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3. Bayesian Simultaneous Factorization and Prediction Using Multi-Omic Data

Author

Samorodnitsky, Sarah, Wendt, Chris H., and Lock, Eric F.

Subjects
Statistics - Methodology, Statistics - Machine Learning
Abstract

Understanding of the pathophysiology of obstructive lung disease (OLD) is limited by available methods to examine the relationship between multi-omic molecular phenomena and clinical outcomes. Integrative factorization methods for multi-omic data can reveal latent patterns of variation describing important biological signal. However, most methods do not provide a framework for inference on the estimated factorization, simultaneously predict important disease phenotypes or clinical outcomes, nor accommodate multiple imputation. To address these gaps, we propose Bayesian Simultaneous Factorization (BSF). We use conjugate normal priors and show that the posterior mode of this model can be estimated by solving a structured nuclear norm-penalized objective that also achieves rank selection and motivates the choice of hyperparameters. We then extend BSF to simultaneously predict a continuous or binary response, termed Bayesian Simultaneous Factorization and Prediction (BSFP). BSF and BSFP accommodate concurrent imputation and full posterior inference for missing data, including "blockwise" missingness, and BSFP offers prediction of unobserved outcomes. We show via simulation that BSFP is competitive in recovering latent variation structure, as well as the importance of propagating uncertainty from the estimated factorization to prediction. We also study the imputation performance of BSF via simulation under missing-at-random and missing-not-at-random assumptions. Lastly, we use BSFP to predict lung function based on the bronchoalveolar lavage metabolome and proteome from a study of HIV-associated OLD. Our analysis reveals a distinct cluster of patients with OLD driven by shared metabolomic and proteomic expression patterns, as well as multi-omic patterns related to lung function decline. Software is freely available at https://github.com/sarahsamorodnitsky/BSFP .

Published
2022

6. Early trajectories of virological and immunological biomarkers and clinical outcomes in patients admitted to hospital for COVID-19: an international, prospective cohort study

