Now showing items 21-40 of 61

    • A genetic basis of variation in eccrine sweat gland and hair follicle density 

      Kamberov, Yana George; Karlsson, Elinor; Kamberova, Gerda L.; Lieberman, Daniel E.; Sabeti, Pardis Christine; Morgan, Bruce Allan; Tabin, Clifford James (Proceedings of the National Academy of Sciences, 2015)
      Among the unique features of humans, one of the most salient is the ability to effectively cool the body during extreme prolonged activity through the evapotranspiration of water on the skin's surface. The evolution of ...
    • Genetic Surveillance Detects Both Clonal and Epidemic Transmission of Malaria following Enhanced Intervention in Senegal 

      Daniels, Rachel Fath; Chang, Hsiao-Han; Séne, Papa Diogoye; Park, Danny C.; Neafsey, Daniel Edward; Schaffner, Stephen; Hamilton, Elizabeth Julia; Lukens, Amanda Kathleen; Van Tyne, Daria Natalie; Mboup, Souleymane; Sabeti, Pardis Christine; Ndiaye, Daouda; Wirth, Dyann Fergus; Hartl, Daniel L.; Cooke, Sarah Volkman (Public Library of Science, 2013)
      Using parasite genotyping tools, we screened patients with mild uncomplicated malaria seeking treatment at a clinic in Thiès, Senegal, from 2006 to 2011. We identified a growing frequency of infections caused by genetically ...
    • Genome-wide identification of microRNAs regulating cholesterol and triglyceride homeostasis 

      Wagschal, Alexandre; Najafi-Shoushtari, S Hani; Wang, Lifeng; Goedeke, Leigh; Sinha, Sumita; deLemos, Andrew S; Black, Josh C; Ramírez, Cristina M; Li, Yingxia; Tewhey, Ryan; Hatoum, Ida; Shah, Naisha; Lu, Yong; Kristo, Fjoralba; Psychogios, Nikolaos; Vrbanac, Vladimir; Lu, Yi-Chien; Hla, Timothy T; de Cabo, Rafael; Tsang, John S; Schadt, Eric; Sabeti, Pardis Christine; Kathiresan, Sekar; Cohen, David E; Whetstine, Johnathan; Chung, Raymond Taeyong; Fernández-Hernando, Carlos; Kaplan, Lee Michael; Bernards, Andre; Gerszten, Robert Edgardo; Naar, Anders Michael (Springer Nature, 2015)
      Genome-wide association studies (GWASs) have linked genes to various pathological traits. However, the potential contribution of regulatory noncoding RNAs, such as microRNAs (miRNAs), to a genetic predisposition to ...
    • Genome-Wide Scans Provide Evidence for Positive Selection of Genes Implicated in Lassa Fever 

      Andersen, Kristian G; Shylakhter, Ilya; Tabrizi, Shervin; Grossman, Sharon Rachel; Happi, Christian Tientcha; Sabeti, Pardis Christine (The Royal Society, 2012)
      Rapidly evolving viruses and other pathogens can have an immense impact on human evolution as natural selection acts to increase the prevalence of genetic variants providing resistance to disease. With the emergence of ...
    • Genome-Wide SNP Genotyping Highlights the Role of Natural Selection in Plasmodium Falciparum Population Divergence 

      Wirth, Dyann F.; Sabeti, Pardis C.; Lander, Eric S.; Birren, Bruce W.; Hartl, Daniel; Wiegand, Roger; Chitnis, Chetan E.; Dash, Aditya P.; do Lago Moraes, Sandra; Ferreira, Marcelo U.; Mboup, Soulyemane; Ndir, Omar; Ndiaye, Daouda; Ousmane, Sarr; Stange-Thomann, Nicole; Gates, Casey; Tyndall, Erin; Cortese, Joseph F.; Houde, Nathan; Daniels, Rachel; Rosen, David; Lukens, Amanda; Milner, Danny; Montgomery, Philip; Park, Daniel; Volkman, Sarah K.; Schaffner, Stephen F.; Neafsey, Daniel (BioMed Central, 2008)
      Background: The malaria parasite Plasmodium falciparum exhibits abundant genetic diversity, and this diversity is key to its success as a pathogen. Previous efforts to study genetic diversity in P. falciparum have begun ...
    • Genomic Analysis Identifies Targets of Convergent Positive Selection in Drug Resistant Mycobacterium tuberculosis 

      Farhat, Maha R; Shapiro, B Jesse; Kieser, Karen J; Sultana, Razvan; Jacobson, Karen R; Victor, Thomas C; Warren, Robin M; Streicher, Elizabeth M; Calver, Alistair; Sloutsky, Alex; Kaur, Devinder; Posey, Jamie E; Plikaytis, Bonnie; Oggioni, Marco R; Gardy, Jennifer L; Johnston, James C; Rodrigues, Mabel; Tang, Patrick K C; Kato-Maeda, Midori; Borowsky, Mark L; Muddukrishna, Bhavana; Kreiswirth, Barry N; Kurepina, Natalia; Galagan, James; Gagneux, Sebastien; Birren, Bruce; Rubin, Eric J; Lander, Eric S; Sabeti, Pardis C; Murray, Megan (2013)
      Mycobacterium tuberculosis is successfully evolving antibiotic resistance, threatening attempts at tuberculosis epidemic control. Mechanisms of resistance, including the genetic changes favored by selection in resistant ...
    • Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak 

      Gire, Stephen; Goba, A.; Andersen, Kristian G; Sealfon, R. S. G.; Park, D. J.; Kanneh, L.; Jalloh, S.; Momoh, M.; Fullah, M.; Dudas, G.; Wohl, Shirlee; Moses, L. M.; Yozwiak, Nathan; Winnicki, Sarah M.; Matranga, C. B.; Malboeuf, C. M.; Qu, J.; Gladden, Adrianne Deanna; Schaffner, Stephen; Yang, X.; Jiang, P.-P.; Nekoui, M.; Colubri, Andres; Coomber, M. R.; Fonnie, M.; Moigboi, A.; Gbakie, M.; Kamara, F. K.; Tucker, V.; Konuwa, E.; Saffa, S.; Sellu, J.; Jalloh, A. A.; Kovoma, A.; Koninga, J.; Mustapha, I.; Kargbo, K.; Foday, M.; Yillah, M.; Kanneh, F.; Robert, W.; Massally, J. L. B.; Chapman, S. B.; Bochicchio, J.; Murphy, C.; Nusbaum, C.; Young, S.; Birren, B. W.; Grant, D. S.; Scheiffelin, J. S.; Lander, Eric Steven; Happi, Christian Tientcha; Gevao, S. M.; Gnirke, A.; Rambaut, A.; Garry, R. F.; Khan, S. H.; Sabeti, Pardis Christine (American Association for the Advancement of Science (AAAS), 2014)
      In its largest outbreak, Ebola virus disease is spreading through Guinea, Liberia, Sierra Leone, and Nigeria. We sequenced 99 Ebola virus genomes from 78 patients in Sierra Leone to ~2000× coverage. We observed a rapid ...
    • A global reference for human genetic variation 

      Sabeti, Pardis Christine (Springer Nature, 2015)
      The 1000 Genomes Project set out to provide a comprehensive description of common human genetic variation by applying whole-genome sequencing to a diverse set of individuals from multiple populations. Here we report ...
    • A Global Transcriptional Analysis of Plasmodium Falciparum Malaria Reveals A Novel Family of Telomere-Associated lncRNAs 

      Broadbent, Kate Mariel; Park, Daniel John; Wolf, Ashley Robin; Van Tyne, Daria Natalie; Sims, