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2,053 results on '"A. Sittler"'

2. Synchronous timing of return to breeding sites in a long-distance migratory seabird with ocean-scale variation in migration schedules

Author

van Bemmelen, Rob S. A., Moe, Børge, Schekkerman, Hans, Hansen, Sveinn Are, Snell, Katherine R. S., Humphreys, Elizabeth M., Mäntylä, Elina, Hallgrimsson, Gunnar Thor, Gilg, Olivier, Ehrich, Dorothée, Calladine, John, Hammer, Sjúrður, Harris, Sarah, Lang, Johannes, Vignisson, Sölvi Rúnar, Kolbeinsson, Yann, Nuotio, Kimmo, Sillanpää, Matti, Sittler, Benoît, Sokolov, Aleksandr, Klaassen, Raymond H. G., Phillips, Richard A., and Tulp, Ingrid

Published
2024
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3. Synchronous timing of return to breeding sites in a long-distance migratory seabird with ocean-scale variation in migration schedules

Author

Rob S. A. van Bemmelen, Børge Moe, Hans Schekkerman, Sveinn Are Hansen, Katherine R. S. Snell, Elizabeth M. Humphreys, Elina Mäntylä, Gunnar Thor Hallgrimsson, Olivier Gilg, Dorothée Ehrich, John Calladine, Sjúrður Hammer, Sarah Harris, Johannes Lang, Sölvi Rúnar Vignisson, Yann Kolbeinsson, Kimmo Nuotio, Matti Sillanpää, Benoît Sittler, Aleksandr Sokolov, Raymond H. G. Klaassen, Richard A. Phillips, and Ingrid Tulp

Subjects
Arctic Skua, Parasitic Jaeger, Stercorarius parasiticus, Migratory connectivity, Phenology, Annual cycle, Biology (General), QH301-705.5
Abstract

Abstract Background Migratory birds generally have tightly scheduled annual cycles, in which delays can have carry-over effects on the timing of later events, ultimately impacting reproductive output. Whether temporal carry-over effects are more pronounced among migrations over larger distances, with tighter schedules, is a largely unexplored question. Methods We tracked individual Arctic Skuas Stercorarius parasiticus, a long-distance migratory seabird, from eight breeding populations between Greenland and Siberia using light-level geolocators. We tested whether migration schedules among breeding populations differ as a function of their use of seven widely divergent wintering areas across the Atlantic Ocean, Mediterranean Sea and Indian Ocean. Results Breeding at higher latitudes led not only to later reproduction and migration, but also faster spring migration and shorter time between return to the breeding area and clutch initiation. Wintering area was consistent within individuals among years; and more distant areas were associated with more time spent on migration and less time in the wintering areas. Skuas adjusted the period spent in the wintering area, regardless of migration distance, which buffered the variation in timing of autumn migration. Choice of wintering area had only minor effects on timing of return at the breeding area and timing of breeding and these effects were not consistent between breeding populations. Conclusion The lack of a consistent effect of wintering area on timing of return between breeding areas indicates that individuals synchronize their arrival with others in their population despite extensive individual differences in migration strategies.

Published
2024
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4. Analysis of Domains Affecting Intracellular Localization of the FMRP Protein

Author

B. Bardoni, A. Sittler, Y. Shen, and J.L. Mandel

Subjects
Neurosciences. Biological psychiatry. Neuropsychiatry, RC321-571
Abstract

Fragile X syndrome is the most frequent form of inherited mental retardation and it is caused by deficiency of FMRP, the protein encoded by the FMR1 gene. FMRP is a RNA binding protein of unknown function which is associated with ribosomes. FMRP is found in the cytoplasm, but it is endowed with a nuclear export signal (NES), encoded by exon 14, and a nuclear localization signal (NLS). Characterization of the FMRP NES and NLS domains is presented here. We show by site-directed mutagenesis that three leucine residues in exon 14 are functionally important for the cytoplasmic localization of FMRP. Changing these leucines to serine resulted in a nuclear localization, while another nonconservative change (leucine to tyrosine) did not show such an effect. We also show that the NLS activity is localized between residues 115 and 150, a region that lacks stretches of basic residues. Such stretches are typical of nuclear localization signals that act through the importin α pathway. The region between residues 151 and 196 can reinforce the NLS activity. A truncated construct containing the N-terminal region of FMRP (residues 1–114) is strikingly concentrated in the nucleus. This suggests that it may contain a domain of strong affinity with a nuclear component.

Published
1997
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5. Identifying invertebrate species in Arctic muskox dung using DNA barcoding

Author

Anaïs Dittrich, Johannes Lang, Cornelia Schütz, Benoît Sittler, and Bernhard Eitzinger

Subjects
arthropods, edna, greenland, nematodes, tundra, ovibos moschatus, Environmental sciences, GE1-350, Oceanography, GC1-1581
Abstract

The Arctic is undergoing strong environmental changes, affecting species and whole biological communities. To assess the impact on these communities, including their composition and functions, we need more information on their current distribution and biology. In the High-Arctic tundra, dung from animals, such as muskoxen (Ovibos moschatus), is a relatively understudied microhabitat that may be attractive for organisms like dung-feeding insects as well as gastrointestinal parasites. Using a DNA barcoding approach, we examined muskox droppings from two Greenlandic regions for dung-dwelling invertebrates. In 15% of all samples, we found the DNA of insect species in the orders Diptera and Lepidoptera. The saprophagous Diptera colonized dung differently in west versus north-east Greenland and summer versus winter. In addition, we found muskox dung harbouring endoparasitic nematodes in samples from both regions. However, we could not find traces of saprophagous arthropods, such as collembolans and mites, from the soil sphere. Our pilot study sheds a first light on the invertebrates living in this neglected Arctic microhabitat.

Published
2023
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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. Topological nature of the Kondo insulator SmB$_6$ and its sensitiveness to Sm vacancy

Author

Park, W. K., Sittler, J. A., Greene, L. H., Fuhrman, W. T., Chamorro, J. R., Koohpayeh, S. M., Phelan, W. A., and McQueen, T. M.