Author

Sahner, David, Tierney, John, Vogel, Susan E., Herpin, Betsey R., Smolskis, Mary C., McKay, Laura A., Cahill, Kelly, Crew, Page, Sardana, Ratna, Raim, Sharon Segal, Hensely, Lisa, Lorenzo, Johsua, Mock, Rebecca, Zuckerman, Judith, Atri, Negin, Miller, Mark, Vallee, David, Chung, Lucy, Kang, Nayon, Barrett, Kevin, Adam, Stacey J., Read, Sarah, Draghia-Akli, Ruxandra, Currier, Judy, Hughes, Eric, Harrigan, Rachel H., Amos, Laura, Carlsen, Amy, Carter, Anita, Collins, Gary, Davis, Bionca, Denning, Eileen, DuChene, Alain, Eckroth, Kate, Engen, Nicole, Frase, Alex, Gandits, Greg, Grund, Birgit, Harrison, Merrie, Hurlbut, Nancy, Kaiser, Payton, Koopmeiners, Joseph, Larson, Gregg, Meger, Sue, Mistry, Shweta Sharma, Murray, Thomas, Nelson, Ray, Quan, Kien, Quan, Siu Fun, Reilly, Cavan, Siegel, Lianne, Thompson, Greg, Vock, David, Walski, Jamie, Gelijns, Annetine C., Moskowitz, Alan J., Bagiella, Emilia, Moquete, Ellen, O'Sullivan, Karen, Marks, Mary E., Accardi, Evan, Kinzel, Emily, Burris, Sarah, Bedoya, Gabriela, Gupta, Lola, Overbey, Jessica R., Santos, Milerva, Gillinov, Marc A., Miller, Marissa A., Taddei-Peters, Wendy C., Fenton, Kathleen, Sandkovsky, Uriel, Gottlieb, Robert L., Mack, Michael, Berhe, Mezgebe, Haley, Clinton, Dishner, Emma, Bettacchi, Christopher, Golden, Kevin, Duhaime, Erin, Ryan, Madison, Tallmadge, Catherine, Estrada, Lorie, Jones, Felecia, Villa, Samatha, Wang, Samatha, Robert, Raven, Coleman, Tanquinisha, Clariday, Laura, Baker, Rebecca, Hurutado-Rodriguez, Mariana, Iram, Nazia, Fresnedo, Michelle, Davis, Allyson, Leonard, Kiara, Ramierez, Noelia, Thammavong, Jon, Duque, Krizia, Turner, Emma, Fisher, Tammy, Robinson, Dianna, Ransom, Desirae, Maldonado, Nicholas, Lusk, Erica, Killian, Aaron, Palacious, Adriana, Solis, Edilia, Jerrow, Janet, Watts, Matthew, Whitacre, Heather, Cothran, Elizabeth, Smith, Peter K., Barkauskas, Christina E., Vekstein, Andrew M., Ko, Emily R., Dreyer, Grace R., Stafford, Neil, Brooks, Megan, Der, Tatyana, Witte, Marie, Gamarallage, Ruwan, Franzone, John, Ivey, Noel, Lumsden, Rebecca H., Mosaly, Nilima, Mourad, Ahmaad, Holland, Thomas L., Motta, Mary, Lane, Kathleen, McGowan, Lauren M., Stout, Jennifer, Aloor, Heather, Bragg, Kennesha M., Toledo, Barvina, McLendon-Arvik, Beth, Bussadori, Barbara, Hollister, Beth A., Griffin, Michelle, Giangiacomo, Dana M., Rodriguez, Vicente, Bokhart, Gordon, Eichman, Sharon M., Parrino, Patrick E., Spindel, Stephen, Bansal, Aditya, Baumgarten, Katherine, Hand, Johnathan, Vonderhaar, Derek, Nossaman, Bobby, Sylvia Laudun, Ames, DeAnna, Broussard, Shane, Hernandez, Nilmo, Isaac, Geralyn, Dinh, Huan, Zheng, Yiling, Tran, Sonny, McDaniel, Hunter, Crovetto, Nicolle, Perin, Emerson, Costello, Briana, Manian, Prasad, Sohail, M. Rizwan, Postalian, Alexander, Hinsu, Punit, Watson, Carolyn, Chen, James, Fink, Melyssa, Sturgis, Lydia, Walker, Kim, Mahon, Kim, Parenti, Jennifer, Kappenman, Casey, Knight, Aryn, Sturek, Jeffrey M., Barros, Andrew, Enfield, Kyle B., Kadl, Alexandra, Green, China J., Simon, Rachel M., Fox, Ashley, Thornton, Kara, Adams, Amy, Badhwar, Vinay, Sharma, Sunil, Peppers, Briana, McCarthy, Paul, Krupica, Troy, Sarwari, Arif, Reece, Rebecca, Fornaresico, Lisa, Glaze, Chad, Evans, Raquel, Di, Fang, Carlson, Shawn, Aucremanne, Tanja, Tennant, Connie, Sutton, Lisa Giblin, Buterbaugh, Sabrina, Williams, Roger, Bunner, Robin, Traverse, Jay H., Rhame, Frank, Huelster, Joshua, Kethireddy, Rajesh, Davies, Irena, Salamanca, Julianne, Majeski, Christine, Skelton, Paige, Zarambo, Maria, Sarafolean, Andrea, Bowdish, Michael E., Borok, Zea, Wald-Dickler, Noah, Hutcheon, Douglass, Towfighi, Amytis, Lee, Mary, Lewis, Meghan R., Spellberg, Brad, Sher, Linda, Sharma, Aniket, Olds, Anna P., Justino, Chris, Loxano, Edward, Romero, Chris, Leong, Janet, Rodina, Valentina, Quesada, Christine, Hamilton, Luke, Escobar, Jose, Leshnower, Brad, Bender, William, Sharifpour, Milad, Miller, Jeffrey, Farrington, Woodrow, Baio, Kim T., McBride, Mary, Fielding, Michele, Mathewson, Sonya, Porte, Kristina, Maton, Missy, Ponder, Chari, Haley, Elisabeth, Spainhour, Christine, Rogers, Susan, Tyler, Derrick, Madathil, Ronson J., Rabin, Joseph, Levine, Andrea, Saharia, Kapil, Tabatabai, Ali, Lau, Christine, Gammie, James S., Peguero, Maya-Loren, McKernan, Kimberly, Audette, Mathew, Fleischmann, Emily, Akbari, Kreshta, Lee, Myounghee, Chi, Andrew, Salehi, Hanna, Pariser, Alan, Nyguyen, Phuong Tran, Moore, Jessica, Gee, Adrienne, Vincent, Shelika, Zuckerman, Richard A., Iribarne, Alexander, Metzler, Sara, Shipman, Samantha, Johnson, Haley, Newton, Crystallee, Parr, Doug, Miller, Leslie, Schelle, Beth, McLean, Sherry, Rothbaum, Howard R., Alvarez, Michael S., Kalan, Shivam P., Germann, Heather H., Hendershot, Jennifer, Moroney, Karen, Herring, Karen, Cook, Sharri, Paul, Pam, Walker-Ignasiak, Rebecca, North, Crystal, Oldmixon, Cathryn, Ringwood, Nancy, Muzikansky, Ariela, Morse, Richard, Fitzgerald, Laura, Morin, Haley D., Brower, Roy G., Reineck, Lora A., Bienstock, Karen, Steingrub, Jay H., Hou, Peter K., Steingrub, Jay S., Tidswell, Mark A., Kozikowski, Lori-Ann, Kardos, Cynthia, DeSouza, Leslie, Romain, Sarah, Thornton-Thompson, Sherell, Talmor, Daniel, Shapiro, Nathan, Andromidas, Konstantinos, Banner-Goodspeed, Valerie, Bolstad, Michael, Boyle, Katherine L., Cabrera, Payton, deVilla, Arnaldo, Ellis, Joshua C., Grafals, Ana, Hayes, Sharon, Higgins, Conor, Kurt, Lisa, Kurtzman, Nicholas, Redman, Kimberly, Rosseto, Elinita, Scaffidi, Douglas, Filbin, Michael R., Hibbert, Kathryn A., Parry, Blair, Margolin, Justin, Hillis, Brooklynn, Hamer, Rhonda, Brait, Kelsey, Beakes, Caroline, McKaig, Brenna, Kugener, Eleonore, Jones, Alan E., Galbraith, James, Nandi, Utsav, Peacock, Rebekah, Hendey, Gregory, Kangelaris, Kirsten, Ashktorab, Kimia, Gropper, Rachel, Agrawal, Anika, Yee, Kimberley J., Jauregui, Alejandra E., Zhuo, Hanjing, Almasri, Eyad, Fayed, Mohamed, Hubel, Kinsley A., Hughes, Alyssa R., Garcia, Rebekah L., Lim, George W., Chang, Steven Y., Lin, Michael Y., Vargas, Julia, Sihota, Hena, Beutler, Rebecca, Agarwal, Trisha, Wilson, Jennifer G., Vojnik, Rosemary, Perez, Cynthia, McDowell, Jordan H., Roque, Jonasel, Wang, Henry, Huebinger, Ryan M., Patel, Bela, Vidales, Elizabeth, Albertson, Timothy, Hardy, Erin, Harper, Richart, Moss, Marc A., Baduashvili, Amiran, Chauhan, Lakshmi, Douin, David J., Martinez, Flora, Finck, Lani L., Bastman, Jill, Howell, Michelle, Higgins, Carrie, McKeehan, Jeffrey, Finigan, Jay, Stubenrauch, Peter, Janssen, William J., Griesmer, Christine, VerBurg, Olivia, Hyzy, Robert C., Park, Pauline K., Nelson, Kristine, McSparron, Jake I., Co, Ivan N., Wang, Bonnie R., Jimenez, Jose, Olbrich, Norman, McDonough, Kelli, Jia, Shijing, Hanna, Sinan, Gong, Michelle N., Richardson, Lynne D., Nair, Rahul, Lopez, Brenda, Amosu, Omowunmi, Offor, Obiageli, Tzehaie, Hiwet, Nkemdirim, William, Boujid, Sabah, Mosier, Jarrod M., Hypes, Cameron, Campbell, Elizabeth Salvagio, Bixby, Billie, Gilson, Boris, Lopez, Anitza, Bime, Christian, Parthasarathy, Sairam, Cano, Ariana M., Hite, R. Duncan, Terndrup, Thomas E., Wiedemann, Herbert P., Hudock, Kristin, Tanzeem, Hammad, More, Harshada, Martinkovic, Jamie, Sellers, Susan, Houston, Judy, Burns, Mary, Kiran, Simra, Roads, Tammy, Kennedy, Sarah, Duggal, Abhijit, Thiruchelvam, Nirosshan, Ashok, Kiran, King, Alexander H., Mehkri, Omar, Dugar, Siddharth, Sahoo, Debasis, Yealy, Donald M., Angus, Derek C., Weissman, Alexandra J., Vita, Tina M., Berryman, Emily, Hough, Catherine L., Khan, Akram, Krol, Olivia F., Mills, Emmanuel, Kinjal, Mistry, Briceno, Genesis, Reddy, Raju, Hubel, Kinsley, Jouzestani, Milad K., McDougal, Madeline, Deshmukh, Rupali, Johnston, Nicholas J., Robinson, Bryce H., Gundel, Staphanie J., Katsandres, Sarah C., Chen, Peter, Torbati, Sam S., Parimon, Tanyalak, Caudill, Antonina, Mattison, Brittany, Jackman, Susan E., Chen, Po-En, Bayoumi, Emad, Ojukwu, Cristabelle, Fine, Devin, Weissberg, Gwendolyn, Isip, Katherine, Choi-Kuaea, Yunhee, Mehdikhani, Shaunt, Dar, Tahir B., Fleury Augustin, Nsole Biteghe, Tran, Dana, Dukov, Jennifer Emilow, Matusov, Yuri, Choe, June, Hindoyan, Niree A., Wynter, Timothy, Pascual, Ethan, Clapham, Gregg J., Herrera, Lisa, Caudill, Antonia, O’Mahony, D. Shane, Nyatsatsang, Sonam T., Wilson, David M., Wallick, Julie A., Duven, Alexandria M., Fletcher, Dakota D., Miller, Chadwick, Files, D. Clark, Gibbs, Kevin W., Flores, Lori S., LaRose, Mary E., Landreth, Leigha D., Palacios, D. Rafael, Parks, Lisa, Hicks, Madeline, Goodwin, Andrew J., Kilb, Edward F., Lematty, Caitlan T., Patti, Kerilyn, Grady, Abigail, Rasberry, April, Morris, Peter E., Sturgill, Jamie L., Cassity, Evan P., Dhar, Sanjay, Montgomery-Yates, Ashley A., Pasha, Sarah N., Mayer, Kirby P., Pharm.D., Brittany Bissel, Trott, Terren, Rehman, Shahnaz, de Wit, Marjolein, Mason, Jessica, Bledsoe, Joseph, Knowlton, Kirk U., Brown, Samuel, Lanspa, Michael, Leither, Lindsey, Pelton, Ithan, Armbruster, Brent P., Montgomery, Quinn, Kumar, Naresh, Fergus, Melissa, Imel, Karah, Palmer, Ghazal, Webb, Brandon, Klippel, Carolyn, Jensen, Hannah, Duckworth, Sarah, Gray, Andrew, Burke, Tyler, Knox, Dan, Lumpkin, Jenna, Aston, Valerie T., Applegate, Darrin, Serezlic, Erna, Brown, Katie, Merril, Mardee, Harris, Estelle S., Middleton, Elizabeth A., Barrios, Macy A.G., Greer, Jorden, Schmidt, Amber D., Webb, Melissa K., Paine, Roert, Callahan, Sean J., Waddoups, Lindsey J., Yamane, Misty B., Self, Wesley H., Rice, Todd W., Casey, Jonathan D., Johnson, Jakea, Gray, Christopher, Hays, Margaret, Roth, Megan, Menon, Vidya, Kasubhai, Moiz, Pillai, Anjana, Daniel, Jean, Sittler, Daniel, Kanna, Balavenkatesh, Jilani, Nargis, Amaro, Francisco, Santana, Jessica, Lyakovestsky, Aleksandr, Madhoun, Issa, Desroches, Louis Marie, Amadon, Nicole, Bahr, Alaa, Ezzat, Imaan, Guerrero, Maryanne, Padilla, Joane, Fullmer, Jessie, Singh, Inderpreet, Ali Shah, Syed Hamad, Narang, Rajeev, Mock, Polly, Shadle, Melissa, Hernandez, Brenda, Welch, Kevin, Payne, Andrea, Ertl, Gabriela, Canario, Daniel, Barrientos, Isabel, Goss, Danielle, DeVries, Mattie, Folowosele, Ibidolapo, Garner, Dorothy, Gomez, Mariana, Price, Justin, Bansal, Ekta, Wong, Jim, Faulhaber, Jason, Fazili, Tasaduq, Yeary, Brian, Ndolo, Ruth, Bryant, Christina, Smigeil, Bridgette, Robinson, Philip, Najjar, Rana, Jones, Patrice, Nguyen, Julie, Chin, Christina, Taha, Hassan, Najm, Salah, Smith, Christopher, Moore, Jason, Nassar, Talal, Gallinger, Nick, Christian, Amy, Mauer, D’Amber, Phipps, Ashley, Waters, Michael, Zepeda, Karla, Coslet, Jordan, Landazuri, Rosalynn, Pineda, Jacob, Uribe, Nicole, Garcia, Jose Ruiz, Barbabosa, Cecilia, Sandler, Kaitlyn, Overcash, J. Scott, Marquez, Adrienna, Chu, Hanh, Lee, Kia, Quillin, Kimberly, Garcia, Andrea, Lew, Pauline, Rogers, Ralph, Shehadeh, Fadi, Mylona, Evangelia K., Kaczynski, Matthew, Tran, Quynh-Lam, Benitez, Gregorio, Mishra, Biswajit, Felix, Lewis Oscar, Vafea, Maria Tsikala, Atalla, Eleftheria, Davies, Robin, Hedili, Salma, Monkeberg, Maria Andrea, Tabler, Sandra, Harrington, Britt, Meegada, Sreenath, Koripalli, Venkata Sandeep, Muddana, Prithvi, Jain, Lakshay, Undavalli, Chaitanya, Kavya, Parasa, Ibiwoye, Mofoluwaso, Akilo, Hameed, Lovette, Bryce D., Wylie, Jamie-Crystal, Smith, Diana M., Poon, Kenneth, Eckardt, Paula, Heysu, Rubio-Gomez, Sundararaman, Nithya, Alaby, Doris, Sareli, Candice, Sánchez, Adriana, Popielski, Laura, Kambo, Amy, Viens, Kimberley, Turner, Melissa, Vjecha, Michael J., Weintrob, Amy, Brar, Indira, Markowitz, Norman, Pastor, Erika, Corpuz, Roweena, Alangaden, George, McKinnon, John, Ramesh, Mayur, Herc, Erica, Yared, Nicholas, Lanfranco, Odaliz Abreu, Rivers, Emanuel, Swiderek, Jennifer, Gupta, Ariella Hodari, Pabla, Pardeep, Eliya, Sonia, Jazrawi, Jehan, Delor, Jeremy, Desai, Mona, Cook, Aaron, Jaehne, Anja Kathrina, Gill, Jasreen Kaur, Renaud, Sheri, Sarveswaran, Siva, Gardner, Edward, Scott, James, Bianchini, Monica, Melvin, Casey, Kim, Gina, Wyles, David, Kamis, Kevin, Miller, Rachel, Douglas, Ivor, Haukoos, Jason, Hicks, Carrie, Lazarte, Susana, Marines-Price, Rubria, Osuji, Alice, Agbor Agbor, Barbine Tchamba, Petersen, Tianna, Kamel, Dena, Hansen, Laura, Garcia, Angie, Cha, Christine, Mozaffari, Azadeh, Hernandez, Rosa, Cutrell, James, Kim, Mina, DellaValle, Natalie, Gonzales, Sonia, Somboonwit, Charurut, Oxner, Asa, Guerra, Lucy, Hayes, Michael, Nguyen, Thi, Tran, Thanh, Pinto, Avenette, Hatlen, Timothy, Anderson, Betty, Zepeda-Gutierrez, Ana, Martin, Dannae, Temblador, Cindi, Cuenca, Avon, Tanoviceanu, Roxanne, Prieto, Martha, Guerrero, Mario, Daar, Eric, Correa, Ramiro, Hartnell, Gabe, Wortmann, Glenn, Doshi, Saumil, Moriarty, Theresa, Gonzales, Melissa, Garman, Kristin, Baker, Jason V., Frosch, Anne, Goldsmith, Rachael, Driver, Brian, Frank, Christine, Leviton, Tzivia, Prekker, Matthew, Jibrell, Hodan, Lo, Melanie, Klaphake, Jonathan, Mackedanz, Shari, Ngo, Linh, Garcia-Myers, Kelly, Kunisaki, Ken M., Wendt, Chris, Melzer, Anne, Wetherbee, Erin, Drekonja, Dimitri, Pragman, Alexa, Hamel, Aimee, Thielen, Abbie, Hassler, Miranda, Walquist, Mary, Augenbraun, Michael, George, Jensen, Demeo, Lynette, Mishko, Motria, Thomas, Lorraine, Tatem, Luis, Dehovitz, Jack, Abassi, Mahsa, Leuck, Anne-Marie, Rao, Via, Pullen, Matthew, Luke, Darlette, LaBar, Derek, Christiansen, Theresa, Howard, Diondra, Biswas, Kousick, Harrington, Cristin, Garcia, Amanda, Bremer, Tammy, Burke, Tara, Koker, Brittany, Davis-Karim, Anne, Pittman, David, Vasudeva, Shikha S., Johnstone, Jaylynn R., Agnetti, Kate, Davis, Ruby, Trautner, Barbara, Hines-Munson, Casey, Van, John, Dillon, Laura, Wang, Yiqun, Nagy-Agren, Stephanie, Vasudeva, Shikha, Ochalek, Tracy, Caldwell, Erin, Humerickhouse, Edward, Boone, David, McGraw, William, Looney, David J., Mehta, Sanjay R., Johns, Scott Thompson, St. John, Melissa, Raceles, Jacqueline, Sear, Emily, Funk, Stephen, Cesarini, Rosa, Fang, Michelle, Nicalo, Keith, Drake, Wonder, Jones, Beatrice, Holtman, Teresa, Nguyen, Hien H., Maniar, Archana, Johnson, Eric A., Nguyen, Lam, Tran, Michelle T., Barrett, Thomas W., Johnston, Tera, Huggins, John T., Beiko, Tatsiana Y., Hughes, Heather Y., McManigle, William C., Tanner, Nichole T., Washburn, Ronald G., Ardelt, Magdalena, Tuohy, Patricia A., Mixson, Jennifer L., Hinton, Charles G., Thornley, Nicola, Allen, Heather, Elam, Shannon, Boatman, Barry, Baber, Brittany J., Ryant, Rudell, Roller, Brentin, Nguyen, Chinh, Mikail, Amani Morgan, Research, Marivic Hansen, Lichtenberger, Paola, Baracco, Gio, Ramos, Carol, Bjork, Lauren, Sueiro, Melyssa, Tien, Phyllis, Freasier, Heather, Buck, Theresa, Nekach, Hafida, Holodniy, Mark, Chary, Aarthi, Lu, Kan, Peters, Theresa, Lopez, Jessica, Tan, Susanna Yu, Lee, Robert H., Asghar, Aliya, Karyn Isip, Tasadduq Karim, Le, Katherine, Nguyen, Thao, Wong, Shinn, Raben, Dorthe, Murray, Daniel D., Jensen, Tomas O., Peters, Lars, Aagaard, Bitten, Nielsen, Charlotte B., Krapp, Katharina, Nykjær, Bente Rosdahl, Olsson, Christina, Kanne, Katja Lisa, Grevsen, Anne Louise, Joensen, Zillah Maria, Bruun, Tina, Bojesen, Ane, Woldbye, Frederik, Normand, Nick E., Esman, Frederik V.L., Benfield, Thomas, Clausen, Clara Lundetoft, Hovmand, Nichlas, Israelsen, Simone Bastrup, Iversen, Katrine, Leding, Caecilie, Pedersen, Karen Brorup, Thorlacius-Ussing, Louise, Tinggaard, Michaela, Tingsgard, Sandra, Krohn-Dehli, Louise, Pedersen, Dorthe, Villadsen, Signe, Staehr Jensen, Jens-Ulrik, Overgaard, Rikke, Rastoder, Ema, Heerfordt, Christian, Hedsund, Caroline, Ronn, Christian Phillip, Kamstrup, Peter Thobias, Hogsberg, Dorthe Sandbaek, Bergsoe, Christina, Søborg, Christian, Hissabu, Nuria M.S., Arp, Bodil C., Ostergaard, Lars, Staerke, Nina Breinholt, Yehdego, Yordanos, Sondergaard, Ane, Johansen, Isik S., Pedersen, Andreas Arnholdt, Knudtzen, Fredrikke C., Larsen, Lykke, Hertz, Mathias A., Fabricius, Thilde, Holden, Inge K., Lindvig, Susan O., Helleberg, Marie, Gerstoft, Jan, Kirk, Ole, Jensen, Tomas Ostergaard, Madsen, Birgitte Lindegaard, Pedersen, Thomas Ingemann, Harboe, Zitta Barrella, Roge, Birgit Thorup, Hansen, Thomas Michael, Glesner, Matilde Kanstrup, Lofberg, Sandra Valborg, Nielsen, Ariella Denize, Leicht von Huth, Sebastian, Nielsen, Henrik, Thisted, Rikke Krog, Petersen, Kristine Toft, Juhl, Maria Ruwald, Podlekareva, Daria, Johnsen, Stine, Andreassen, Helle Frost, Pedersen, Lars, Clara Ellinor Lindnér, Cecilia Ebba, Wiese, Lothar, Knudsen, Lene Surland, Skrøder Nytofte, Nikolaj Julian, Havmøller, Signe Ravn, Expósito, Maria, Badillo, José, Martínez, Ana, Abad, Elena, Chamorro, Ana, Figuerola, Ariadna, Mateu, Lourdes, España, Sergio, Lucero, Maria Constanza, Santos, José Ramón, Lladós, Gemma, Lopez, Cristina, Carabias, Lydia, Molina-Morant, Daniel, Loste, Cora, Bracke, Carmen, Siles, Adrian, Fernández-Cruz, Eduardo, Di Natale, Marisa, Padure, Sergiu, Gomez, Jimena, Ausin, Cristina, Cervilla, Eva, Balastegui, Héctor, Sainz, Carmen Rodríguez, Lopez, Paco, Carbone, Javier, Escobar, Mariam, Balerdi, Leire, Legarda, Almudena, Roldan, Montserrat, Letona, Laura, Muñoz, José, Camprubí, Daniel, Arribas, Jose R., Sánchez, Rocio Montejano, Díaz-Pollán, Beatriz, Stewart, Stefan Mark, Garcia, Irene, Borobia, Alberto, Mora-Rillo, Marta, Estrada, Vicente, Cabello, Noemi, Nuñez-Orantos, M.J., Sagastagoitia, I., Homen, J.R., Orviz, E., Montalvá, Adrián Sánchez, Espinosa-Pereiro, Juan, Bosch-Nicolau, Pau, Salvador, Fernando, Burgos, Joaquin, Morales-Rull, Jose Luis, Moreno Pena, Anna Maria, Acosta, Cristina, Solé-Felip, Cristina, Horcajada, Juan P., Sendra, Elena, Castañeda, Silvia, López-Montesinos, Inmaculada, Gómez-Junyent, Joan, Gonzáles, Carlota Gudiol, Cuervo, Guilermo, Pujol, Miquel, Carratalà, Jordi, Videla, Sebastià, Günthard, Huldrych, Braun, Dominique L., West, Emily, M’Rabeth-Bensalah, Khadija, Eichinger, Mareile L., Grüttner-Durmaz, Manuela, Grube, Christina, Zink, Veronika, pharmacist, Goes pharmacist, Josefine, Fätkenheuer, Gerd, Malin, Jakob J., Tsertsvadze, Tengiz, Abutidze, Akaki, Chkhartishvili, Nikoloz, Metchurtchlishvili, Revaz, Endeladze, Marina, Paciorek, Marcin, Bursa, Dominik, Krogulec, Dominika, Pulik, Piotr, Ignatowska, Anna, Horban, Andrzej, Bakowska, Elzbieta, Kowaska, Justyna, Bednarska, Agnieszka, Jurek, Natalia, Skrzat-Klapaczynska, Agata, Bienkowski, Carlo, Hackiewicz, Malgorzata, Makowiecki, Michal, Platowski, Antoni, Fishchuk, Roman, Kobrynska, Olena, Levandovska, Khrystyna, Kirieieva, Ivanna, Kuziuk, Mykhailo, Naucler, Pontus, Perlhamre, Emma, Mazouch, Lotta, Kelleher, Anthony, Polizzotto, Mark, Carey, Catherine, Chang, Christina C., Hough, Sally, Virachit, Sophie, Davidson, Sarah, Bice, Daniel J., Ognenovska, Katherine, Cabrera, Gesalit, Flynn, Ruth, Young, Barnaby E., Chia, Po Ying, Lee, Tau Hong, Lin, Ray J., Lye, David C., Ong, Sean W.X., Puah, Ser Hon, Yeo, Tsin Wen, Diong, Shiau Hui, Ongko, Juwinda, Yeo, He Ping, Eriobu, Nnakelu, Kwaghe, Vivian, Zaiyad, Habib, Idoko, Godwin, Uche, Blessing, Selvamuthu, Poongulali, Kumarasamy, Nagalingeswaran, Beulah, Faith Ester, Govindarajan, Narayan, Mariyappan, Kowsalya, Losso, Marcelo H., Abela, Cecilia, Moretto, Renzo, Belloc, Carlos G., Ludueña, Jael, Amar, Josefina, Toibaro, Javier, Macias, Laura Moreno, Fernandez, Lucia, Frare, Pablo S., Chaio, Sebastian R., Pachioli, Valeria, Timpano, Stella M., Sanchez, Marisa del Lujan, de Paz Sierra, Mariana, Stanek, Vanina, Belloso, Waldo, Cilenti, Flavia L., Valentini, Ricardo N., Stryjewski, Martin E., Locatelli, Nicolas, Soler Riera, Maria C., Salgado, Clara, Baeck, Ines M., Di Castelnuovo, Valentina, Zarza, Stella M., Hudson, Fleur, Parmar, Mahesh K.B., Goodman, Anna L., Dphil, Badrock, Jonathan, Gregory, Adam, Goodall, Katharine, Harris, Nicola, Wyncoll, James, Bhagani, S., Rodger, A., Luntiel, A., Patterson, C., Morales, J., Witele, E., Preston, A.-M., Nandani, A., Price, D.A., Hanrath, Aiden, Nell, Jeremy, Patel, Bijal, Hays, Carole, Jones, Geraldine, Davidson, Jade, Bawa, T., Mathews, M., Mazzella, A., Bisnauthsing, K., Aguilar-Jimenez, L., Borchini, F., Hammett, S., Touloumi, Giota, Pantazis, Nikos, Gioukari, Vicky, Souliou, Tania, Antoniadou, A., Protopapas, K., Kavatha, D., Grigoropoulou, S., Oikonomopoulo, C., Moschopoulos, C., Koulouris, N.G., Tzimopoulos, K., Koromilias, A., Argyraki, K., Lourida, P., Bakakos, P., Kalomenidis, I., Vlachakos, V., Barmparessou, Z., Balis, E., Zakynthinos, S., Sigala, I., Gianniou, N., Dima, E., Magkouta, S., Synolaki, E., Konstanta, S., Vlachou, M., Stathopoulou, P., Panagopoulos, P., Petrakis, V., Papazoglou, D., Tompaidou, E., Isaakidou, E., Poulakou, G., Rapti, V., Leontis, K., Nitsotolis, T., Athanasiou, K., Syrigos, K., Kyriakoulis, K., Trontzas, I., Arfara-Melanini, M., Kolonis, V., Kityo, Cissy, Mugerwa, Henry, Kiweewa, Francis, Kimuli, Ivan, Lukaakome, Joseph, Nsereko, Christoher, Lubega, Gloria, Kibirige, Moses, Nakahima, William, Wangi, Deus, Aguti, Evelyne, Generous, Lilian, Massa, Rosemary, Nalaki, Margaret, Magala, Felix, Nabaggala, Phiona Kaweesi, Kidega, Robert, Faith, Oryem Daizy, Florence, Apio, Emmanuel, Ocung, Beacham, Mugoonyi Paul, Geoffrey, Amone, Nakiboneka, Dridah, Apiyo, Paska, Kirenga, Bruce, Atukunda, Angella, Muttamba, Winters, Remmy, Kyeyume, Segawa, Ivan, Pheona, Nsubuga, Kigere, David, Mbabazi, Queen Lailah, Boersalino, Ledra, Nyakoolo, Grace, Fred, Aniongo, Alupo, Alice, Ebong, Doryn, Monday, Edson, Nalubwama, Ritah Norah, Kainja, Milton, Ambrose, Munu, Kwehayo, Vanon, Nalubega, Mary Grace, Ongoli, Augustine, Obbo, Stephen, Sebudde, Nicholus, Alaba, Jeniffer, Magombe, Geoffrey, Tino, Harriet, Obonya, Emmanuel, Lutaakome, Joseph, Kitonsa, Jonathan, Onyango, Martin, Naboth, Tukamwesiga, Naluyinda, Hadijah, Nanyunja, Regina, Irene, Muttiibwa, Jane, Biira, Wimfred, Kyobejja, Leonard, Ssemazzi, Deus, Tkiinomuhisha, Babra, Namasaba, Taire, Paul, Nabankema, Evelyn, Ogavu, Joseph, Mugerwa, Oscar, Okoth, Ivan, Mwebaze, Raymond, Mugabi, Timothy, Makhoba, Anthony, Arikiriza, Phiona, Theresa, Nabuuma, Nakayima, Hope, Frank, Kisuule, Ramgi, Patrícia, Pereira, Kássia, Osinusi, Anu, Cao, Huyen, Klekotka, Paul, Price, Karen, Nirula, Ajay, Osei, Suzette, Tipple, Craig, Wills, Angela, Peppercorn, Amanda, Watson, Helen, Gupta, Rajesh, Alexander, Elizabeth, Mogalian, Erik, Lin, Leo, Ding, Xiao, Margolis, David, Yan, Li, Girardet, Jean-Luc, Ma, Ji, Hong, Zhi, Zhu, Quing, Seegobin, Seth, Gibbs, Michael, Latchman, Mickel, Hasior, Katarzyna, Bouquet, Jerome, Wei, Jianxin, Streicher, Katie, Schmelzer, Albert, Brooks, Dennis, Butcher, Jonny, Tonev, Dimitar, Arbetter, Douglas, Damstetter, Philippe, Legenne, Philippe, Stumpp, Michael, Goncalves, Susana, Ramanathan, Krishnan, Chandra, Richa, Baseler, Beth, Teitelbaum, Marc, Schechner, Adam, Holley, H. Preston, Jankelevich, Shirley, Becker, Nancy, Dolney, Suzanne, Hissey, Debbie, Simpson, Shelly, Kim, Mi Ha, Beeler, Joy, Harmon, Liam, Asomah, Mabel, Jato, Yvonne, Stottlemyer, April, Tang, Olivia, Vanderpuye, Sharon, Yeon, Lindsey, Buehn, Molly, Eccard-Koons, Vanessa, Frary, Sadie, MacDonald, Leah, Cash, Jennifer, Hoopengardner, Lisa, Linton, Jessica, Schaffhauser, Marylu, Nelson, Michaela, Spinelli-Nadzam, Mary, Proffitt, Calvin, Lee, Christopher, Engel, Theresa, Fontaine, Laura, Osborne, C.K., Hohn, Matt, Galcik, Michael, Thompson, DeeDee, Kopka, Stacey, Shelley, Denise M., Mendez, Gregg, Brown, Shawn, Albert, Sara, Balde, Abby, Baracz, Michelle, Bielica, Mona, Billouin-Frazier, Shere, Choudary, Jay, Dixon, Mary, Eyler, Carolyn, Frye, Leanne, Gertz, Jensen, Giebeig, Lisa, Gulati, Neelam, Hankinson, Liz, Hogarty, Debi, Huber, Lynda, Krauss, Gary, Lake, Eileen, Manandhar, Meryan, Rudzinski, Erin, Sandrus, Jen, Suders, Connie, Natarajan, Ven, Rupert, Adam W., Baseler, Michael, Lynam, Danielle, Imamichi, Tom, Laverdure, Sylvain, McCormack, Ashley, Paudel, Sharada, Cook, Kyndal, Haupt, Kendra, Khan, Ayub, Hazen, Allison, Badralmaa, Yunden, Smith, Kenneth, Patel, Bhakti, Kubernac, Amanda, Kubernac, Robert, Hoover, Marie L., Solomon, Courtney, Rashid, Marium, Murphy, Joseph, Brown, Craig, DuChateau, Nadine, Ellis, Sadie, Flosi, Adam, Fox, Lisa, Johnson, Les, Nelson, Rich, Stojanovic, Jelena, Treagus, Amy, Wenner, Christine, Williams, Richard, Jensen, Tomas O, Murray, Thomas A, Grandits, Greg A, Jain, Mamta K, Shaw-Saliba, Kathryn, Matthay, Michael A, Baker, Jason V, Dewar, Robin L, Goodman, Anna L, Hatlen, Timothy J, Highbarger, Helene C, Lallemand, Perrine, Leshnower, Bradley G, Looney, David, Moschopoulos, Charalampos D, Murray, Daniel D, Mylonakis, Eleftherios, Rehman, M Tauseef, Rupert, Adam, Stevens, Randy, Turville, Stuart, Wick, Katherine, Lundgren, Jens, and Ko, Emily R

