieb, T Graham, T Griffin, M Hance, K Hickey, M Hollander, J Hsu, A Huber, C Hung, A Huttenlocher, L Imundo, C Inman, J Jaquith, L Jung, D Kingsbury, K Klein, M Klein-Gitelman, S Kramer, S Lapidus, D Latham, B Malla, M Malloy, A Martyniuk, K McConnell, D McCurdy, C McMullen-Jackson, L Moorthy, E Muscal, J Olson, K Onel, L Ponder, S Prahalad, C Rabinovich, S Ringold, M Riordan, A Robinson, M Rosenkranz, B Rosolowski, N Ruth, K Schikler, H Stapp, R Syed, M Tesher, A Thatayatikom, R Vehe, E von Scheven, D Wahezi, A Watts, J Weiss, J Wagner, S Kim, Y Zhang, L Favier, J Patel, S Morgan, A Jackson, J Stokes, L Marques, Stephen J Balevic, K Hayward, A White, J Nicholas, D Lovell, A Zeft, J Harris, E Lawson, C Moss, N George, M Sutter, A Cooper, M Adams, S Cooper, M Miller, C Black, R Schneider, J Taylor, R Sran, M Oliver, M Twilt, M Tóth, J Walker, M Mitchell, F De Benedetti, N Singer, M Fox, K Kaufman, A Merritt, R Stevenson, J Fuller, M Fitzgerald, A Davis, C Davis, L Henderson, J Woo, S Mohan, H Reid, Y Kimura, L Harel, R Laxer, K McCarthy, I Ferguson, E McCormick, A Hay, M Guzman, E Fox, P Hill, A PARSONS, S McGuire, J Lam, C Sandborg, B Stevens, J Boland, S Ballinger, E MENDOZA, J NOCTON, M Ritter, N Johnson, J Shirley, S Bowman, M Ibarra, S Hong, M Guevara, K James, L Santiago, A Adams, B DONALDSON, M Son, C Kremer, K Schmidt, T Wright, L Cannon, R Nicolai, M Freeman, S Spence, D Levy, J Paredes, K Gerhold, A Insalaco, T O'Brien, W Bernal, E Kessler, C Lin, M Lerman, T Hahn, B O'Brien, Michael Cohen-Wolkowiez, Christoph P Hornik, N Abel, J Aiello, C Alejandro, E Allenspach, R Alperin, M Alpizar, G Amarilyo, W Ambler, S Ardoin, S Armendariz, I Balboni, S Balevic, L Ballenger, N Balmuri, F Barbar-Smiley, M Basiaga, E Beltz, T Bigley, B Binstadt, M Blakley, J Bohnsack, A Boneparth, C Bracaglia, E Brooks, M Brothers, M Buckley, D Bullock, B Cameron, P Carper, V Cartwright, E Cassidy, A Chang-Hoftman, V Chauhan, P Chira, T Chinn, H Clairman, D Co, A Confair, H Conlon, R Connor, C Correll, R Corvalan, D Costanzo, R Cron, L Curiel-Duran, T Curington, M Curry, A Dalrymple, D De Ranieri, M De Guzman, N Delnay, E DeSantis, T Dickson, J Dingle, E Dorsey, S Dover, J Dowling, K Driest, Q Du, K Duarte, D Durkee, E Duverger, J Dvergsten, A Eberhard, M Eckert, K Ede, B Edelheit, C Edens, Y Edgerly, M Elder, B Ervin, S Fadrhonc, C Failing, D Fair, M Falcon, S Federici, J Fennell, R Ferrucho, K Fields, T Finkel, O Flynn, L Fogel, K Fritz, S Froese, R Fuhlbrigge, D Gerstbacher, M Gilbert, M Gillispie-Taylor, E Giverc, C Godiwala, H Goheer, E Gotschlich, A Gotte, C Gracia, S Grevich, J Griswold, P Guittar, M Hager, O Halyabar, E Hammelev, S Haro, O Harry, E Hartigan, J Hausmann, J Heiart, K Hekl, M Henrickson, A Hersh, S Hillyer, L