Subjects
Condensed Matter - Strongly Correlated Electrons
Abstract

The true topological nature of the Kondo insulator SmB$_6$ remains to be unveiled. Our previous tunneling study not only found evidence for the existence of surface Dirac fermions, but it also uncovered that they inherently interact with the spin excitons, collective excitations in the bulk. We have extended such a spectroscopic investigation into crystals containing a Sm deficiency. The bulk hybridization gap is found to be insensitive to the deficiency up to 1% studied here, but the surface states in Sm-deficient crystals exhibit quite different temperature evolutions from those in stoichiometric ones. We attribute this to the topological surface states remaining incoherent down to the lowest measurement temperature due to their continued interaction with the spin excitons that remain uncondensed. This result shows that the detailed topological nature of SmB$_6$ could vary drastically in the presence of disorder in the lattice. This sensitiveness to disorder is seemingly contradictory to the celebrated topological protection, but it can be understood as being due to the intimate interplay between strong correlations and topological effects., Comment: 17 pages, 4 figures

Published
2021
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8. Titan: Earth-like on the Outside, Ocean World on the Inside

Author

MacKenzie, Shannon M., Birch, Samuel P. D., Horst, Sarah, Sotin, Christophe, Barth, Erika, Lora, Juan M., Trainer, Melissa G., Corlies, Paul, Malaska, Michael J., Sciamma-O'Brien, Ella, Thelen, Alexander E., Turtle, Elizabeth P., Radebaugh, Jani, Hanley, Jennifer, Solomonidou, Anezina, Newman, Claire, Regoli, Leonardo, Rodriguez, Sebastien, Seignovert, Benoit, Hayes, Alexander G., Journaux, Baptiste, Steckloff, Jordan, Nna-Mvondo, Delphine, Cornet, Thomas, Palmer, Maureen, Lopes, Rosaly M. C., Vinatier, Sandrine, Lorenz, Ralph, Nixon, Conor, Czaplinski, Ellen, Barnes, Jason W., Sittler, Ed, and Coates, Andrew

Subjects
Astrophysics - Earth and Planetary Astrophysics, Physics - Atmospheric and Oceanic Physics
Abstract

Thanks to the Cassini-Huygens mission, Titan, the pale orange dot of Pioneer and Voyager encounters has been revealed to be a dynamic, hydrologically-shaped, organic-rich ocean world offering unparalleled opportunities to explore prebiotic chemistry. And while Cassini-Huygens revolutionized our understanding of each of the three layers of Titan--the atmosphere, the surface, and the interior--we are only beginning to hypothesize how these realms interact. In this paper, we summarize the current state of Titan knowledge and discuss how future exploration of Titan would address some of the next decade's most compelling planetary science questions. We also demonstrate why exploring Titan, both with and beyond the Dragonfly New Frontiers mission, is a necessary and complementary component of an Ocean Worlds Program that seeks to understand whether habitable environments exist elsewhere in our solar system., Comment: Submitted to the PSJ Focus Issue on Ocean World Exploration

Published
2021

9. Genome Size in the Arenaria ciliata Species Complex (Caryophyllaceae), with Special Focus on Northern Europe and the Arctic

Author

Gregor Kozlowski, Yann Fragnière, Benoît Clément, Olivier Gilg, Benoît Sittler, Johannes Lang, Pernille Bronken Eidesen, Simone I. Lang, Pawel Wasowicz, and Conor Meade

Subjects
arctic-alpine plants, Arenaria norvegica, Arenaria gothica, Arenaria pseudofrigida, flow cytometry, ploidy, Botany, QK1-989
Abstract

The main aim of the present study has been the completion of genome size data for the diverse arctic-alpine A. ciliata species complex, with special focus on the unexplored arctic taxon A. pseudofrigida, the north-European A. norvegica, and A. gothica from Gotland (Sweden). Altogether, 46 individuals of these three Nordic taxa have been sampled from seven different regions and their genome size estimated using flow cytometry. Three other alpine taxa in the A. ciliata complex (A. multicaulis, A. ciliata subsp. ciliata, and A. ciliata subsp. bernensis) were also collected and analyzed for standardization purposes, comprising 20 individuals from six regions. A mean 2c value of 1.65 pg of DNA was recorded for A. pseudofrigida, 2.80 pg for A. norvegica, and 4.14 pg for A. gothica, as against the reconfirmed 2c value of 1.63 pg DNA for the type taxon A. ciliata subsp. ciliata. Our results presenting the first estimations of genome sizes for the newly sampled taxa, corroborate ploidy levels described in the available literature, with A. pseudofrigida being tetraploid (2n = 4x = 40), A. norvegica possessing predominantly 2n = 8x = 80, and A. gothica with 2n = 10x = 100. The present study also reconfirms genome size and ploidy level estimations published previously for the alpine members of this species complex. Reflecting a likely complex recent biogeographic history, the A. ciliata species group comprises a polyploid arctic-alpine species complex characterized by reticulate evolution, polyploidizations and hybridizations, probably associated with rapid latitudinal and altitudinal migrations in the Pleistocene–Holocene period.

Published
2024
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10. Using Multitask Learning to Improve 12-Lead Electrocardiogram Classification

Author

Hughes, J. Weston, Sittler, Taylor, Joseph, Anthony D., Olgin, Jeffrey E., Gonzalez, Joseph E., and Tison, Geoffrey H.