Published
2024
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7. Chronotropic index during 6-minute walk and acute respiratory events in COPDGene

Author

Macdonald, David M, Palzer, Elise F, Abbasi, Asghar, Baldomero, Arianne K, Bhatt, Surya P, Casaburi, Richard, Connett, John E, Dransfield, Mark T, Gaeckle, Nathaniel T, Mkorombindo, Takudzwa, Rossiter, Harry B, Stringer, William W, Tiller, Nicholas B, Wendt, Chris H, Zhao, Dongxing, and Kunisaki, Ken M

Subjects
Biomedical and Clinical Sciences, Clinical Sciences, Lung, Chronic Obstructive Pulmonary Disease, Respiratory, Good Health and Well Being, Exercise Test, Exercise Tolerance, Humans, Pulmonary Disease, Chronic Obstructive, Spirometry, Walk Test, Walking, Pulmonary disease, Chronic obstructive, Cardiac chronotropy, Disease exacerbation, Cohort study, Cardiorespiratory Medicine and Haematology, Respiratory System, Cardiovascular medicine and haematology
Abstract

BackgroundLower heart rate (HR) increases during exercise and slower HR recovery (HRR) after exercise are markers of worse autonomic function that may be associated with risk of acute respiratory events (ARE).MethodsData from 6-min walk testing (6MWT) in COPDGene were used to calculate the chronotropic index (CI) [(HR immediately post 6MWT - resting HR)/((220 - age) - resting HR)] and HRR at 1 min after 6MWT completion. We used zero-inflated negative binomial regression to test associations of CI and HRR with rates of any ARE (requiring steroids and/or antibiotics) and severe ARE (requiring emergency department visit or hospitalization), among all participants and in spirometry subgroups (normal, chronic obstructive pulmonary disease [COPD], and preserved ratio with impaired spirometry).ResultsAmong 4,484 participants, mean follow-up time was 4.1 years, and 1,966 had COPD. Among all participants, CI-6MWT was not associated with rate of any ARE [adjusted incidence rate ratio (aIRR) 0.98 (0.95-1.01)], but higher CI-6MWT was associated with lower rate of severe ARE [0.95 (0.92-0.99)]. Higher HRR was associated with a lower rate of both any ARE [0.97 (0.95-0.99)] and severe ARE [0.95 (0.92-0.98)]. Results were similar in the COPD spirometry subgroup.ConclusionHeart rate measures derived from 6MWT tests may have utility in predicting risk of acute respiratory events and COPD exacerbations.

Published
2022

12. The Scintillator Upgrade of IceTop: Performance of the prototype array

Author

Kauer, Matt, Huber, Thomas, Tosi, Delia, and Wendt, Chris

Subjects
Astrophysics - High Energy Astrophysical Phenomena, Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

The IceCube Collaboration foresees to upgrade IceTop, the present surface array, with scintillator detectors augmented by radio antennas. As one of several goals the scintillator detectors will be used to measure and mitigate the effects of snow accumulation on the IceTop tanks: the increasing energy threshold and efficiency loss are nowadays the sources of the largest systematic uncertainties in shower reconstruction and mass composition analysis. In addition, the upgrade will provide useful experience for the development of next generation neutrino detectors proposed for the South Pole. In the Austral summer season, 2017-2018 two full "stations" were installed near the center of the IceTop array. Each station features custom-designed electronics and consists of seven detectors, each having an active area of 1.5m$^{2}$ plastic scintillator and wavelength shifting fibers read out by a Silicon Photomultiplier. In this contribution we review the detector design and performance, and show results from more than one year of operation of the prototype stations. During that year several thousand air shower events have been measured in coincidence with IceTop., Comment: Presented at the 36th International Cosmic Ray Conference (ICRC 2019). See arXiv:1907.11699 for all IceCube contributions

Published
2019

13. Heat and Cold Wave-Related Mortality Risk among United States Veterans with Chronic Obstructive Pulmonary Disease: A Case-Crossover Study

Author

Rau, Austin, Tarr, Gillian A.M., Baldomero, Arianne K., Wendt, Chris H., Alexander, Bruce H., and Berman, Jesse D.

Subjects
Influence, Diagnosis, Evaluation, Risk factors, Mortality -- Evaluation -- United States, Climate change -- Influence, Chronic obstructive lung disease -- Risk factors -- Diagnosis, Lung diseases, Obstructive -- Risk factors -- Diagnosis, Climatic changes -- Influence
Abstract

Introduction Anthropogenic climate change is causing harmful planetary effects with increased frequency, intensity, duration, and geographic extent of extreme weather events, including heat waves, droughts, wildfires, and floods. (1,2) Furthermore, [...], Background: Chronic obstructive pulmonary disease (COPD) is a heterogeneous pulmonary disease affecting 16 million Americans. Individuals with COPD are susceptible to environmental disturbances including heat and cold waves that can exacerbate disease symptoms. Objective: Our objective was to estimate heat and cold wave-associated mortality risks within a population diagnosed with a chronic respiratory disease. Methods: We collected individual level data with geocoded residential addresses from the Veterans Health Administration on 377,545 deceased patients with COPD (2016 to 2021). A time stratified case-crossover study was designed to estimate the incidence rate ratios (IRR) of heat and cold wave mortality risks using conditional logistic regression models examining lagged effects up to 7 d. Attributable risks (AR) were calculated for the lag day with the strongest association for heat and cold waves, respectively. Effect modification by age, gender, race, and ethnicity was also explored. Results: Heat waves had the strongest effect on all-cause mortality at lag day 0 [IRR: 1.04; 95% confidence interval (CI): 1.02, 1.06] with attenuated effects by lag day 1. The AR at lag day 0 was 651 (95% CI: 326, 975) per 100,000 veterans. The effect of cold waves steadily increased from lag day 2 and plateaued at lag day 4 (IRR: 1.04; 95% CI: 1.02, 1.07) with declining but still elevated effects over the remaining 7-d lag period. The AR at lag day 4 was 687 (95% CI: 344, 1,200) per 100,000 veterans. Differences in risk were also detected upon stratification by gender and race. Discussion: Our study demonstrated harmful associations between heat and cold waves among a high-risk population of veterans with COPD using individual level health data. Future research should emphasize using individual level data to better estimate the associations between extreme weather events and health outcomes for high-risk populations with chronic medical conditions. https://doi.org/10.1289/EHP13176

Published
2024
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14. Comorbidities, Tobacco Exposure, and Geography: Added Risk Factors of Heat and Cold Wave–related Mortality among U.S. Veterans with Chronic Obstructive Pulmonary Disease.

Author

Rau, Austin, Baldomero, Arianne K., Wendt, Chris H., Tarr, Gillian A. M., Alexander, Bruce H., and Berman, Jesse D.