Hiraki, M Hiskey, P Hobday, C Hoffart, M Horwitz, J Huggins, J HuiYuen, J Huntington, G Janow, S Jared, C Justice, A Justiniano, N Karan, U Khalsa, B Kienzle, M Kitcharoensakkul, T Klausmeier, B Kompelien, A Kosikowski, L Kovalick, J Kracker, J Lai, B Lang, B Lapin, A Lasky, L Lentini, S Lieberman, N Ling, M Lingis, M Lo, D Lowman, N Luca, S Lvovich, C Madison, J Madison, S Magni Manzoni, J Maller, M Mannion, C Manos, S Mathus, L McAllister, P McCurdy Stokes, I McHale, A McMonagle, E Meidan, R Mercado, L Michalowski, P Miettunen, D Milojevic, E Mirizio, E Misajon, R Modica, E Morgan Dewitt, T Moussa, V Mruk, R Nadler, B Nahal, K Nanda, N Nasah, L Nassi, S Nativ, M Natter, J Neely, B Nelson, L Newhall, L Ng, P Nigrovic, B Nolan, E Oberle, B Obispo, O Okeke, K O'Neil, A Orandi, M Orlando, S Osei-Onomah, R Oz, A Paller, N Pan, S Panupattanapong, M Pardeo, K Pentakota, P Pepmueller, T Pfeiffer, K Phillippi, D Pires Marafon, R Pooni, S Pratt, S Protopapas, B Puplava, J Quach, M Quinlan-Waters, S Radhakrishna, J Rafko, J Raisian, A Rakestraw, E Ramsay, S Ramsey, R Randell, K Remmel, A Repp, A Reyes, A Richmond, M Riebschleger, M Riskalla, R Rivas-Chacon, E Rodela, M Rodriquez, K Rojas, T Ronis, H Rothermel, D Rothman, E Roth-Wojcicki, K Rouster-Stevens, T Rubinstein, N Saad, S Sabbagh, E Sacco, R Sadun, A Sanni, A Sarkissian, S Savani, L Scalzi, L Schanberg, S Scharnhorst, A Schlefman, K Schollaert-Fitch, T Seay, C Seper, J Shalen, R Sheets, A Shelly, S Shenoi, K Shergill, M Shishov, C Shivers, E Silverman, V Sivaraman, J Sletten, E Smitherman, J Soep, L Spiegel, J Spitznagle, H Srinivasalu, K Steigerwald, Y Sterba Rakovchik, S Stern, C Stingl, M Stoll, E Stringer, S Sule, J Sumner, R Sundel, G Syverson, A Szymanski, S Taber, R Tal, A Tambralli, A Taneja, T Tanner, S Tapani, G Tarshish, S Tarvin, L Tate, A Taxter, M Terry, K Tiffany, T Ting, A Tipp, D Toib, K Torok, C Toruner, H Tory, S Tse, V Tubwell, S Uriguen, T Valcarcel, H Van Mater, L Vannoy, C Varghese, N Vasquez, K Vazzana, K Veiga, J Velez, J Verbsky, G Vilar, N Volpe, S Vora, L Wagner-Weiner, H Waite, H Walters, T Wampler Muskardin, L Waqar, M Waterfield, P Weiser, P Weiss, E Wershba, A Wise, L Woolnough, E Wu, A Yalcindag, M Yee, E Yen, R Yeung, K Yomogida, Q Yu, R Zapata, A Zartoshti, R Zeft, A Zhu, C Zic, Daniel Weiner, Daniel Gonzalez, Rachel Randell, Claire Beard

Publikováno v: Lupus Science and Medicine, Vol 9, Iss 1 (2022)

Objective Determine the pharmacokinetics (PK) and exposure–response of hydroxychloroquine (HCQ) and desethylhydroxychloroquine (DHCQ) in paediatric SLE (pSLE).Methods We conducted an exploratory phase 2, direct-to-family trial. Children enrolled in

Externí odkaz: https://doaj.org/article/20ce5e9cb2a841b29d1ddbfe3a1ed845