Subjects
Computer Science - Machine Learning, Statistics - Machine Learning
Abstract

We develop a multi-task convolutional neural network (CNN) to classify multiple diagnoses from 12-lead electrocardiograms (ECGs) using a dataset comprised of over 40,000 ECGs, with labels derived from cardiologist clinical interpretations. Since many clinically important classes can occur in low frequencies, approaches are needed to improve performance on rare classes. We compare the performance of several single-class classifiers on rare classes to a multi-headed classifier across all available classes. We demonstrate that the addition of common classes can significantly improve CNN performance on rarer classes when compared to a model trained on the rarer class in isolation. Using this method, we develop a model with high performance as measured by F1 score on multiple clinically relevant classes compared against the gold-standard cardiologist interpretation., Comment: Machine Learning for Health (ML4H) Workshop at NeurIPS 2018 arXiv:1811.07216

Published
2018

13. Lunar Solar Occultation Explorer (LunaSOX)

Author

John F. Cooper, Shadia R. Habbal, Benjamin Boe, Vassilis Angelopoulos, David G. Sibeck, Nikolaos Paschalidis, Edward C. Sittler, Lan K. Jian, and Rosemary M. Killen

Subjects
heliophysics, solar corona, Moon, solar eclipse, solar wind, Astronomy, QB1-991, Geophysics. Cosmic physics, QC801-809
Abstract

In the present decade and beyond, now 51 years after the last Apollo landing, the NASA Artemis human exploration program will offer abundant opportunities for heliophysics investigations from, by, and of the Moon from the vantage points of the lunar orbit and the surface. The Lunar Solar Occultation Explorer (LunaSOX) concept uses the lunar limb to occult the solar disk for high-resolution coronal observations at hourly, daily, to biweekly cadences from spacecraft either in the lunar orbit or at the surface. A 0.2 m diameter solar telescope in orbit with white light and narrow-band visible filters would provide arcsecond spectroscopic imaging of the low-to-high corona (1–10 R☉) with an upper limit of 10–12 B☉ on the local scattered light background from lunar atmospheric dust, as compared to 10–9 B☉ for Earth ground-based solar eclipse observations looking up through the atmosphere at totality. For eclipse observations from and by the Moon, there would be no significant atmospheric disturbances that otherwise limit seeing to arcsec resolution from Earth’s surface. The present eccentric orbits of the ARTEMIS P1 and P2 spacecraft are used as models for a 1 × 10 Rm orbit of LunaSOX to compute the times of solar eclipse intervals, up to 2 hours in duration between the east and west solar hemispheres at a daily cadence for coronal observations at 1–16 R☉ when the orbital aposelene is in anti-sunward directions. In a low-altitude circular orbit and from the surface, the observational cadences would, respectively, be hourly and biweekly. LunaSOX satellites also carrying in situ space environment instruments could integrate into a network of orbital platforms for space weather monitoring and communications relay to far-side surface lander and permanent base sites, e.g., for low-frequency radio cosmology and detection of exoplanet magnetospheres.

Published
2023
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14. Long-term monitoring reveals topographical features and vegetation that explain winter habitat use of an Arctic rodent

Author

Xaver von Beckerath, Gita Benadi, Olivier Gilg, Benoît Sittler, Glenn Yannic, Alexandra-Maria Klein, and Bernhard Eitzinger

Subjects
Arctic tundra, climate change, Dicrostonyx groenlandicus, habitat use, population dynamics, toundra arctique, Environmental sciences, GE1-350, Environmental engineering, TA170-171
Abstract

The quality of wintering habitats, such as depth of snow cover, plays a key role in sustaining population dynamics of Arctic lemmings. However, few studies so far investigated habitat use during the Arctic winter. Here, we used a unique long-term time series to test whether lemmings are associated with topographical and vegetational habitat features for their wintering sites. We examined yearly numbers and distribution of 22 769 winter nests of the collared lemming Dicrostonyx groenlandicus (Traill, 1823) from an ongoing long-term research on Traill Island, Northeast Greenland, collected between 1989 and 2019, and correlated this information with data on dominant vegetation types, elevation, and slope. We found that the number of lemming nests was highest in areas with a high proportion of Dryas heath, but was also correlated with other vegetation types, suggesting some flexibility in resource use of wintering lemmings. Furthermore, lemmings showed a higher use for sloped terrain, probably as it enhances the formation of deep snow drifts, which increases the insulative characteristics of the snowpack and protection from predators. With global warming, prime lemming winter habitats may become scarce through alteration of snow physical properties, potentially resulting in negative consequence for the whole community of terrestrial vertebrates.

Published
2022
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15. Native knowledge of great lakes ecology: Climate changes to Odawa lands

Author

Richard W. Stoffle, Michael J. Evans, Christopher Sittler, Desmond L. Berry, and Kathleen A. Van Vlack

Subjects
traditional ecological knowledge, climate change, Odawa Indians, native Americans, National Parks, Michigan, Environmental sciences, GE1-350
Abstract

Climate change has been observed for hundreds of years by the plant specialists of three Odawa Tribes in the Upper Great Lakes along Lake Michigan. Sleeping Bear Dunes National Lakeshore (SLBE) is the focus of two National Park Service (NPS) studies of Odawa Traditional Ecological Knowledge (TEK) of plants, ecosystems, and climate change. Data collected during these studies contributed to developing Plant Gathering Agreements between tribes and parks. This analysis derived from 95 ethnographic interviews conducted by University of Arizona (UofA) anthropologists in partnership with expert elders appointed by tribes. Odawa elders recognized in the park 288 plants and five habitats of traditional and contemporary concern. Tribal elders explained that 115 of these traditional plants and all five habitats are known from multigenerational eyewitness accounts to have been impacted by climate change. The TEK study thus represents what Odawa people know about the traditional environment and thus provides a foundation for more complex government-to government relationships between Odawa tribes and the NPS. These research findings are neither intended to test Native TEK nor the climate findings of Western science. It should however be pointed out that both are in general agreement about what has happened due to climate change and thus there is now a TEK data base for co-stewardship.

Published
2023
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17. Carbon chain anions and the growth of complex organic molecules in Titan's ionosphere

Author

Desai, R. T., Coates, A. J., Wellbrock, A., Vuitton, V., Crary, F. J., González-Caniulef, D., Shebanits, O., Jones, G. H., Lewis, G. R., Waite, J. H., Taylor, S. A., Kataria, D. O., Wahlund, J. -E., Edberg, N. J. T., and Sittler, E. C.