Subjects
COLD waves (Meteorology), EXTREME weather, CHRONIC obstructive pulmonary disease, HEALTH policy, WEATHER, HEAT waves (Meteorology)
Abstract

Rationale: Understanding the health risks associated with extreme weather events is needed to inform policies to protect vulnerable populations. Objectives: To estimate heat and cold wave-related mortality risks in a cohort of veteran patients with chronic obstructive pulmonary disease (COPD) and explore disparities among strata of comorbidities, tobacco exposure, and urbanicity. Methods: We designed a time-stratified case-crossover study among deceased patients with COPD between 2016 and 2021 in the Veterans Health Administration system. Distributed lag models with conditional logistic regression estimated incidence rate ratios of heat and cold wave–associated mortality risk from lag days 0 to 3 for heatwaves and lag days 0 to 7 for cold waves. Attributable risks (ARs) per 100,000 patients were also calculated. Results: Of the 377,545 deceased patients with COPD, the largest heatwave-related mortality risk was in patients with COPD and asthma (AR, 14,016; 95% confidence interval [CI], −326, 30,706) across lag days 0 to 3. The largest cold wave–related mortality burden was in patients with COPD with no other reported comorbidities (AR, 1,704; 95% CI, 759, 2,686) across lag days 0 to 7. Patients residing in urban settings had the greatest heatwave-related (AR, 1,062; 95% CI, 576, 1,559) and cold wave–related (AR, 1,261; 95% CI, 440, 2,105) mortality risk (across lag days 0 to 1 and 0 to 7, respectively). There were no differences in mortality risk by tobacco exposure. Conclusions: Our findings show that individuals with COPD are susceptible to heat and cold waves. This information can inform clinical practice and public health policy about the mortality risk vulnerable populations experience with respect to extreme weather conditions. Furthermore, our results may be used in the development and refinement of future extreme weather warning systems designed for public health purposes. [ABSTRACT FROM AUTHOR]

Published
2025
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16. Longitudinal Association Between Muscle Loss and Mortality in Ever Smokers

Author

Crapo, James D., Silverman, Edwin K., Cummings, Sara, Madden, Kelley, Make, Barry J., Nabbosa, Juliet, Port, Emily, Rashdi, Serine, Regan, Elizabeth A., Stepp, Lori, Watts, Shandi, Weaver, Michael, Beaty, Terri, Bowler, Russell P., Curtis, Jeffrey L., Han, MeiLan K., Hokanson, John E., Lynch, David A., Strand, Matthew J., Anderson, Gary, Bleecker, Eugene R., Coxson, Harvey O., Crystal, Ronald G., Hogg, James C., Province, Michael A., Rennard, Stephen I., Croxton, Thomas, Gan, Weiniu, Postow, Lisa A., Viviano, Lisa M., Costa-Davis, Corinne, Malanga, Elisha, Prieto, Delia, Tal-Singer, Ruth, Farzadegan, Homayoon, Hadji, Akila, Sathe, Leena, Baraghoshi, David, Chen, Grace, Crooks, James, Knowles, Ruthie, Pratte, Katherine, Wilson, Carla, Zelarney, Pearlanne T., Kechris, Katerina J., Leach, Sonia, Austin, Erin E., Czizik, Annika, Kinney, Gregory, Li, Yisha, Lutz, Sharon M., Ragland, Margaret F., Richmond, Nicole, Young, Kendra A., Cho, Michael, Castaldi, Peter J., Glass, Kimberly, Hersh, Craig, Kim, Wonji, Liu, Yang-Yu, Hersh, Craig P., Bidinger, Jacqueline, Cho, Michael H., Conrad, Douglas, DeMeo, Dawn L., El-Boueiz, Adel R., Foreman, Marilyn G., Ghosh, Auyon, Hahn, Georg, Hansel, Nadia N., Hayden, Lystra P., Hobbs, Brian, Kim, Woori, Lange, Christoph, McDonald, Merry- Lynn, McGeachie, Michael, Moll, Matthew, Morris, Melody, Patsopoulos, Nikolaos A., Qiao, Dandi, Ruczinski, Ingo, Wan, Emily S., Dy, Jennifer G., Fain, Sean B., Ginsburg, Shoshana, Hoffman, Eric A., Humphries, Stephen, Judy, Philip F., Stefanie Mason, Alex Kluiber, Oh, Andrea, Poynton, Clare, Reinhardt, Joseph M., Ross, James, San Jose Estepar, Raul, Schroeder, Joyce D., Sitek, Arkadiusz, Steiner, Robert M., van Beek, Edwin, Ginneken, Bram van, van Rikxoort, Eva, Washko, George R., Jensen, Robert, John E. Hokanson, Co-Chair, Bhatt, Surya P., Casaburi, Richard, Kim, Victor, Putcha, Nirupama, Han, MeiLan, Bon, Jessica, Diaz, Alejandro A., Regan, Elizabeth, Anzueto, Antonio, Bailey, William C., Criner, Gerard J., Dransfield, Mark T., Kinney, Greg, Sprenger, Kim, Benos, Takis, Hanania, Nicola A., Hoth, Karin F., Lambert, Allison, Lowe, Katherine, Oates, Gabriela, Parekh, Trisha, Westney, Gloria, Young, Kendra, Balasubramanian, Aparna, Boriek, Aladin, Fawzy, Ashraf, Jacobson, Francine, LaFon, David C., MacIntyre, Neil, Maselli-Caceres, Diego, McCormack, Meredith C., McDonald, Merry-Lynn, Sciurba, Frank, Soler, Xavier, Tejwani, Vickram, van Beek, Edwin JR., Wade, Raymond C., Wells, Mike, Wendt, Chris H., Yun, Jeong H., Zhang, Jingzhou, Gillenwater, Lucas, Lowe, Katherine E., Pratte, Katherine A., Ragland, Margaret, Attaway, Amy, Mason, Stefanie, Rossiter, Harry B., Saha, Punam Kumar, Wilson, Ava, Amaza, Hannatu, Baldomero, Adrienne, Mamary, A. James, O’Brien, James, Wise, Robert A., Eakin, Michelle, Fiedorowicz, Jess G., Henkle, Ben, Holm, Kristen, Iyer, Anand, Kunisaki, Ken M., McEvoy, Charlene, Mkorombindo, Takudzwa, Shinozaki, Gen, Yohannes, Abebaw, Hobbs, Brian D., Miller, Bruce E., Retson, Tara, McCloskey, Lisa, Pernicano, Perry G., Atik, Mustafa, Bertrand, Laura, Monaco, Thomas, Narendra, Dharani, Lenge de Rosen, Veronica V., Badu-Danso, Kwame, Jacobson, Francine L., Kaufman, Laura, Maguire, Cherie, Struble, Sophie, Wilson, Seth, Barr, R. Graham, Almonte, Casandra, Austin, John H.M., Gomez Blum, Maria Lorena, D’Souza, Belinda M., Florez, Emilay, Martinez, Rodney, MacIntyre, Neil, Jr., Curry, Wendy, McAdams, H. Page, Reikofski, Charlotte V., Washington, Lacey, Brown, Robert, Clare, Cheryl, Daniel, Marie, Horton, Karen, Ting “Tony” Lin, Cheng, Mirza, Tahira, Scott, Meagan, Shade, Becky, Budoff, Matt, Calmelat, Robert, Cavanaugh, Deborah, Dailing, Chris, Diaz, Leticia, Fischer, Hans, Indelicato, Renee Love, Porszasz, Janos, Soriano, April, Stringer, William, Urrutia, Miriam, Baldomero, Arianne, Bell, Brian, Deconcini, Miranda, Loes, Linda, Phelan, Jonathan, Robichaux, Camille, Sasse, Cheryl, Tashjian, Joseph H., Flenaugh, Eric L., Abson, Kema, Gebrekristos, Hirut, Johnson, Priscilla, Jordan, Jessica, Ponce, Mario, Terpenning, Silanath, Wilson, Derrick, Broadhurst, Grace, Dyer, Debra, Engel, Elena, Finigan, Jay, Hill, Andrew, Jones, Alex, Jones, Ryan, Owen, Jordan, Rosiello, Richard, Andries, Nicole, Charpentier, Mary, Kirk, Diane, Pace, David, Ciccolella, David, Cordova, Francis, Dass, Chandra, D’Alonzo, Gilbert, Davis, Valena, Desai, Parag, Fehrle, Dee, Grabianowski, Carla, Jacobs, Michael, Jameson, Laurie, Jones, Gayle M., Kelsen, Steven, Marchetti, Nathaniel, McGonagle, Francine, Satti, Aditi, Shenoy, Kartik, Sheridan, Regina, Vega-Sanchez, Maria, Wallace, Samantha, Akinseye-kolapo, Samuel, Baker, Matthew, Goggins, Arnissa, McClain, Anny, Nath, Hrudaya, Singh, Satinder P., Sonavane, Sushil K., Westfall, Elizabeth, Gil, Marissa, El Hajjaoui, Tarek, Hsiao, Albert, Martineau, Amber, Mielke, Jenna, Perez, Karl, Querido, Gabriel, Reston, Tara, Yen, Andrew, Comellas, Alejandro, Fortis, Spyridon, Galizia, Mauricio, Garcia, Eric, Keating, Janet, Laroia, Archana, Lee, Changhyun, Meyer, Amber, Mullan, Brian, Nagpal, Prashant, Ofori, Oloigbe, Suiter, Sierra, Mason, Stefanie E., Moreta-Martinez, Rafael, Labaki, Wassim W., San Jose Estepar, Ruben, Make, Barry, and Stringer, Kathleen

Published
2022
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17. Novel Approach to Exploring Protease Activity and Targets in HIV-associated Obstructive Lung Disease using Combined Proteomic-Peptidomic Analysis

Author

Samorodnitsky, Sarah, primary, Kruk, Monica, additional, Lock, Eric F., additional, Kunisaki, Ken M., additional, Morris, Alison, additional, Leung, Janice M., additional, Weise, Danielle, additional, Mehta, Subina, additional, Parker, Laurie L., additional, Jagtap, Pratik D., additional, Griffin, Timothy J., additional, and Wendt, Chris H., additional

Published
2024
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19. Biomarkers in Obstructive Airway Diseases

Author

Kelly, Rachel S., Stringer, Kathleen A., Wendt, Chris H., Rounds, Sharon I.S., Series Editor, Dixon, Anne, Series Editor, Schnapp, Lynn M., Series Editor, Gomez, Jose L., editor, Himes, Blanca E., editor, and Kaminski, Naftali, editor

Published
2020
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20. Proteome Profiling in Lung Injury after Hematopoietic Stem Cell Transplantation.

Author

Bhargava, Maneesh, Viken, Kevin, Dey, Sanjoy, Steinbach, Michael, Wu, Baolin, Jagtap, Pratik, Higgins, LeeAnn, Panoskaltsis-Mortari, Angela, Weisdorf, Daniel, Kumar, Vipin, Arora, Mukta, Bitterman, Peter, Ingbar, David, and Wendt, Chris

Subjects
Bioinformatics, Bronchoalveolar lavage, Idiopathic pneumonia syndrome, Pathways, Proteomics, Adult, Aged, Bronchoalveolar Lavage Fluid, Gene Expression Profiling, Gene Ontology, Hematopoietic Stem Cell Transplantation, Humans, Lung Injury, Middle Aged, Pneumonia, Proteome, Proteomics
Abstract

Pulmonary complications due to infection and idiopathic pneumonia syndrome (IPS), a noninfectious lung injury in hematopoietic stem cell transplant (HSCT) recipients, are frequent causes of transplantation-related mortality and morbidity. Our objective was to characterize the global bronchoalveolar lavage fluid (BALF) protein expression of IPS to identify proteins and pathways that differentiate IPS from infectious lung injury after HSCT. We studied 30 BALF samples from patients who developed lung injury within 180 days of HSCT or cellular therapy transfusion (natural killer cell transfusion). Adult subjects were classified as having IPS or infectious lung injury by the criteria outlined in the 2011 American Thoracic Society statement. BALF was depleted of hemoglobin and 14 high-abundance proteins, treated with trypsin, and labeled with isobaric tagging for relative and absolute quantification (iTRAQ) 8-plex reagent for two-dimensional capillary liquid chromatography (LC) and data dependent peptide tandem mass spectrometry (MS) on an Orbitrap Velos system in higher-energy collision-induced dissociation activation mode. Protein identification employed a target-decoy strategy using ProteinPilot within Galaxy P. The relative protein abundance was determined with reference to a global internal standard consisting of pooled BALF from patients with respiratory failure and no history of HSCT. A variance weighted t-test controlling for a false discovery rate of ≤5% was used to identify proteins that showed differential expression between IPS and infectious lung injury. The biological relevance of these proteins was determined by using gene ontology enrichment analysis and Ingenuity Pathway Analysis. We characterized 12 IPS and 18 infectious lung injury BALF samples. In the 5 iTRAQ LC-MS/MS experiments 845, 735, 532, 615, and 594 proteins were identified for a total of 1125 unique proteins and 368 common proteins across all 5 LC-MS/MS experiments. When comparing IPS to infectious lung injury, 96 proteins were differentially expressed. Gene ontology enrichment analysis showed that these proteins participate in biological processes involved in the development of lung injury after HSCT. These include acute phase response signaling, complement system, coagulation system, liver X receptor (LXR)/retinoid X receptor (RXR), and farsenoid X receptor (FXR)/RXR modulation. We identified 2 canonical pathways modulated by TNF-α, FXR/RXR activation, and IL2 signaling in macrophages. The proteins also mapped to blood coagulation, fibrinolysis, and wound healing-processes that participate in organ repair. Cell movement was identified as significantly over-represented by proteins with differential expression between IPS and infection. In conclusion, the BALF protein expression in IPS differed significantly from infectious lung injury in HSCT recipients. These differences provide insights into mechanisms that are activated in lung injury in HSCT recipients and suggest potential therapeutic targets to augment lung repair.

Published
2016

21. Association between Functional Small Airway Disease and FEV1 Decline in Chronic Obstructive Pulmonary Disease.

Author

Bhatt, Surya P, Soler, Xavier, Wang, Xin, Murray, Susan, Anzueto, Antonio R, Beaty, Terri H, Boriek, Aladin M, Casaburi, Richard, Criner, Gerard J, Diaz, Alejandro A, Dransfield, Mark T, Curran-Everett, Douglas, Galbán, Craig J, Hoffman, Eric A, Hogg, James C, Kazerooni, Ella A, Kim, Victor, Kinney, Gregory L, Lagstein, Amir, Lynch, David A, Make, Barry J, Martinez, Fernando J, Ramsdell, Joe W, Reddy, Rishindra, Ross, Brian D, Rossiter, Harry B, Steiner, Robert M, Strand, Matthew J, van Beek, Edwin JR, Wan, Emily S, Washko, George R, Wells, J Michael, Wendt, Chris H, Wise, Robert A, Silverman, Edwin K, Crapo, James D, Bowler, Russell P, Han, MeiLan K, and COPDGene Investigators

Subjects
COPDGene Investigators, Respiratory System, Lung, Humans, Pulmonary Disease, Chronic Obstructive, Tomography, X-Ray Computed, Forced Expiratory Volume, Spirometry, Middle Aged, Female, Male, FEV1, lung function, parametric response mapping, Chronic Obstructive Pulmonary Disease, Clinical Research, Respiratory, Medical and Health Sciences
Abstract

RationaleThe small conducting airways are the major site of airflow obstruction in chronic obstructive pulmonary disease and may precede emphysema development.ObjectivesWe hypothesized a novel computed tomography (CT) biomarker of small airway disease predicts FEV1 decline.MethodsWe analyzed 1,508 current and former smokers from COPDGene with linear regression to assess predictors of change in FEV1 (ml/yr) over 5 years. Separate models for subjects without and with airflow obstruction were generated using baseline clinical and physiologic predictors in addition to two novel CT metrics created by parametric response mapping (PRM), a technique pairing inspiratory and expiratory CT images to define emphysema (PRM(emph)) and functional small airways disease (PRM(fSAD)), a measure of nonemphysematous air trapping.Measurements and main resultsMean (SD) rate of FEV1 decline in ml/yr for GOLD (Global Initiative for Chronic Obstructive Lung Disease) 0-4 was as follows: 41.8 (47.7), 53.8 (57.1), 45.6 (61.1), 31.6 (43.6), and 5.1 (35.8), respectively (trend test for grades 1-4; P

Published
2016

22. In situ estimation of ice crystal properties at the South Pole using LED calibration data from the IceCube Neutrino Observatory