Subjects
Astrophysics - Earth and Planetary Astrophysics
Abstract

Cassini discovered a plethora of neutral and ionised molecules in Titan's ionosphere including, surprisingly, anions and negatively charged molecules extending up to 13,800 u/q. In this letter we forward model the Cassini electron spectrometer response function to this unexpected ionospheric component to achieve an increased mass resolving capability for negatively charged species observed at Titan altitudes of 950-1300 km. We report on detections consistently centered between 25.8-26.0 u/q and between 49.0-50.1 u/q which are identified as belonging to the carbon chain anions, CN$^-$/C$_3$N$^-$ and/or C$_2$H$^-$/C$_4$H$^-$, in agreement with chemical model predictions. At higher ionospheric altitudes, detections at 73-74 u/q could be attributed to the further carbon chain anions C$_5$N$^-$/C$_6$H$^-$ but at lower altitudes and during further encounters, extend over a higher mass/charge range. This, as well as further intermediary anions detected at $>$100 u, provide the first evidence for efficient anion chemistry in space involving structures other than linear chains. Furthermore, at altitudes below $\sim$1100 km, the low mass anions ($<$150 u/q) were found to deplete at a rate proportional to the growth of the larger molecules, a correlation that indicates the anions are tightly coupled to the growth process. This study adds Titan to an increasing list of astrophysical environments where chain anions have been observed and shows that anion chemistry plays a role in the formation of complex organics within a planetary atmosphere as well as in the interstellar medium., Comment: 8 pages, 3 figures, 1 table, Astrophysical Journal Letter accepted June 01 2017

Published
2017
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19. Introduction

Author

Korn, Matthias, Reißmann, Wolfgang, Röhl, Tobias, Sittler, David, Schüttpelz, Erhard, Series Editor, Korn, Matthias, editor, Reißmann, Wolfgang, editor, Röhl, Tobias, editor, and Sittler, David, editor

Published
2019
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21. Taking the beat of the Arctic: are lemming population cycles changing due to winter climate?

Author

Gauthier, Gilles, primary, Ehrich, Dorothée, additional, Belke-Brea, Maria, additional, Domine, Florent, additional, Alisauskas, Ray, additional, Clark, Karin, additional, Ecke, Frauke, additional, Eide, Nina E., additional, Framstad, Erik, additional, Frandsen, Jay, additional, Gilg, Olivier, additional, Henttonen, Heikki, additional, Hörnfeldt, Birger, additional, Kataev, Gennadiy D., additional, Menyushina, Irina E., additional, Oksanen, Lauri, additional, Oksanen, Tarja, additional, Olofsson, Johan, additional, Samelius, Gustaf, additional, Sittler, Benoit, additional, Smith, Paul A., additional, Sokolov, Aleksandr A., additional, Sokolova, Natalia A., additional, and Schmidt, Niels M., additional

Published
2024
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23. Circumpolar status of Arctic ptarmigan : Population dynamics and trends

Author

Fuglei, Eva, Henden, John-André, Callahan, Chris T., Gilg, Olivier, Hansen, Jannik, Ims, Rolf A., Isaev, Arkady P., Lang, Johannes, McIntyre, Carol L., Merizon, Richard A., Mineev, Oleg Y., Mineev, Yuri N., Mossop, Dave, Nielsen, Olafur K., Nilsen, Erlend B., Pedersen, Åshild Ønvik, Schmidt, Niels Martin, Sittler, Benoît, Willebrand, Maria Hørnell, and Martin, Kathy

Published
2020

24. Documenting lemming population change in the Arctic : Can we detect trends?

Author

Ehrich, Dorothée, Schmidt, Niels M., Gauthier, Gilles, Alisauskas, Ray, Angerbjörn, Anders, Clark, Karin, Ecke, Frauke, Eide, Nina E., Framstad, Erik, Frandsen, Jay, Franke, Alastair, Gilg, Olivier, Giroux, Marie-Andrée, Henttonen, Heikki, Hörnfeldt, Birger, Ims, Rolf A., Kataev, Gennadiy D., Kharitonov, Sergey P., Killengreen, Siw T., Krebs, Charles J., Lanctot, Richard B., Lecomte, Nicolas, Menyushina, Irina E., Morris, Douglas W., Morrisson, Guy, Oksanen, Lauri, Oksanen, Tarja, Olofsson, Johan, Pokrovsky, Ivan G., Popov, Igor Yu., Reid, Donald, Roth, James D., Saalfeld, Sarah T., Samelius, Gustaf, Sittler, Benoit, Sleptsov, Sergey M., Smith, Paul A., Sokolov, Aleksandr A., Sokolova, Natalya A., Soloviev, Mikhail Y., and Solovyeva, Diana V.

Published
2020

26. Correction: Correction: A Novel Rhabdovirus Associated with Acute Hemorrhagic Fever in Central Africa.

Author

Grard, Gilda, Fair, Joseph N, Lee, Deanna, Slikas, Elizabeth, Steffen, Imke, Muyembe, Jean-Jacques, Sittler, Taylor, Veeraraghavan, Narayanan, Ruby, J Graham, Wang, Chunlin, Makuwa, Maria, Mulembakani, Prime, Tesh, Robert B, Mazet, Jonna, Rimoin, Anne W, Taylor, Travis, Schneider, Bradley S, Simmons, Graham, Delwart, Eric, Wolfe, Nathan D, Chiu, Charles Y, and Leroy, Eric M

Subjects
Virology, Microbiology, Immunology, Medical Microbiology
Abstract

[This corrects the article DOI: 10.1371/journal.ppat.1002924.].

Published
2017

27. Multi-gene panel testing for hereditary cancer predisposition in unsolved high-risk breast and ovarian cancer patients

Author

Crawford, Beth, Adams, Sophie B, Sittler, Taylor, van den Akker, Jeroen, Chan, Salina, Leitner, Ofri, Ryan, Lauren, Gil, Elad, and van ’t Veer, Laura

Subjects
Biomedical and Clinical Sciences, Oncology and Carcinogenesis, Rare Diseases, Clinical Research, Genetic Testing, Prevention, Ovarian Cancer, Cancer, Breast Cancer, Genetics, 2.1 Biological and endogenous factors, Aetiology, Adult, Aged, Aged, 80 and over, BRCA1 Protein, BRCA2 Protein, Breast Neoplasms, Checkpoint Kinase 2, DNA Mutational Analysis, Female, Genetic Predisposition to Disease, Humans, Middle Aged, Mutation, Missense, Ovarian Neoplasms, Risk Factors, Tumor Suppressor Proteins, Ubiquitin-Protein Ligases, Young Adult, Hereditary cancer, Panel testing, BRCA1, BRCA2, Breast cancer, Ovarian cancer, Clinical Sciences, Oncology & Carcinogenesis, Clinical sciences, Oncology and carcinogenesis
Abstract

PurposeMany women with an elevated risk of hereditary breast and ovarian cancer have previously tested negative for pathogenic mutations in BRCA1 and BRCA2. Among them, a subset has hereditary susceptibility to cancer and requires further testing. We sought to identify specific groups who remain at high risk and evaluate whether they should be offered multi-gene panel testing.MethodsWe tested 300 women on a multi-gene panel who were previously enrolled in a long-term study at UCSF. As part of their long-term care, all previously tested negative for mutations in BRCA1 and BRCA2 either by limited or comprehensive sequencing. Additionally, they met one of the following criteria: (i) personal history of bilateral breast cancer, (ii) personal history of breast cancer and a first or second degree relative with ovarian cancer, and (iii) personal history of ovarian, fallopian tube, or peritoneal carcinoma.ResultsAcross the three groups, 26 women (9%) had a total of 28 pathogenic mutations associated with hereditary cancer susceptibility, and 23 women (8%) had mutations in genes other than BRCA1 and BRCA2. Ashkenazi Jewish and Hispanic women had elevated pathogenic mutation rates. In addition, two women harbored pathogenic mutations in more than one hereditary predisposition gene.ConclusionsAmong women at high risk of breast and ovarian cancer who have previously tested negative for pathogenic BRCA1 and BRCA2 mutations, we identified three groups of women who should be considered for subsequent multi-gene panel testing. The identification of women with multiple pathogenic mutations has important implications for family testing.

Published
2017

29. Joint Europa Mission (JEM): a multi-scale study of Europa to characterize its habitability and search for extant life

Author

Blanc, Michel, Prieto-Ballesteros, Olga, André, Nicolas, Gomez-Elvira, Javier, Jones, Geraint, Sterken, Veerle, Desprats, William, Gurvits, Leonid I., Khurana, Krishan, Balmino, Georges, Blöcker, Aljona, Broquet, Renaud, Bunce, Emma, Cavel, Cyril, Choblet, Gaël, Colins, Geoffrey, Coradini, Marcello, Cooper, John, Dirkx, Dominic, Fontaine, Dominique, Garnier, Philippe, Gaudin, David, Hartogh, Paul, Hussmann, Hauke, Genova, Antonio, Iess, Luciano, Jäggi, Adrian, Kempf, Sascha, Krupp, Norbert, Lara, Luisa, Lasue, Jérémie, Lainey, Valéry, Leblanc, François, Lebreton, Jean-Pierre, Longobardo, Andrea, Lorenz, Ralph, Martins, Philippe, Martins, Zita, Marty, Jean-Charles, Masters, Adam, Mimoun, David, Palumba, Ernesto, Parro, Victor, Regnier, Pascal, Saur, Joachim, Schutte, Adriaan, Sittler, Edward C., Spohn, Tilman, Srama, Ralf, Stephan, Katrin, Szegő, Károly, Tosi, Federico, Vance, Steve, Wagner, Roland, Van Hoolst, Tim, Volwerk, Martin, Wahlund, Jan-Erik, Westall, Frances, and Wurz, Peter

Published
2020
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31. Potential Adoption and Benefits of Co-optimized Multimode Engines and Fuels for U.S. Light-duty Vehicles

Author

Hawkins, Troy, primary, Oke, Doris, additional, Sittler, Lauren, additional, Zaimes, George, additional, Cai, Hao, additional, Brooker, Aaron, additional, Longman, Doug, additional, Vijayagopal, Ram, additional, Gohlke, David, additional, Newes, Emily, additional, Singh, Avantika, additional, Dunn, Jennifer, additional, and Gaspar, Daniel, additional

Published
2023
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33. 1034. COVID-19 Bloodstream Infection Outcomes Stratified by Social Determination Index (SDI) in NYC Public Hospital System

Author

Yao Lim, Chee, primary, Johan, Kenneth, additional, Gutierrez, Jorge, additional, Romero Garcia, Alberto, additional, Afzal, Afsheen, additional, Al-Khateeb, Mohannad Al-Khateeb, additional, Yankulova, Boyana, additional, Yusuf, Mubarak, additional, De Castro, Yinelka Silverio, additional, Venugopal, Usha, additional, Feinstein, Addi, additional, La Fortune, Alexander, additional, Sittler, Daniel, additional, and Menon, Vidya, additional

Published
2023
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35. Are gastrointestinal parasites associated with the cyclic population dynamics of their arctic lemming hosts?

Author

Olivier Gilg, Loïc Bollache, Eve Afonso, Glenn Yannic, Niels Martin Schmidt, Lars Holst Hansen, Jannik Hansen, Benoît Sittler, Johannes Lang, Nicolas Meyer, Brigitte Sabard, Vladimir Gilg, Anita Lang, Mathilde Lebbar, Voitto Haukisalmi, Heikki Henttonen, and Jérôme Moreau