Author

Abbasi, Rasha, Ackermann, Markus, Adams, Jenni, Aggarwal, Nakul, Aguilar, Juanan, Ahlers, Markus, Ahrens, Maryon, Alameddine, Jean-Marco, Alves Junior, Antonio Augusto, Amin, Najia Moureen Binte, Andeen, Karen, Anderson, Tyler, Anton, Gisela, Argüelles, Carlos, Ashida, Yosuke, Athanasiadou, Sofia, Axani, Spencer, Bai, Xinhua, Balagopal V, Aswathi, Baricevic, Moreno, Barwick, Steve, Basu, Vedant, Bay, Ryan, Beatty, James, Becker, Karl Heinz, Becker Tjus, Julia, Beise, Jakob, Bellenghi, Chiara, Benda, Samuel, BenZvi, Segev, Berley, David, Bernardini, Elisa, Besson, Dave, Binder, Gary, Bindig, Daniel, Blaufuss, Erik, Blot, Summer, Bontempo, Federico, Book, Julia, Borowka, Jürgen, Boscolo Meneguolo, Caterina, Böser, Sebastian, Botner, Olga, Böttcher, Jakob, Bourbeau, Etienne, Braun, Jim, Brinson, Bennett, Brostean-Kaiser, Jannes, Burley, Ryan, Busse, Raffaela, Campana, Michael, Carnie-Bronca, Erin, Chen, Chujie, Chen, Zheyang, Chirkin, Dmitry, Choi, Koun, Clark, Brian, Classen, Lew, Coleman, Alan, Collin, Gabriel, Connolly, Amy, Conrad, Janet, Coppin, Paul, Correa, Pablo, Countryman, Stefan, Cowen, Doug, Cross, Robert, Dappen, Christian, Dave, Pranav, De Clercq, Catherine, DeLaunay, James, Delgado López, Diyaselis, Dembinski, Hans, Deoskar, Kunal, Desai, Abhishek, Desiati, Paolo, de Vries, Krijn, de Wasseige, Gwenhael, DeYoung, Tyce, Diaz, Alejandro, Díaz-Vélez, Juan Carlos, Dittmer, Markus, Dujmovic, Hrvoje, DuVernois, Michael, Ehrhardt, Thomas, Eller, Philipp, Engel, Ralph, Erpenbeck, Hannah, Evans, John, Evenson, Paul, Fan, Kwok Lung, Fazely, Ali, Fedynitch, Anatoli, Feigl, Nora, Fiedlschuster, Sebastian, Fienberg, Aaron, Finley, Chad, Fischer, Leander, Fox, Derek, Franckowiak, Anna, Friedman, Elizabeth, Fritz, Alexander, Fürst, Philipp, Gaisser, Tom, Gallagher, Jay, Ganster, Erik, Garcia, Alfonso, Garrappa, Simone, Gerhardt, Lisa, Ghadimi, Ava, Glaser, Christian, Glüsenkamp, Thorsten, Glauch, Theo, Goehlke, Noah, Gonzalez, Javier, Goswami, Sreetama, Grant, Darren, Gray, Shannon, Grégoire, Timothée, Griswold, Spencer, Günther, Christoph, Gutjahr, Pascal, Haack, Christian, Hallgren, Allan, Halliday, Robert, Halve, Lasse, Halzen, Francis, Hamdaoui, Hassane, Ha Minh, Martin, Hanson, Kael, Hardin, John, Harnisch, Alexander, Hatch, Patrick, Haungs, Andreas, Helbing, Klaus, Hellrung, Jonas, Henningsen, Felix, Heuermann, Lars, Hickford, Stephanie, Hill, Colton, Hill, Gary, Hoffman, Kara, Hoshina, Kotoyo, Hou, Wenjie, Huber, Thomas, Hultqvist, Klas, Hünnefeld, Mirco, Hussain, Raamis, Hymon, Karolin, In, Seongjin, Iovine, Nadege, Ishihara, Aya, Jansson, Matti, Japaridze, George, Jeong, Minjin, Jin, Miaochen, Jones, Ben, Kang, Donghwa, Kang, Woosik, Kang, Xinyue, Kappes, Alexander, Kappesser, David, Kardum, Leonora, Karg, Timo, Karl, Martina, Karle, Albrecht, Katz, Uli, Kauer, Matt, Kelley, John, Kheirandish, Ali, Kin, Ken'ichi, Kiryluk, Joanna, Klein, Spencer, Kochocki, Alina, Koirala, Ramesh, Kolanoski, Hermann, Kontrimas, Tomas, Köpke, Lutz, Kopper, Claudio, Koskinen, Jason, Koundal, Paras, Kovacevich, Michael, Kowalski, Marek, Kozynets, Tetiana, Krupczak, Emmett, Kun, Emma, Kurahashi, Naoko, Lad, Neha, Lagunas Gualda, Cristina, Larson, Michael, Lauber, Frederik, Lazar, Jeffrey, Lee, Jiwoong, Leonard, Kayla, Leszczyńska, Agnieszka, Lincetto, Massimiliano, Liu, Qinrui, Liubarska, Maria, Lohfink, Elisa, Love, Christina, Lozano Mariscal, Cristian Jesus, Lu, Lu, Lucarelli, Francesco, Ludwig, Andrew, Luszczak, William, Lyu, Yang, Ma, Wing Yan, Madsen, Jim, Mahn, Kendall, Makino, Yuya, Mancina, Sarah, Marie Sainte, Wenceslas, Mariş, Ioana, Marka, Szabolcs, Marka, Zsuzsa, Marsee, Matthew, Martinez-Soler, Ivan, Maruyama, Reina, McElroy, Thomas, McNally, Frank, Mead, James Vincent, Meagher, Kevin, Mechbal, Sarah, Medina, Andres, Meier, Maximilian, Meighen-Berger, Stephan, Merckx, Yarno, Micallef, Jessie, Mockler, Daniela, Montaruli, Teresa, Moore, Roger, Morse, Bob, Moulai, Marjon, Mukherjee, Tista, Naab, Richard, Nagai, Ryo, Naumann, Uwe, Nayerhoda, Amid, Necker, Jannis, Neumann, Miriam, Niederhausen, Hans, Nisa, Mehr, Nowicki, Sarah, Obertacke Pollmann, Anna, Oehler, Marie, Oeyen, Bob, Olivas, Alex, Orsoe, Rasmus, Osborn, Jesse, O'Sullivan, Erin, Pandya, Hershal, Pankova, Daria, Park, Nahee, Parker, Grant, Paudel, Ek Narayan, Paul, Larissa, Pérez de los Heros, Carlos, Peters, Lilly, Peterson, Josh, Philippen, Saskia, Pieper, Sarah, Pizzuto, Alex, Plum, Matthias, Popovych, Yuiry, Porcelli, Alessio, Prado Rodriguez, Maria, Pries, Brandon, Procter-Murphy, Rachel, Przybylski, Gerald, Raab, Christoph, Rack-Helleis, John, Rameez, Mohamed, Rawlins, Katherine, Rechav, Zoe, Rehman, Abdul, Reichherzer, Patrick, Renzi, Giovanni, Resconi, Elisa, Reusch, Simeon, Rhode, Wolfgang, Richman, Mike, Riedel, Benedikt, Roberts, Ella, Robertson, Sally, Rodan, Steven, Roellinghoff, Gerrit, Rongen, Martin, Rott, Carsten, Ruhe, Tim, Ruohan, Li, Ryckbosch, Dirk, Rysewyk Cantu, Devyn, Safa, Ibrahim, Saffer, Julian, Salazar-Gallegos, Daniel, Sampathkumar, Pranav, Sanchez Herrera, Sebastian, Sandrock, Alexander, Santander, Marcos, Sarkar, Sourav, Sarkar, Subir, Schaufel, Merlin, Schieler, Harald, Schindler, Sebastian, Schlüter, Berit, Schmidt, Torsten, Schneider, Judith, Schröder, Frank, Schumacher, Lisa, Schwefer, Georg, Sclafani, Steve, Seckel, Dave, Seunarine, Surujhdeo, Sharma, Ankur, Shefali, Shefali, Shimizu, Nobuhiro, Silva, Manuel, Skrzypek, Barbara, Smithers, Ben, Snihur, Robert, Soedingrekso, Jan, Søgaard, Andreas, Soldin, Dennis, Spannfellner, Christian, Spiczak, Glenn, Spiering, Christian, Stamatikos, Michael, Stanev, Todor, Stein, Robert, Stezelberger, Thorsten, Stürwald, Timo, Stuttard, Thomas, Sullivan, Greg, Taboada, Ignacio, Ter-Antonyan, Samvel, Thompson, Will, Thwaites, Jessie, Tilav, Serap, Tollefson, Kirsten, Tönnis, Christoph, Toscano, Simona, Tosi, Delia, Trettin, Alexander, Tung, Chun Fai, Turcotte, Roxanne, Twagirayezu, Jean Pierre, Ty, Bunheng, Unland Elorrieta, Martin, Upshaw, Karriem, Valtonen-Mattila, Nora, Vandenbroucke, Justin, van Eijndhoven, Nick, Vannerom, David, van Santen, Jakob, Vara, Javi, Veitch-Michaelis, Joshua, Verpoest, Stef, Veske, Doga, Walck, Christian, Wang, Winnie, Watson, Timothy Blake, Weaver, Chris, Weigel, Philip, Weindl, Andreas, Weldert, Jan, Wendt, Chris, Werthebach, Johannes, Weyrauch, Mark, Whitehorn, Nathan, Wiebusch, Christopher, Willey, Nathan, Williams, Dawn, Wolf, Martin, Wrede, Gerrit, Wulff, Johan, Xu, Xianwu, Yanez, Juan Pablo, Yildizci, Emre, Yoshida, Shigeru, Yu, Shiqi, Yuan, Tianlu, Zhang, Zelong, Zhelnin, Pavel, Abbasi, Rasha, Ackermann, Markus, Adams, Jenni, Aggarwal, Nakul, Aguilar, Juanan, Ahlers, Markus, Ahrens, Maryon, Alameddine, Jean-Marco, Alves Junior, Antonio Augusto, Amin, Najia Moureen Binte, Andeen, Karen, Anderson, Tyler, Anton, Gisela, Argüelles, Carlos, Ashida, Yosuke, Athanasiadou, Sofia, Axani, Spencer, Bai, Xinhua, Balagopal V, Aswathi, Baricevic, Moreno, Barwick, Steve, Basu, Vedant, Bay, Ryan, Beatty, James, Becker, Karl Heinz, Becker Tjus, Julia, Beise, Jakob, Bellenghi, Chiara, Benda, Samuel, BenZvi, Segev, Berley, David, Bernardini, Elisa, Besson, Dave, Binder, Gary, Bindig, Daniel, Blaufuss, Erik, Blot, Summer, Bontempo, Federico, Book, Julia, Borowka, Jürgen, Boscolo Meneguolo, Caterina, Böser, Sebastian, Botner, Olga, Böttcher, Jakob, Bourbeau, Etienne, Braun, Jim, Brinson, Bennett, Brostean-Kaiser, Jannes, Burley, Ryan, Busse, Raffaela, Campana, Michael, Carnie-Bronca, Erin, Chen, Chujie, Chen, Zheyang, Chirkin, Dmitry, Choi, Koun, Clark, Brian, Classen, Lew, Coleman, Alan, Collin, Gabriel, Connolly, Amy, Conrad, Janet, Coppin, Paul, Correa, Pablo, Countryman, Stefan, Cowen, Doug, Cross, Robert, Dappen, Christian, Dave, Pranav, De Clercq, Catherine, DeLaunay, James, Delgado López, Diyaselis, Dembinski, Hans, Deoskar, Kunal, Desai, Abhishek, Desiati, Paolo, de Vries, Krijn, de Wasseige, Gwenhael, DeYoung, Tyce, Diaz, Alejandro, Díaz-Vélez, Juan Carlos, Dittmer, Markus, Dujmovic, Hrvoje, DuVernois, Michael, Ehrhardt, Thomas, Eller, Philipp, Engel, Ralph, Erpenbeck, Hannah, Evans, John, Evenson, Paul, Fan, Kwok Lung, Fazely, Ali, Fedynitch, Anatoli, Feigl, Nora, Fiedlschuster, Sebastian, Fienberg, Aaron, Finley, Chad, Fischer, Leander, Fox, Derek, Franckowiak, Anna, Friedman, Elizabeth, Fritz, Alexander, Fürst, Philipp, Gaisser, Tom, Gallagher, Jay, Ganster, Erik, Garcia, Alfonso, Garrappa, Simone, Gerhardt, Lisa, Ghadimi, Ava, Glaser, Christian, Glüsenkamp, Thorsten, Glauch, Theo, Goehlke, Noah, Gonzalez, Javier, Goswami, Sreetama, Grant, Darren, Gray, Shannon, Grégoire, Timothée, Griswold, Spencer, Günther, Christoph, Gutjahr, Pascal, Haack, Christian, Hallgren, Allan, Halliday, Robert, Halve, Lasse, Halzen, Francis, Hamdaoui, Hassane, Ha Minh, Martin, Hanson, Kael, Hardin, John, Harnisch, Alexander, Hatch, Patrick, Haungs, Andreas, Helbing, Klaus, Hellrung, Jonas, Henningsen, Felix, Heuermann, Lars, Hickford, Stephanie, Hill, Colton, Hill, Gary, Hoffman, Kara, Hoshina, Kotoyo, Hou, Wenjie, Huber, Thomas, Hultqvist, Klas, Hünnefeld, Mirco, Hussain, Raamis, Hymon, Karolin, In, Seongjin, Iovine, Nadege, Ishihara, Aya, Jansson, Matti, Japaridze, George, Jeong, Minjin, Jin, Miaochen, Jones, Ben, Kang, Donghwa, Kang, Woosik, Kang, Xinyue, Kappes, Alexander, Kappesser, David, Kardum, Leonora, Karg, Timo, Karl, Martina, Karle, Albrecht, Katz, Uli, Kauer, Matt, Kelley, John, Kheirandish, Ali, Kin, Ken'ichi, Kiryluk, Joanna, Klein, Spencer, Kochocki, Alina, Koirala, Ramesh, Kolanoski, Hermann, Kontrimas, Tomas, Köpke, Lutz, Kopper, Claudio, Koskinen, Jason, Koundal, Paras, Kovacevich, Michael, Kowalski, Marek, Kozynets, Tetiana, Krupczak, Emmett, Kun, Emma, Kurahashi, Naoko, Lad, Neha, Lagunas Gualda, Cristina, Larson, Michael, Lauber, Frederik, Lazar, Jeffrey, Lee, Jiwoong, Leonard, Kayla, Leszczyńska, Agnieszka, Lincetto, Massimiliano, Liu, Qinrui, Liubarska, Maria, Lohfink, Elisa, Love, Christina, Lozano Mariscal, Cristian Jesus, Lu, Lu, Lucarelli, Francesco, Ludwig, Andrew, Luszczak, William, Lyu, Yang, Ma, Wing Yan, Madsen, Jim, Mahn, Kendall, Makino, Yuya, Mancina, Sarah, Marie Sainte, Wenceslas, Mariş, Ioana, Marka, Szabolcs, Marka, Zsuzsa, Marsee, Matthew, Martinez-Soler, Ivan, Maruyama, Reina, McElroy, Thomas, McNally, Frank, Mead, James Vincent, Meagher, Kevin, Mechbal, Sarah, Medina, Andres, Meier, Maximilian, Meighen-Berger, Stephan, Merckx, Yarno, Micallef, Jessie, Mockler, Daniela, Montaruli, Teresa, Moore, Roger, Morse, Bob, Moulai, Marjon, Mukherjee, Tista, Naab, Richard, Nagai, Ryo, Naumann, Uwe, Nayerhoda, Amid, Necker, Jannis, Neumann, Miriam, Niederhausen, Hans, Nisa, Mehr, Nowicki, Sarah, Obertacke Pollmann, Anna, Oehler, Marie, Oeyen, Bob, Olivas, Alex, Orsoe, Rasmus, Osborn, Jesse, O'Sullivan, Erin, Pandya, Hershal, Pankova, Daria, Park, Nahee, Parker, Grant, Paudel, Ek Narayan, Paul, Larissa, Pérez de los Heros, Carlos, Peters, Lilly, Peterson, Josh, Philippen, Saskia, Pieper, Sarah, Pizzuto, Alex, Plum, Matthias, Popovych, Yuiry, Porcelli, Alessio, Prado Rodriguez, Maria, Pries, Brandon, Procter-Murphy, Rachel, Przybylski, Gerald, Raab, Christoph, Rack-Helleis, John, Rameez, Mohamed, Rawlins, Katherine, Rechav, Zoe, Rehman, Abdul, Reichherzer, Patrick, Renzi, Giovanni, Resconi, Elisa, Reusch, Simeon, Rhode, Wolfgang, Richman, Mike, Riedel, Benedikt, Roberts, Ella, Robertson, Sally, Rodan, Steven, Roellinghoff, Gerrit, Rongen, Martin, Rott, Carsten, Ruhe, Tim, Ruohan, Li, Ryckbosch, Dirk, Rysewyk Cantu, Devyn, Safa, Ibrahim, Saffer, Julian, Salazar-Gallegos, Daniel, Sampathkumar, Pranav, Sanchez Herrera, Sebastian, Sandrock, Alexander, Santander, Marcos, Sarkar, Sourav, Sarkar, Subir, Schaufel, Merlin, Schieler, Harald, Schindler, Sebastian, Schlüter, Berit, Schmidt, Torsten, Schneider, Judith, Schröder, Frank, Schumacher, Lisa, Schwefer, Georg, Sclafani, Steve, Seckel, Dave, Seunarine, Surujhdeo, Sharma, Ankur, Shefali, Shefali, Shimizu, Nobuhiro, Silva, Manuel, Skrzypek, Barbara, Smithers, Ben, Snihur, Robert, Soedingrekso, Jan, Søgaard, Andreas, Soldin, Dennis, Spannfellner, Christian, Spiczak, Glenn, Spiering, Christian, Stamatikos, Michael, Stanev, Todor, Stein, Robert, Stezelberger, Thorsten, Stürwald, Timo, Stuttard, Thomas, Sullivan, Greg, Taboada, Ignacio, Ter-Antonyan, Samvel, Thompson, Will, Thwaites, Jessie, Tilav, Serap, Tollefson, Kirsten, Tönnis, Christoph, Toscano, Simona, Tosi, Delia, Trettin, Alexander, Tung, Chun Fai, Turcotte, Roxanne, Twagirayezu, Jean Pierre, Ty, Bunheng, Unland Elorrieta, Martin, Upshaw, Karriem, Valtonen-Mattila, Nora, Vandenbroucke, Justin, van Eijndhoven, Nick, Vannerom, David, van Santen, Jakob, Vara, Javi, Veitch-Michaelis, Joshua, Verpoest, Stef, Veske, Doga, Walck, Christian, Wang, Winnie, Watson, Timothy Blake, Weaver, Chris, Weigel, Philip, Weindl, Andreas, Weldert, Jan, Wendt, Chris, Werthebach, Johannes, Weyrauch, Mark, Whitehorn, Nathan, Wiebusch, Christopher, Willey, Nathan, Williams, Dawn, Wolf, Martin, Wrede, Gerrit, Wulff, Johan, Xu, Xianwu, Yanez, Juan Pablo, Yildizci, Emre, Yoshida, Shigeru, Yu, Shiqi, Yuan, Tianlu, Zhang, Zelong, and Zhelnin, Pavel