Subjects
Zoology, QL1-991
Abstract

Many rodents, including most populations of arctic lemmings (genus Dicrostonyx and Lemmus), have cyclic population dynamics. Among the numerous hypotheses which have been proposed and tested to explain this typical characteristic of some terrestrial vertebrate communities, trophic interactions have often been presented as the most likely drivers of these periodic fluctuations. The possible role of parasites has, however, only seldom been assessed. In this study, we genetically measured the prevalence of two endoparasite taxa, eimerians and cestodes, in 372 faecal samples from collared lemmings, over a five year period and across three distant sites in Northeast Greenland. Prevalence of cestodes was low (2.7% over all sites and years) and this taxon was only found at one site (although in 4 out of 5 years) in adult hosts. By contrast, we found high prevalence for eimerians (77.7% over all sites and years), which occurred at all sites, in every year, for both age classes (at the Hochstetter Forland site where both adult and juvenile faeces were collected) and regardless of reproductive and social status inferred from the characteristics of the lemming nests where the samples had been collected. Prevalence of eimerians significantly varied among years (not among sites) and was higher for juvenile than for adult lemmings at the Hochstetter Forland site. However, higher prevalence of eimerians (Pt) was only associated with lower lemming density (Nt) at one of the three sites and we found no delayed density dependence between Nt and Pt+1 to support the parasite hypothesis. Our results show that there is no clear relation between lemming density and eimerian faecal prevalence in Northeast Greenland and hence no evidence that eimerians could be driving the cyclic population dynamics of collared lemmings in this region. Keywords: Eimerians, Cestodes, Population dynamics, Faecal prevalence, Greenland, Rodent-parasites interactions

Published
2019
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38. Correction to: Documenting lemming population change in the Arctic: Can we detect trends?

Author

Ehrich, Dorothée, Schmidt, Niels M., Gauthier, Gilles, Alisauskas, Ray, Angerbjörn, Anders, Clark, Karin, Ecke, Frauke, Eide, Nina E., Framstad, Erik, Frandsen, Jay, Franke, Alastair, Gilg, Olivier, Giroux, Marie-Andrée, Henttonen, Heikki, Hörnfeldt, Birger, Ims, Rolf A., Kataev, Gennadiy D., Kharitonov, Sergey P., Killengreen, Siw T., Krebs, Charles J., Lanctot, Richard B., Lecomte, Nicolas, Menyushina, Irina E., Morris, Douglas W., Morrisson, Guy, Oksanen, Lauri, Oksanen, Tarja, Olofsson, Johan, Pokrovsky, Ivan G., Popov, Igor Yu., Reid, Donald, Roth, James D., Saalfeld, Sarah T., Samelius, Gustaf, Sittler, Benoit, Sleptsov, Sergey M., Smith, Paul A., Sokolov, Aleksandr A., Sokolova, Natalya A., Soloviev, Mikhail Y., and Solovyeva, Diana V.

Published
2020
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39. MOOSE USE OF THE MOUNT MCALLISTER BURN IN NORTH-CENTRAL BRITISH COLUMBIA: INFLUENCE OF BURN SEVERITY AND SOIL MOISTURE

Author

McNay, Kayla G., McNay, R. Scott, Sittler, Krista, and Rea, Roy V.

Subjects
Prescribed burning -- Usage, Fire investigation -- Usage, Soil moisture -- Usage, Moose -- Usage, Wildfires -- Usage, General interest, News, opinion and commentary
Abstract

The influence of recent wildfires in British Columbia (BC) on moose habitat and its use by moose are understudied, as are prescribed burning strategies that can be used to enhance moose habitat. Our objective was to investigate how 3 classes of fire severity (high, medium, low) interact with 3 soil moisture regimes (hydric, mesic, xeric) in determining how moose use post-fire habitat. In north-central BC, we studied moose use at 2 different spatial levels in the 5-year-old, 26,500 ha Mt. McAllister burn. At the site level, we estimated the density of fecal pellet groups and the percent of plants browsed by moose within plots of varying burn severity and soil moisture. At the landscape level, we investigated use from GPS locations of 7 radio-collared female moose at 3 orders of selection: we compared: 1) randomly distributed locations within the home range to randomly distributed locations throughout the entire burn (2 (nd) order of selection); 2) use locations to randomly distributed potential locations within the home range (3 (rd) order of selection); and daily use locations with potential movement locations (4 (,h) order of selection). At the site level, moose used areas of low/medium fire severity and hydric soil moisture. At the landscape level, moose preferred areas of medium fire severity at the daily order, and low/medium fire severity at both the home range and burn orders of selection. Our findings highlight that moose use of post-fire habitat varied by spatial scale and by order of selection and that researchers assessing use of burns by moose should consider multiple levels of investigation. Prescribed burning to enhance moose habitat should focus on low/medium fire severity at sites with mesic soil moisture. ALCES VOL. 57:1-22 (2021) Key words: Alces alces, burn, burn severity, forest fire, habitat, habitat management, moose, selection, soil moisture, Moose (Alces alces) are an important component of the predator-prey dynamic in northern British Columbia (BC) as they constitute a large portion of prey biomass, making them an important keystone [...]

Published
2021

40. Jovian plasma torus interaction with Europa. Plasma wake structure and effect of inductive magnetic field: 3D Hybrid kinetic simulation

Author

Lipatov, A. S., Cooper, J. F., Paterson, W. R., Sittler Jr., E. C., Hartle, R. E., and Simpson, D. G.

Subjects
Astrophysics - Earth and Planetary Astrophysics, Physics - Plasma Physics, Physics - Space Physics
Abstract

The hybrid kinetic model supports comprehensive simulation of the interaction between different spatial and energetic elements of the Europa moon-magnetosphere system with respect a to variable upstream magnetic field and flux or density distributions of plasma and energetic ions, electrons, and neutral atoms. This capability is critical for improving the interpretation of the existing Europa flyby measurements from the Galileo Orbiter mission, and for planning flyby and orbital measurements (including the surface and atmospheric compositions) for future missions. The simulations are based on recent models of the atmosphere of Europa (Cassidy et al., 2007; Shematovich et al., 2005). In contrast to previous approaches with MHD simulations, the hybrid model allows us to fully take into account the finite gyroradius effect and electron pressure, and to correctly estimate the ion velocity distribution and the fluxes along the magnetic field (assuming an initial Maxwellian velocity distribution for upstream background ions). In this paper we discuss two tasks: (1) the plasma wake structure dependence on the parameters of the upstream plasma and Europa's atmosphere (model I, cases (a) and (b) with a homogeneous Jovian magnetosphere field, an inductive magnetic dipole and high oceanic shell conductivity); and (2) estimation of the possible effect of an induced magnetic field arising from oceanic shell conductivity. This effect was estimated based on the difference between the observed and modeled magnetic fields (model II, case (c) with an inhomogeneous Jovian magnetosphere field, an inductive magnetic dipole and low oceanic shell conductivity)., Comment: 36 pages, 13 figures, paper was submitted to Planetary and Space Science in Nov. 2011, special volume "Outer Planets" but still under review

Published
2012
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43. Faster and More Accurate Sequence Alignment with SNAP

Author

Zaharia, Matei, Bolosky, William J., Curtis, Kristal, Fox, Armando, Patterson, David, Shenker, Scott, Stoica, Ion, Karp, Richard M., and Sittler, Taylor

Subjects
Computer Science - Data Structures and Algorithms, Quantitative Biology - Genomics
Abstract

We present the Scalable Nucleotide Alignment Program (SNAP), a new short and long read aligner that is both more accurate (i.e., aligns more reads with fewer errors) and 10-100x faster than state-of-the-art tools such as BWA. Unlike recent aligners based on the Burrows-Wheeler transform, SNAP uses a simple hash index of short seed sequences from the genome, similar to BLAST's. However, SNAP greatly reduces the number and cost of local alignment checks performed through several measures: it uses longer seeds to reduce the false positive locations considered, leverages larger memory capacities to speed index lookup, and excludes most candidate locations without fully computing their edit distance to the read. The result is an algorithm that scales well for reads from one hundred to thousands of bases long and provides a rich error model that can match classes of mutations (e.g., longer indels) that today's fast aligners ignore. We calculate that SNAP can align a dataset with 30x coverage of a human genome in less than an hour for a cost of $2 on Amazon EC2, with higher accuracy than BWA. Finally, we describe ongoing work to further improve SNAP.

Published
2011

44. Earth-Affecting Solar Causes Observatory (EASCO): A mission at the Sun-Earth L5

Author

Gopalswamy, Nat, Davila, Joseph M., Auchère, Frédéric, Schou, Jesper, Korendike, Clarence, Shih, Albert, Johnston, Janet C., MacDowall, Robert J., Maksimovic, Milan, Sittler, Edward, Szabo, Adam, Wesenberg, Richard, Vennerstrom, Suzanne, and Heber, Bernd

Subjects
Astrophysics - Solar and Stellar Astrophysics
Abstract

Coronal mass ejections (CMEs) and corotating interaction regions (CIRs) as well as their source regions are important because of their space weather consequences. The current understanding of CMEs primarily comes from the Solar and Heliospheric Observatory (SOHO) and the Solar Terrestrial Relations Observatory (STEREO) missions, but these missions lacked some key measurements: STEREO did not have a magnetograph; SOHO did not have in-situ magnetometer. SOHO and other imagers such as the Solar Mass Ejection Imager (SMEI) located on the Sun-Earth line are also not well-suited to measure Earth-directed CMEs. The Earth-Affecting Solar Causes Observatory (EASCO) is a proposed mission to be located at the Sun-Earth L5 that overcomes these deficiencies. The mission concept was recently studied at the Mission Design Laboratory (MDL), NASA Goddard Space Flight Center, to see how the mission can be implemented. The study found that the scientific payload (seven remote-sensing and three in-situ instruments) can be readily accommodated and can be launched using an intermediate size vehicle; a hybrid propulsion system consisting of a Xenon ion thruster and hydrazine has been found to be adequate to place the payload at L5. Following a 2-year transfer time, a 4-year operation is considered around the next solar maximum in 2025., Comment: 12 pages, 6 figures, 2 tables

Published
2011
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45. A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples

Author

Naccache, Samia N, Federman, Scot, Veeraraghavan, Narayanan, Zaharia, Matei, Lee, Deanna, Samayoa, Erik, Bouquet, Jerome, Greninger, Alexander L, Luk, Ka-Cheung, Enge, Barryett, Wadford, Debra A, Messenger, Sharon L, Genrich, Gillian L, Pellegrino, Kristen, Grard, Gilda, Leroy, Eric, Schneider, Bradley S, Fair, Joseph N, Martínez, Miguel A, Isa, Pavel, Crump, John A, DeRisi, Joseph L, Sittler, Taylor, Hackett, John, Miller, Steve, and Chiu, Charles Y

Subjects
Microbiology, Biological Sciences, Bioinformatics and Computational Biology, Bioengineering, Prevention, Vaccine Related, Human Genome, Biodefense, Infectious Diseases, Genetics, Detection, screening and diagnosis, 4.1 Discovery and preclinical testing of markers and technologies, Infection, Good Health and Well Being, Computational Biology, Databases, Nucleic Acid, High-Throughput Nucleotide Sequencing, Humans, Metagenomics, ROC Curve, Reproducibility of Results, Software, Medical and Health Sciences, Bioinformatics
Abstract

Unbiased next-generation sequencing (NGS) approaches enable comprehensive pathogen detection in the clinical microbiology laboratory and have numerous applications for public health surveillance, outbreak investigation, and the diagnosis of infectious diseases. However, practical deployment of the technology is hindered by the bioinformatics challenge of analyzing results accurately and in a clinically relevant timeframe. Here we describe SURPI ("sequence-based ultrarapid pathogen identification"), a computational pipeline for pathogen identification from complex metagenomic NGS data generated from clinical samples, and demonstrate use of the pipeline in the analysis of 237 clinical samples comprising more than 1.1 billion sequences. Deployable on both cloud-based and standalone servers, SURPI leverages two state-of-the-art aligners for accelerated analyses, SNAP and RAPSearch, which are as accurate as existing bioinformatics tools but orders of magnitude faster in performance. In fast mode, SURPI detects viruses and bacteria by scanning data sets of 7-500 million reads in 11 min to 5 h, while in comprehensive mode, all known microorganisms are identified, followed by de novo assembly and protein homology searches for divergent viruses in 50 min to 16 h. SURPI has also directly contributed to real-time microbial diagnosis in acutely ill patients, underscoring its potential key role in the development of unbiased NGS-based clinical assays in infectious diseases that demand rapid turnaround times.