Abstract

The IceCube Neutrino Observatory instruments about 1 km3 of deep, glacial ice at the geographic South Pole. It uses 5160 photomultipliers to detect Cherenkov light emitted by charged relativistic particles. An unexpected light propagation effect observed by the experiment is an anisotropic attenuation, which is aligned with the local flow direction of the ice. We examine birefringent light propagation through the polycrystalline ice microstructure as a possible explanation for this effect. The predictions of a first-principles model developed for this purpose, in particular curved light trajectories resulting from asymmetric diffusion, provide a qualitatively good match to the main features of the data. This in turn allows us to deduce ice crystal properties. Since the wavelength of the detected light is short compared to the crystal size, these crystal properties include not only the crystal orientation fabric, but also the average crystal size and shape, as a function of depth. By adding small empirical corrections to this first-principles model, a quantitatively accurate description of the optical properties of the IceCube glacial ice is obtained. In this paper, we present the experimental signature of ice optical anisotropy observed in IceCube light-emitting diode (LED) calibration data, the theory and parameterization of the birefringence effect, the fitting procedures of these parameterizations to experimental data, and the inferred crystal properties., Peer Reviewed

Published
2024

27. Levels of Urinary Mercapturic Acids of Acrolein, Methacrolein, Crotonaldehyde, and Methyl Vinyl Ketone in Relationship to Chronic Obstructive Pulmonary Disease in Cigarette Smokers of the Subpopulations and Intermediate Outcome Measures in COPD Study (SPIROMICS)

Author

Wendt, Chris H., primary, Bowler, Russell P., additional, Demorest, Connor, additional, Hastie, Annette, additional, Labaki, Wassim W., additional, Chen, Menglan, additional, Carmella, Steven G., additional, and Hecht, Stephen S., additional

Published
2023
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36. Sociodemographic and Geographic Risk Factors for All-Cause Mortality in Patients with COPD

Author

Robichaux,Camille, Aron,Jordan, Wendt,Chris H, Berman,Jesse D, Rau,Austin, Bangerter,Ann, Dudley,R Adams, Baldomero,Arianne K, Robichaux,Camille, Aron,Jordan, Wendt,Chris H, Berman,Jesse D, Rau,Austin, Bangerter,Ann, Dudley,R Adams, and Baldomero,Arianne K

Abstract

Camille Robichaux,1 Jordan Aron,2 Chris H Wendt,1,3 Jesse D Berman,4 Austin Rau,4 Ann Bangerter,5 R Adams Dudley,1,3,5 Arianne K Baldomero1,3,5 1Pulmonary, Allergy, Critical Care, and Sleep Medicine, University of Minnesota, Minneapolis, MN, USA; 2Division of Biostatistics, University of Minnesota School of Public Health, Minneapolis, MN, USA; 3Pulmonary, Allergy, Critical Care, and Sleep Medicine, Minneapolis VA Health Care System, Minneapolis, MN, USA; 4Division of Environmental Health Sciences, University of Minnesota School of Public Health, Minneapolis, MN, USA; 5Center for Care Delivery and Outcomes Research, Minneapolis VA Health Care System, Minneapolis, MN, USACorrespondence: Camille Robichaux, Division of Pulmonary, Allergy, Critical Care, and Sleep, University of Minnesota, 420 Delaware Street SE, MMC 276, Minneapolis, MN, 55455, USA, Tel +1 612 624-0999, Email robic020@umn.eduBackground: Chronic obstructive pulmonary disease (COPD) is a leading cause of mortality worldwide. Identifying both individual and community risk factors associated with higher mortality is essential to improve outcomes. Few population-based studies of mortality in COPD include both individual characteristics and community risk factors.Objective: We used geocoded, patient-level data to describe the associations between individual demographics, neighborhood socioeconomic status, and all-cause mortality.Methods: We performed a nationally representative retrospective cohort analysis of all patients enrolled in the Veteran Health Administration with at least one ICD-9 or ICD-10 code for COPD in 2016– 2019. We obtained demographic characteristics, comorbidities, and geocoded residential address. Area Deprivation Index and rurality were classified using individual geocoded residential addresses. We used logistic regression models to assess the association between these characteristics and age-adjusted all-cause mortality.Results: Of 1,106,163 COPD patients, 33.4% were deceased as of Ja

Published
2023

38. Research Bronchoscopies in Critically Ill Research Participants: An Official American Thoracic Society Workshop Report

Author

Mikacenic, Carmen, primary, Fussner, Lynn A., additional, Bell, Jasmine, additional, Burnham, Ellen L., additional, Chlan, Linda L., additional, Cook, Sarah K., additional, Dickson, Robert P., additional, Almonor, Francis, additional, Luo, Fengming, additional, Madan, Karan, additional, Morales-Nebreda, Luisa, additional, Mould, Kara J., additional, Simpson, A. John, additional, Singer, Benjamin D., additional, Stapleton, Renee D., additional, Wendt, Chris H., additional, and Files, D. Clark, additional

Published
2023
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40. Increased Indoleamine-2,3-Dioxygenase Activity Is Associated With Poor Clinical Outcome in Adults Hospitalized With Influenza in the INSIGHT FLU003Plus Study

Author

Pett, Sarah L, Kunisaki, Ken M, Wentworth, Deborah, Griffin, Timothy J, Kalomenidis, Ioannis, Nahra, Raquel, Montejano Sanchez, Rocio, Hodgson, Shane W, Ruxrungtham, Kiat, Dwyer, Dominic, Davey, Richard T, Wendt, Chris H, Lundgren, J, Jansson, P, Pearson, M, Aagaard, B, Hudson, F, Bennet, R, Pacciarini, F, Angus, B, Paton, N, Collaco Moraes, Y, Cooper, D, Pett, S, Emery, S, Courtney-Rogers, D, Robson, R, Gordin, F, Sanchez, A, Standridge, B, Vjecha, M, Moricz, A, Delfino, M, Belloso, W, Losso, M, Tillmann, K, Touloumi, G, Gioukari, V, Anagnostou, O, La Rosa, A, Saenz, M J, Lopez, P, Herrero, P, Portas, B, Avihingsanon, A, Ruxrungtham, K, Kaewon, P, Ubolyam, S, Brekke, K, Campbell, M, Denning, E, DuChene, A, Engen, N, George, M, Harrison, M, Neaton, J D, Nelson, R, Quan, S F, Schultz, T, Wentworth, D, Baxter, J, Brown, S, Hoover, M, Beigel, J, Davey, R T, Jr., Dewar, R, Gover, E, McConnell, R, Metcalf, J, Natarajan, V, Rehman, T, Voell, J, Dwyer, D E, Kok, J, Uyeki, T, Munroe, D, Paez, A, Bertrand, M, Temesgen, Z, Rizza, S, Wolfe, C, Carbonneau, J, Novak, R, Schwarber, M, Polenakovik, H, Clark, L, Patil, N, Riska, P, Omotosho, J, Faber, L, Markowitz, N, Glesby, M, Ham, K, Parenti, D, Simon, G, Baxter, J, Coburn, P, Freiberg, M, Koerbel, G, Dharan, N, Paez-Quinde, M, Gunter, J, Beilke, M, Lu, Z, Gunderson, E, Baker, J, Koletar, S, Harber, H, Hurt, C, Marcus, C, Allen, M, Cummins, S, Uslan, D, Bonam, T, Paez, A, Santiago, F, States, D, Gardner, E, DeHovitz, J, Holman, S, Watson, V, Nixon, D, Dwyer, D, Kabir, M, Pett, S, Kilkenny, F, Elliott, J, Garlick, J, McBride, J, Richmond, S, Barcan, L, Sanchez, M, Lopardo, G, Barcelona, L, Bonvehi, P, Temporiti, E R, Losso, M, Macias, L, Laplume, H, Daciuk, L, Warley, E, Tavella, S, Fernandez Cruz, E, Paño, J, Estrada, V, Lopetegui, P, Gimenez Julvez, T, Ryan, P, Sanz Moreno, J, Knobel, H, Soriano, V, Dalmau, D, Dockrell, D, Angus, B, Price, D, Newport, M, Chadwick, D, Østergaard, L, Yehdego, Y, Pedersen, C, Hergens, L, Joensen, Z, Aagaard, B, Kronborg, G, Collins, P, Nielsen, H, Gerstoft, J, Baadegaard, B, Koulouris, N, Antoniadou, A, Protopappas, K, Polixronopoulos, V, Diamantea, F, Sambatakou, H, Mariolis, I, Vassilopoulos, N, Gerogiannis, A, Pinedo Ramirez, Y, Cornelio Mauricio, E, Vega Bazalar, J, Castillo Cordova, R, Fãtkenhuerer, G, Thomas, E, Bergmann, F, Fõllmer, U, Rockstroh, J, Englehardt, A, Stephan, C, Thomas, E, Bogner, J, Brockmeyer, N, Klinker, H, Chetchotisakd, P, Jumpimai, T, Avihingsanon, A, Ruxrungtham, K, Clumeck, N, Kameya, K, Chu, M Y, Wu, T C, Horban, A, Bakowska, E, Burgmann, H, Tobudic, S, Maagaard, A, Wolff, M, and Allendes, G

Published
2018
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43. In-situ estimation of ice crystal properties at the South Pole using LED calibration data from the IceCube Neutrino Observatory