Published
2014

46. Genome Size in the Arenaria ciliata Species Complex (Caryophyllaceae), with Special Focus on Northern Europe and the Arctic.

Author

Kozlowski, Gregor, Fragnière, Yann, Clément, Benoît, Gilg, Olivier, Sittler, Benoît, Lang, Johannes, Eidesen, Pernille Bronken, Lang, Simone I., Wasowicz, Pawel, and Meade, Conor

Subjects
GENOME size, CARYOPHYLLACEAE, CILIATA, FLOW cytometry, PLOIDY
Abstract

The main aim of the present study has been the completion of genome size data for the diverse arctic-alpine A. ciliata species complex, with special focus on the unexplored arctic taxon A. pseudofrigida, the north-European A. norvegica, and A. gothica from Gotland (Sweden). Altogether, 46 individuals of these three Nordic taxa have been sampled from seven different regions and their genome size estimated using flow cytometry. Three other alpine taxa in the A. ciliata complex (A. multicaulis, A. ciliata subsp. ciliata, and A. ciliata subsp. bernensis) were also collected and analyzed for standardization purposes, comprising 20 individuals from six regions. A mean 2c value of 1.65 pg of DNA was recorded for A. pseudofrigida, 2.80 pg for A. norvegica, and 4.14 pg for A. gothica, as against the reconfirmed 2c value of 1.63 pg DNA for the type taxon A. ciliata subsp. ciliata. Our results presenting the first estimations of genome sizes for the newly sampled taxa, corroborate ploidy levels described in the available literature, with A. pseudofrigida being tetraploid (2n = 4x = 40), A. norvegica possessing predominantly 2n = 8x = 80, and A. gothica with 2n = 10x = 100. The present study also reconfirms genome size and ploidy level estimations published previously for the alpine members of this species complex. Reflecting a likely complex recent biogeographic history, the A. ciliata species group comprises a polyploid arctic-alpine species complex characterized by reticulate evolution, polyploidizations and hybridizations, probably associated with rapid latitudinal and altitudinal migrations in the Pleistocene–Holocene period. [ABSTRACT FROM AUTHOR]

Published
2024
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48. Exact solution of a mean-field approach of an irreversible aggregation with a time dependent rate deposition

Author

Lionel, Sittler

Subjects
Condensed Matter - Statistical Mechanics
Abstract

In this paper we propose a solution for the time evolution of the island density with irreversible aggregation and a time dependent input of particle in the space dimensions $d=1,2$. For this purpose we use the rate equation resulting from a generalized mean field approach. A well-known technique for growing surfaces at the atomic scale is molecular beam epitaxy (MBE). Another approach is the pulsed laser deposition method (PLD). The main difference between MBE and PLD is that in the case of MBE we have a continuous rate of deposition $F$ of adatoms on the surface whereas in the case of PLD the adatoms are deposited during a pulse of a laser which is very short in comparison to the time span $T$ between the pulses. The generalized mean field theory is a useful model for both MBE and PLD with the most simple approximation, point-like island. We show that the parameter $T$ distinguishes the MBE regime from the PLD regime. We solve the rate equation for the PLD regime. We consider the time evolution of the density of immobile islands. For large time $t\gg T$, the PLD regime dominates the MBE regime and we find that the density of immobile islands grows as $t^{1/2}$ whereas for MBE we find the known behavior of the density, $t^{1/3}$ for $d=2$ and $t^{1/4}$ for $d=1$. We illustrate this result with Monte-Carlo simulations for $d=1,2$., Comment: to be publish in journal to Thin Solid Films

Published
2008

49. Generalized Smoluchowski equation with correlation between clusters

Author

Sittler, Lionel

Subjects
Condensed Matter - Statistical Mechanics
Abstract

In this paper we compute new reaction rates of the Smoluchowski equation which takes into account correlations. The new rate K = KMF + KC is the sum of two terms. The first term is the known Smoluchowski rate with the mean-field approximation. The second takes into account a correlation between clusters. For this purpose we introduce the average path of a cluster. We relate the length of this path to the reaction rate of the Smoluchowski equation. We solve the implicit dependence between the average path and the density of clusters. We show that this correlation length is the same for all clusters. Our result depends strongly on the spatial dimension d. The mean-field term KMFi,j = (Di + Dj)(rj + ri)d-2, which vanishes for d = 1 and is valid up to logarithmic correction for d = 2, is the usual rate found with the Smoluchowski model without correlation (where ri is the radius and Di is the diffusion constant of the cluster). We compute a new rate: the correlation rate K_{i,j}^{C} (D_i+D_j)(r_j+r_i)^{d-1}M{\big(\frac{d-1}{d_f}}\big) is valid for d \leq 1(where M(\alpha) = \sum+\infty i=1i\alphaNi is the moment of the density of clusters and df is the fractal dimension of the cluster). The result is valid for a large class of diffusion processes and mass radius relations. This approach confirms some analytical solutions in d 1 found with other methods. We also show Monte Carlo simulations which illustrate some exact new solvable models.

Published
2008
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50. Multicritical behavior of the diluted contact process

Author

Dahmen, Silvio R., Sittler, L., and Hinrichsen, H.

Subjects
Condensed Matter - Statistical Mechanics
Abstract

We study a contact process on a two-dimensional square lattice which is diluted by randomly removing bonds with probability p. For p<1/2 and varying birth rate $\lambda$ the model was shown to exhibit a continuous phase transition which belongs to the universality class of strongly disordered directed percolation. The phase transition line terminates in a multicritical point at p=1/2 and $\lambda=\lambda*=3.55(1)$, where the model can be interpreted as a critical directed percolation process running on a critical isotropic percolation cluster. In the present work we study the multicritical point and its neighboorhood by numerical simulations, discussing possible scaling forms which could describe the critical behavior at the transition., Comment: 18 pages, 11 figures, submitted to Journal of Statistical Mechanics: Theor. Exp

Published
2006
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