Author

Abbasi, Rasha, Ackermann, Markus, Adams, Jenni, Aggarwal, Nakul, Aguilar, Juanan, Ahlers, Markus, Ahrens, Maryon, Alameddine, Jean-Marco, Alves Junior, Antonio Augusto, Amin, Najia Moureen Binte, Andeen, Karen, Anderson, Tyler, Anton, Gisela, Argüelles, Carlos, Ashida, Yosuke, Athanasiadou, Sofia, Axani, Spencer, Bai, Xinhua, Balagopal V, Aswathi, Baricevic, Moreno, Barwick, Steve, Basu, Vedant, Bay, Ryan, Beatty, James, Becker, Karl Heinz, Becker Tjus, Julia, Beise, Jakob, Bellenghi, Chiara, Benda, Samuel, BenZvi, Segev, Berley, David, Bernardini, Elisa, Besson, Dave, Binder, Gary, Bindig, Daniel, Blaufuss, Erik, Blot, Summer, Bontempo, Federico, Book, Julia, Borowka, Jürgen, Boscolo Meneguolo, Caterina, Böser, Sebastian, Botner, Olga, Böttcher, Jakob, Bourbeau, Etienne, Braun, Jim, Brinson, Bennett, Brostean-Kaiser, Jannes, Burley, Ryan, Busse, Raffaela, Campana, Michael, Carnie-Bronca, Erin, Chen, Chujie, Chen, Zheyang, Chirkin, Dmitry, Choi, Koun, Clark, Brian, Classen, Lew, Coleman, Alan, Collin, Gabriel, Connolly, Amy, Conrad, Janet, Coppin, Paul, Correa, Pablo, Countryman, Stefan, Cowen, Doug, Cross, Robert, Dappen, Christian, Dave, Pranav, De Clercq, Catherine, DeLaunay, James, Delgado López, Diyaselis, Dembinski, Hans, Deoskar, Kunal, Desai, Abhishek, Desiati, Paolo, de Vries, Krijn, de Wasseige, Gwenhael, DeYoung, Tyce, Diaz, Alejandro, Díaz-Vélez, Juan Carlos, Dittmer, Markus, Dujmovic, Hrvoje, DuVernois, Michael, Ehrhardt, Thomas, Eller, Philipp, Engel, Ralph, Erpenbeck, Hannah, Evans, John, Evenson, Paul, Fan, Kwok Lung, Fazely, Ali, Fedynitch, Anatoli, Feigl, Nora, Fiedlschuster, Sebastian, Fienberg, Aaron, Finley, Chad, Fischer, Leander, Fox, Derek, Franckowiak, Anna, Friedman, Elizabeth, Fritz, Alexander, Fürst, Philipp, Gaisser, Tom, Gallagher, Jay, Ganster, Erik, Garcia, Alfonso, Garrappa, Simone, Gerhardt, Lisa, Ghadimi, Ava, Glaser, Christian, Glüsenkamp, Thorsten, Glauch, Theo, Goehlke, Noah, Gonzalez, Javier, Goswami, Sreetama, Grant, Darren, Gray, Shannon, Grégoire, Timothée, Griswold, Spencer, Günther, Christoph, Gutjahr, Pascal, Haack, Christian, Hallgren, Allan, Halliday, Robert, Halve, Lasse, Halzen, Francis, Hamdaoui, Hassane, Ha Minh, Martin, Hanson, Kael, Hardin, John, Harnisch, Alexander, Hatch, Patrick, Haungs, Andreas, Helbing, Klaus, Hellrung, Jonas, Henningsen, Felix, Heuermann, Lars, Hickford, Stephanie, Hill, Colton, Hill, Gary, Hoffman, Kara, Hoshina, Kotoyo, Hou, Wenjie, Huber, Thomas, Hultqvist, Klas, Hünnefeld, Mirco, Hussain, Raamis, Hymon, Karolin, In, Seongjin, Iovine, Nadege, Ishihara, Aya, Jansson, Matti, Japaridze, George, Jeong, Minjin, Jin, Miaochen, Jones, Ben, Kang, Donghwa, Kang, Woosik, Kang, Xinyue, Kappes, Alexander, Kappesser, David, Kardum, Leonora, Karg, Timo, Karl, Martina, Karle, Albrecht, Katz, Uli, Kauer, Matt, Kelley, John, Kheirandish, Ali, Kin, Ken'ichi, Kiryluk, Joanna, Klein, Spencer, Kochocki, Alina, Koirala, Ramesh, Kolanoski, Hermann, Kontrimas, Tomas, Köpke, Lutz, Kopper, Claudio, Koskinen, Jason, Koundal, Paras, Kovacevich, Michael, Kowalski, Marek, Kozynets, Tetiana, Krupczak, Emmett, Kun, Emma, Kurahashi, Naoko, Lad, Neha, Lagunas Gualda, Cristina, Larson, Michael, Lauber, Frederik, Lazar, Jeffrey, Lee, Jiwoong, Leonard, Kayla, Leszczyńska, Agnieszka, Lincetto, Massimiliano, Liu, Qinrui, Liubarska, Maria, Lohfink, Elisa, Love, Christina, Lozano Mariscal, Cristian Jesus, Lu, Lu, Lucarelli, Francesco, Ludwig, Andrew, Luszczak, William, Lyu, Yang, Ma, Wing Yan, Madsen, Jim, Mahn, Kendall, Makino, Yuya, Mancina, Sarah, Marie Sainte, Wenceslas, Mariş, Ioana, Marka, Szabolcs, Marka, Zsuzsa, Marsee, Matthew, Martinez-Soler, Ivan, Maruyama, Reina, McElroy, Thomas, McNally, Frank, Mead, James Vincent, Meagher, Kevin, Mechbal, Sarah, Medina, Andres, Meier, Maximilian, Meighen-Berger, Stephan, Merckx, Yarno, Micallef, Jessie, Mockler, Daniela, Montaruli, Teresa, Moore, Roger, Morse, Bob, Moulai, Marjon, Mukherjee, Tista, Naab, Richard, Nagai, Ryo, Naumann, Uwe, Nayerhoda, Amid, Necker, Jannis, Neumann, Miriam, Niederhausen, Hans, Nisa, Mehr, Nowicki, Sarah, Obertacke Pollmann, Anna, Oehler, Marie, Oeyen, Bob, Olivas, Alex, Orsoe, Rasmus, Osborn, Jesse, O'Sullivan, Erin, Pandya, Hershal, Pankova, Daria, Park, Nahee, Parker, Grant, Paudel, Ek Narayan, Paul, Larissa, Pérez de los Heros, Carlos, Peters, Lilly, Peterson, Josh, Philippen, Saskia, Pieper, Sarah, Pizzuto, Alex, Plum, Matthias, Popovych, Yuiry, Porcelli, Alessio, Prado Rodriguez, Maria, Pries, Brandon, Procter-Murphy, Rachel, Przybylski, Gerald, Raab, Christoph, Rack-Helleis, John, Rameez, Mohamed, Rawlins, Katherine, Rechav, Zoe, Rehman, Abdul, Reichherzer, Patrick, Renzi, Giovanni, Resconi, Elisa, Reusch, Simeon, Rhode, Wolfgang, Richman, Mike, Riedel, Benedikt, Roberts, Ella, Robertson, Sally, Rodan, Steven, Roellinghoff, Gerrit, Rongen, Martin, Rott, Carsten, Ruhe, Tim, Ruohan, Li, Ryckbosch, Dirk, Rysewyk Cantu, Devyn, Safa, Ibrahim, Saffer, Julian, Salazar-Gallegos, Daniel, Sampathkumar, Pranav, Sanchez Herrera, Sebastian, Sandrock, Alexander, Santander, Marcos, Sarkar, Sourav, Sarkar, Subir, Schaufel, Merlin, Schieler, Harald, Schindler, Sebastian, Schlüter, Berit, Schmidt, Torsten, Schneider, Judith, Schröder, Frank, Schumacher, Lisa, Schwefer, Georg, Sclafani, Steve, Seckel, Dave, Seunarine, Surujhdeo, Sharma, Ankur, Shefali, Shefali, Shimizu, Nobuhiro, Silva, Manuel, Skrzypek, Barbara, Smithers, Ben, Snihur, Robert, Soedingrekso, Jan, Søgaard, Andreas, Soldin, Dennis, Spannfellner, Christian, Spiczak, Glenn, Spiering, Christian, Stamatikos, Michael, Stanev, Todor, Stein, Robert, Stezelberger, Thorsten, Stürwald, Timo, Stuttard, Thomas, Sullivan, Greg, Taboada, Ignacio, Ter-Antonyan, Samvel, Thompson, Will, Thwaites, Jessie, Tilav, Serap, Tollefson, Kirsten, Tönnis, Christoph, Toscano, Simona, Tosi, Delia, Trettin, Alexander, Tung, Chun Fai, Turcotte, Roxanne, Twagirayezu, Jean Pierre, Ty, Bunheng, Unland Elorrieta, Martin, Upshaw, Karriem, Valtonen-Mattila, Nora, Vandenbroucke, Justin, van Eijndhoven, Nick, Vannerom, David, van Santen, Jakob, Vara, Javi, Veitch-Michaelis, Joshua, Verpoest, Stef, Veske, Doga, Walck, Christian, Wang, Winnie, Watson, Timothy Blake, Weaver, Chris, Weigel, Philip, Weindl, Andreas, Weldert, Jan, Wendt, Chris, Werthebach, Johannes, Weyrauch, Mark, Whitehorn, Nathan, Wiebusch, Christopher, Willey, Nathan, Williams, Dawn, Wolf, Martin, Wrede, Gerrit, Wulff, Johan, Xu, Xianwu, Yanez, Juan Pablo, Yildizci, Emre, Yoshida, Shigeru, Yu, Shiqi, Yuan, Tianlu, Zhang, Zelong, Zhelnin, Pavel, and IceCube Collaboration

Abstract

doi:10.5194/tc-2022-174, The IceCube Neutrino Observatory instruments about 1 km3 of deep, glacial ice at the geographic South Pole using 5160 photomultipliers to detect Cherenkov light emitted by charged relativistic particles. A unexpected light propagation effect observed by the experiment is an anisotropic attenuation, which is aligned with the local flow direction of the ice. Birefringent light propagation has been examined as a possible explanation for this effect. The predictions of a first-principles birefringence model developed for this purpose, in particular curved light trajectories resulting from asymmetric diffusion, provide a qualitatively good match to the main features of the data. This in turn allows us to deduce ice crystal properties. Since the wavelength of the detected light is short compared to the crystal size, these crystal properties do not only include the crystal orientation fabric, but also the average crystal size and shape, as a function of depth. By adding small empirical corrections to this first-principles model, a quantitatively accurate description of the optical properties of the IceCube glacial ice is obtained. In this paper, we present the experimental signature of ice optical anisotropy observed in IceCube LED calibration data, the theory and parametrization of the birefringence effect, the fitting procedures of these parameterizations to experimental data as well as the inferred crystal properties.

Published
2022
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44. Drive Time and Receipt of Guideline-Recommended Screening, Diagnosis, and Treatment

Author

Baldomero, Arianne K., primary, Kunisaki, Ken M., additional, Wendt, Chris H., additional, Bangerter, Ann, additional, Diem, Susan J., additional, Ensrud, Kristine E., additional, Nelson, David B., additional, Henning-Smith, Carrie, additional, Bart, Bradley A., additional, Hammett, Patrick, additional, Hagedorn, Hildi J., additional, and Dudley, R. Adams, additional

Published
2022
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46. In-situ estimation of ice crystal properties at the South Pole using LED calibration data from the IceCube Neutrino Observatory

Author

Abbasi, Rasha, primary, Ackermann, Markus, additional, Adams, Jenni, additional, Aggarwal, Nakul, additional, Aguilar, Juanan, additional, Ahlers, Markus, additional, Ahrens, Maryon, additional, Alameddine, Jean-Marco, additional, Alves Junior, Antonio Augusto, additional, Amin, Najia Moureen Binte, additional, Andeen, Karen, additional, Anderson, Tyler, additional, Anton, Gisela, additional, Argüelles, Carlos, additional, Ashida, Yosuke, additional, Athanasiadou, Sofia, additional, Axani, Spencer, additional, Bai, Xinhua, additional, Balagopal V, Aswathi, additional, Baricevic, Moreno, additional, Barwick, Steve, additional, Basu, Vedant, additional, Bay, Ryan, additional, Beatty, James, additional, Becker, Karl Heinz, additional, Becker Tjus, Julia, additional, Beise, Jakob, additional, Bellenghi, Chiara, additional, Benda, Samuel, additional, BenZvi, Segev, additional, Berley, David, additional, Bernardini, Elisa, additional, Besson, Dave, additional, Binder, Gary, additional, Bindig, Daniel, additional, Blaufuss, Erik, additional, Blot, Summer, additional, Bontempo, Federico, additional, Book, Julia, additional, Borowka, Jürgen, additional, Boscolo Meneguolo, Caterina, additional, Böser, Sebastian, additional, Botner, Olga, additional, Böttcher, Jakob, additional, Bourbeau, Etienne, additional, Braun, Jim, additional, Brinson, Bennett, additional, Brostean-Kaiser, Jannes, additional, Burley, Ryan, additional, Busse, Raffaela, additional, Campana, Michael, additional, Carnie-Bronca, Erin, additional, Chen, Chujie, additional, Chen, Zheyang, additional, Chirkin, Dmitry, additional, Choi, Koun, additional, Clark, Brian, additional, Classen, Lew, additional, Coleman, Alan, additional, Collin, Gabriel, additional, Connolly, Amy, additional, Conrad, Janet, additional, Coppin, Paul, additional, Correa, Pablo, additional, Countryman, Stefan, additional, Cowen, Doug, additional, Cross, Robert, additional, Dappen, Christian, additional, Dave, Pranav, additional, De Clercq, Catherine, additional, DeLaunay, James, additional, Delgado López, Diyaselis, additional, Dembinski, Hans, additional, Deoskar, Kunal, additional, Desai, Abhishek, additional, Desiati, Paolo, additional, de Vries, Krijn, additional, de Wasseige, Gwenhael, additional, DeYoung, Tyce, additional, Diaz, Alejandro, additional, Díaz-Vélez, Juan Carlos, additional, Dittmer, Markus, additional, Dujmovic, Hrvoje, additional, DuVernois, Michael, additional, Ehrhardt, Thomas, additional, Eller, Philipp, additional, Engel, Ralph, additional, Erpenbeck, Hannah, additional, Evans, John, additional, Evenson, Paul, additional, Fan, Kwok Lung, additional, Fazely, Ali, additional, Fedynitch, Anatoli, additional, Feigl, Nora, additional, Fiedlschuster, Sebastian, additional, Fienberg, Aaron, additional, Finley, Chad, additional, Fischer, Leander, additional, Fox, Derek, additional, Franckowiak, Anna, additional, Friedman, Elizabeth, additional, Fritz, Alexander, additional, Fürst, Philipp, additional, Gaisser, Tom, additional, Gallagher, Jay, additional, Ganster, Erik, additional, Garcia, Alfonso, additional, Garrappa, Simone, additional, Gerhardt, Lisa, additional, Ghadimi, Ava, additional, Glaser, Christian, additional, Glüsenkamp, Thorsten, additional, Glauch, Theo, additional, Goehlke, Noah, additional, Gonzalez, Javier, additional, Goswami, Sreetama, additional, Grant, Darren, additional, Gray, Shannon, additional, Grégoire, Timothée, additional, Griswold, Spencer, additional, Günther, Christoph, additional, Gutjahr, Pascal, additional, Haack, Christian, additional, Hallgren, Allan, additional, Halliday, Robert, additional, Halve, Lasse, additional, Halzen, Francis, additional, Hamdaoui, Hassane, additional, Ha Minh, Martin, additional, Hanson, Kael, additional, Hardin, John, additional, Harnisch, Alexander, additional, Hatch, Patrick, additional, Haungs, Andreas, additional, Helbing, Klaus, additional, Hellrung, Jonas, additional, Henningsen, Felix, additional, Heuermann, Lars, additional, Hickford, Stephanie, additional, Hill, Colton, additional, Hill, Gary, additional, Hoffman, Kara, additional, Hoshina, Kotoyo, additional, Hou, Wenjie, additional, Huber, Thomas, additional, Hultqvist, Klas, additional, Hünnefeld, Mirco, additional, Hussain, Raamis, additional, Hymon, Karolin, additional, In, Seongjin, additional, Iovine, Nadege, additional, Ishihara, Aya, additional, Jansson, Matti, additional, Japaridze, George, additional, Jeong, Minjin, additional, Jin, Miaochen, additional, Jones, Ben, additional, Kang, Donghwa, additional, Kang, Woosik, additional, Kang, Xinyue, additional, Kappes, Alexander, additional, Kappesser, David, additional, Kardum, Leonora, additional, Karg, Timo, additional, Karl, Martina, additional, Karle, Albrecht, additional, Katz, Uli, additional, Kauer, Matt, additional, Kelley, John, additional, Kheirandish, Ali, additional, Kin, Ken'ichi, additional, Kiryluk, Joanna, additional, Klein, Spencer, additional, Kochocki, Alina, additional, Koirala, Ramesh, additional, Kolanoski, Hermann, additional, Kontrimas, Tomas, additional, Köpke, Lutz, additional, Kopper, Claudio, additional, Koskinen, Jason, additional, Koundal, Paras, additional, Kovacevich, Michael, additional, Kowalski, Marek, additional, Kozynets, Tetiana, additional, Krupczak, Emmett, additional, Kun, Emma, additional, Kurahashi, Naoko, additional, Lad, Neha, additional, Lagunas Gualda, Cristina, additional, Larson, Michael, additional, Lauber, Frederik, additional, Lazar, Jeffrey, additional, Lee, Jiwoong, additional, Leonard, Kayla, additional, Leszczyńska, Agnieszka, additional, Lincetto, Massimiliano, additional, Liu, Qinrui, additional, Liubarska, Maria, additional, Lohfink, Elisa, additional, Love, Christina, additional, Lozano Mariscal, Cristian Jesus, additional, Lu, Lu, additional, Lucarelli, Francesco, additional, Ludwig, Andrew, additional, Luszczak, William, additional, Lyu, Yang, additional, Ma, Wing Yan, additional, Madsen, Jim, additional, Mahn, Kendall, additional, Makino, Yuya, additional, Mancina, Sarah, additional, Marie Sainte, Wenceslas, additional, Mariş, Ioana, additional, Marka, Szabolcs, additional, Marka, Zsuzsa, additional, Marsee, Matthew, additional, Martinez-Soler, Ivan, additional, Maruyama, Reina, additional, McElroy, Thomas, additional, McNally, Frank, additional, Mead, James Vincent, additional, Meagher, Kevin, additional, Mechbal, Sarah, additional, Medina, Andres, additional, Meier, Maximilian, additional, Meighen-Berger, Stephan, additional, Merckx, Yarno, additional, Micallef, Jessie, additional, Mockler, Daniela, additional, Montaruli, Teresa, additional, Moore, Roger, additional, Morse, Bob, additional, Moulai, Marjon, additional, Mukherjee, Tista, additional, Naab, Richard, additional, Nagai, Ryo, additional, Naumann, Uwe, additional, Nayerhoda, Amid, additional, Necker, Jannis, additional, Neumann, Miriam, additional, Niederhausen, Hans, additional, Nisa, Mehr, additional, Nowicki, Sarah, additional, Obertacke Pollmann, Anna, additional, Oehler, Marie, additional, Oeyen, Bob, additional, Olivas, Alex, additional, Orsoe, Rasmus, additional, Osborn, Jesse, additional, O'Sullivan, Erin, additional, Pandya, Hershal, additional, Pankova, Daria, additional, Park, Nahee, additional, Parker, Grant, additional, Paudel, Ek Narayan, additional, Paul, Larissa, additional, Pérez de los Heros, Carlos, additional, Peters, Lilly, additional, Peterson, Josh, additional, Philippen, Saskia, additional, Pieper, Sarah, additional, Pizzuto, Alex, additional, Plum, Matthias, additional, Popovych, Yuiry, additional, Porcelli, Alessio, additional, Prado Rodriguez, Maria, additional, Pries, Brandon, additional, Procter-Murphy, Rachel, additional, Przybylski, Gerald, additional, Raab, Christoph, additional, Rack-Helleis, John, additional, Rameez, Mohamed, additional, Rawlins, Katherine, additional, Rechav, Zoe, additional, Rehman, Abdul, additional, Reichherzer, Patrick, additional, Renzi, Giovanni, additional, Resconi, Elisa, additional, Reusch, Simeon, additional, Rhode, Wolfgang, additional, Richman, Mike, additional, Riedel, Benedikt, additional, Roberts, Ella, additional, Robertson, Sally, additional, Rodan, Steven, additional, Roellinghoff, Gerrit, additional, Rongen, Martin, additional, Rott, Carsten, additional, Ruhe, Tim, additional, Ruohan, Li, additional, Ryckbosch, Dirk, additional, Rysewyk Cantu, Devyn, additional, Safa, Ibrahim, additional, Saffer, Julian, additional, Salazar-Gallegos, Daniel, additional, Sampathkumar, Pranav, additional, Sanchez Herrera, Sebastian, additional, Sandrock, Alexander, additional, Santander, Marcos, additional, Sarkar, Sourav, additional, Sarkar, Subir, additional, Schaufel, Merlin, additional, Schieler, Harald, additional, Schindler, Sebastian, additional, Schlüter, Berit, additional, Schmidt, Torsten, additional, Schneider, Judith, additional, Schröder, Frank, additional, Schumacher, Lisa, additional, Schwefer, Georg, additional, Sclafani, Steve, additional, Seckel, Dave, additional, Seunarine, Surujhdeo, additional, Sharma, Ankur, additional, Shefali, Shefali, additional, Shimizu, Nobuhiro, additional, Silva, Manuel, additional, Skrzypek, Barbara, additional, Smithers, Ben, additional, Snihur, Robert, additional, Soedingrekso, Jan, additional, Søgaard, Andreas, additional, Soldin, Dennis, additional, Spannfellner, Christian, additional, Spiczak, Glenn, additional, Spiering, Christian, additional, Stamatikos, Michael, additional, Stanev, Todor, additional, Stein, Robert, additional, Stezelberger, Thorsten, additional, Stürwald, Timo, additional, Stuttard, Thomas, additional, Sullivan, Greg, additional, Taboada, Ignacio, additional, Ter-Antonyan, Samvel, additional, Thompson, Will, additional, Thwaites, Jessie, additional, Tilav, Serap, additional, Tollefson, Kirsten, additional, Tönnis, Christoph, additional, Toscano, Simona, additional, Tosi, Delia, additional, Trettin, Alexander, additional, Tung, Chun Fai, additional, Turcotte, Roxanne, additional, Twagirayezu, Jean Pierre, additional, Ty, Bunheng, additional, Unland Elorrieta, Martin, additional, Upshaw, Karriem, additional, Valtonen-Mattila, Nora, additional, Vandenbroucke, Justin, additional, van Eijndhoven, Nick, additional, Vannerom, David, additional, van Santen, Jakob, additional, Vara, Javi, additional, Veitch-Michaelis, Joshua, additional, Verpoest, Stef, additional, Veske, Doga, additional, Walck, Christian, additional, Wang, Winnie, additional, Watson, Timothy Blake, additional, Weaver, Chris, additional, Weigel, Philip, additional, Weindl, Andreas, additional, Weldert, Jan, additional, Wendt, Chris, additional, Werthebach, Johannes, additional, Weyrauch, Mark, additional, Whitehorn, Nathan, additional, Wiebusch, Christopher, additional, Willey, Nathan, additional, Williams, Dawn, additional, Wolf, Martin, additional, Wrede, Gerrit, additional, Wulff, Johan, additional, Xu, Xianwu, additional, Yanez, Juan Pablo, additional, Yildizci, Emre, additional, Yoshida, Shigeru, additional, Yu, Shiqi, additional, Yuan, Tianlu, additional, Zhang, Zelong, additional, and Zhelnin, Pavel, additional

Published
2022
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50. Longitudinal Association Between Muscle Loss and Mortality in Ever Smokers

Author

Mason, Stefanie E., primary, Moreta-Martinez, Rafael, additional, Labaki, Wassim W., additional, Strand, Matthew J., additional, Regan, Elizabeth A., additional, Bon, Jessica, additional, San Jose Estepar, Ruben, additional, Casaburi, Richard, additional, McDonald, Merry-Lynn, additional, Rossiter, Harry B., additional, Make, Barry, additional, Dransfield, Mark T., additional, Han, MeiLan K., additional, Young, Kendra, additional, Curtis, Jeffrey L., additional, Stringer, Kathleen, additional, Kinney, Greg, additional, Hokanson, John E., additional, San Jose Estepar, Raul, additional, Washko, George R., additional, Crapo, James D., additional, Silverman, Edwin K., additional, Cummings, Sara, additional, Madden, Kelley, additional, Make, Barry J., additional, Nabbosa, Juliet, additional, Port, Emily, additional, Rashdi, Serine, additional, Stepp, Lori, additional, Watts, Shandi, additional, Weaver, Michael, additional, Beaty, Terri, additional, Bowler, Russell P., additional, Lynch, David A., additional, Anderson, Gary, additional, Bleecker, Eugene R., additional, Coxson, Harvey O., additional, Crystal, Ronald G., additional, Hogg, James C., additional, Province, Michael A., additional, Rennard, Stephen I., additional, Croxton, Thomas, additional, Gan, Weiniu, additional, Postow, Lisa A., additional, Viviano, Lisa M., additional, Costa-Davis, Corinne, additional, Malanga, Elisha, additional, Prieto, Delia, additional, Tal-Singer, Ruth, additional, Farzadegan, Homayoon, additional, Hadji, Akila, additional, Sathe, Leena, additional, Baraghoshi, David, additional, Chen, Grace, additional, Crooks, James, additional, Knowles, Ruthie, additional, Pratte, Katherine, additional, Wilson, Carla, additional, Zelarney, Pearlanne T., additional, Kechris, Katerina J., additional, Leach, Sonia, additional, Austin, Erin E., additional, Czizik, Annika, additional, Kinney, Gregory, additional, Li, Yisha, additional, Lutz, Sharon M., additional, Ragland, Margaret F., additional, Richmond, Nicole, additional, Young, Kendra A., additional, Cho, Michael, additional, Castaldi, Peter J., additional, Glass, Kimberly, additional, Hersh, Craig, additional, Kim, Wonji, additional, Liu, Yang-Yu, additional, Hersh, Craig P., additional, Bidinger, Jacqueline, additional, Cho, Michael H., additional, Conrad, Douglas, additional, DeMeo, Dawn L., additional, El-Boueiz, Adel R., additional, Foreman, Marilyn G., additional, Ghosh, Auyon, additional, Hahn, Georg, additional, Hansel, Nadia N., additional, Hayden, Lystra P., additional, Hobbs, Brian, additional, Kim, Woori, additional, Lange, Christoph, additional, McDonald, Merry- Lynn, additional, McGeachie, Michael, additional, Moll, Matthew, additional, Morris, Melody, additional, Patsopoulos, Nikolaos A., additional, Qiao, Dandi, additional, Ruczinski, Ingo, additional, Wan, Emily S., additional, Dy, Jennifer G., additional, Fain, Sean B., additional, Ginsburg, Shoshana, additional, Hoffman, Eric A., additional, Humphries, Stephen, additional, Judy, Philip F., additional, Stefanie Mason, Alex Kluiber, additional, Oh, Andrea, additional, Poynton, Clare, additional, Reinhardt, Joseph M., additional, Ross, James, additional, Schroeder, Joyce D., additional, Sitek, Arkadiusz, additional, Steiner, Robert M., additional, van Beek, Edwin, additional, Ginneken, Bram van, additional, van Rikxoort, Eva, additional, Jensen, Robert, additional, John E. Hokanson, Co-Chair:, additional, Bhatt, Surya P., additional, Kim, Victor, additional, Putcha, Nirupama, additional, Han, MeiLan, additional, Diaz, Alejandro A., additional, Regan, Elizabeth, additional, Anzueto, Antonio, additional, Bailey, William C., additional, Criner, Gerard J., additional, Sprenger, Kim, additional, Benos, Takis, additional, Hanania, Nicola A., additional, Hoth, Karin F., additional, Lambert, Allison, additional, Lowe, Katherine, additional, Oates, Gabriela, additional, Parekh, Trisha, additional, Westney, Gloria, additional, Balasubramanian, Aparna, additional, Boriek, Aladin, additional, Fawzy, Ashraf, additional, Jacobson, Francine, additional, LaFon, David C., additional, MacIntyre, Neil, additional, Maselli-Caceres, Diego, additional, McCormack, Meredith C., additional, Sciurba, Frank, additional, Soler, Xavier, additional, Tejwani, Vickram, additional, van Beek, Edwin JR., additional, Wade, Raymond C., additional, Wells, Mike, additional, Wendt, Chris H., additional, Yun, Jeong H., additional, Zhang, Jingzhou, additional, Gillenwater, Lucas, additional, Lowe, Katherine E., additional, Pratte, Katherine A., additional, Ragland, Margaret, additional, Attaway, Amy, additional, Mason, Stefanie, additional, Saha, Punam Kumar, additional, Wilson, Ava, additional, Amaza, Hannatu, additional, Baldomero, Adrienne, additional, Mamary, A. James, additional, O’Brien, James, additional, Wise, Robert A., additional, Eakin, Michelle, additional, Fiedorowicz, Jess G., additional, Henkle, Ben, additional, Holm, Kristen, additional, Iyer, Anand, additional, Kunisaki, Ken M., additional, McEvoy, Charlene, additional, Mkorombindo, Takudzwa, additional, Shinozaki, Gen, additional, Yohannes, Abebaw, additional, Hobbs, Brian D., additional, Miller, Bruce E., additional, Retson, Tara, additional, McCloskey, Lisa, additional, Pernicano, Perry G., additional, Atik, Mustafa, additional, Bertrand, Laura, additional, Monaco, Thomas, additional, Narendra, Dharani, additional, Lenge de Rosen, Veronica V., additional, Badu-Danso, Kwame, additional, Jacobson, Francine L., additional, Kaufman, Laura, additional, Maguire, Cherie, additional, Struble, Sophie, additional, Wilson, Seth, additional, Barr, R. Graham, additional, Almonte, Casandra, additional, Austin, John H.M., additional, Gomez Blum, Maria Lorena, additional, D’Souza, Belinda M., additional, Florez, Emilay, additional, Martinez, Rodney, additional, Curry, Wendy, additional, McAdams, H. Page, additional, Reikofski, Charlotte V., additional, Washington, Lacey, additional, Brown, Robert, additional, Clare, Cheryl, additional, Daniel, Marie, additional, Horton, Karen, additional, Ting “Tony” Lin, Cheng, additional, Mirza, Tahira, additional, Scott, Meagan, additional, Shade, Becky, additional, Budoff, Matt, additional, Calmelat, Robert, additional, Cavanaugh, Deborah, additional, Dailing, Chris, additional, Diaz, Leticia, additional, Fischer, Hans, additional, Indelicato, Renee Love, additional, Porszasz, Janos, additional, Soriano, April, additional, Stringer, William, additional, Urrutia, Miriam, additional, Baldomero, Arianne, additional, Bell, Brian, additional, Deconcini, Miranda, additional, Loes, Linda, additional, Phelan, Jonathan, additional, Robichaux, Camille, additional, Sasse, Cheryl, additional, Tashjian, Joseph H., additional, Flenaugh, Eric L., additional, Abson, Kema, additional, Gebrekristos, Hirut, additional, Johnson, Priscilla, additional, Jordan, Jessica, additional, Ponce, Mario, additional, Terpenning, Silanath, additional, Wilson, Derrick, additional, Broadhurst, Grace, additional, Dyer, Debra, additional, Engel, Elena, additional, Finigan, Jay, additional, Hill, Andrew, additional, Jones, Alex, additional, Jones, Ryan, additional, Owen, Jordan, additional, Rosiello, Richard, additional, Andries, Nicole, additional, Charpentier, Mary, additional, Kirk, Diane, additional, Pace, David, additional, Ciccolella, David, additional, Cordova, Francis, additional, Dass, Chandra, additional, D’Alonzo, Gilbert, additional, Davis, Valena, additional, Desai, Parag, additional, Fehrle, Dee, additional, Grabianowski, Carla, additional, Jacobs, Michael, additional, Jameson, Laurie, additional, Jones, Gayle M., additional, Kelsen, Steven, additional, Marchetti, Nathaniel, additional, McGonagle, Francine, additional, Satti, Aditi, additional, Shenoy, Kartik, additional, Sheridan, Regina, additional, Vega-Sanchez, Maria, additional, Wallace, Samantha, additional, Akinseye-kolapo, Samuel, additional, Baker, Matthew, additional, Goggins, Arnissa, additional, McClain, Anny, additional, Nath, Hrudaya, additional, Singh, Satinder P., additional, Sonavane, Sushil K., additional, Westfall, Elizabeth, additional, Gil, Marissa, additional, El Hajjaoui, Tarek, additional, Hsiao, Albert, additional, Martineau, Amber, additional, Mielke, Jenna, additional, Perez, Karl, additional, Querido, Gabriel, additional, Reston, Tara, additional, Yen, Andrew, additional, Comellas, Alejandro, additional, Fortis, Spyridon, additional, Galizia, Mauricio, additional, Garcia, Eric, additional, Keating, Janet, additional, Laroia, Archana, additional, Lee, Changhyun, additional, Meyer, Amber, additional, Mullan, Brian, additional, Nagpal, Prashant, additional, Ofori, Oloigbe, additional, and Suiter, Sierra, additional

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2022
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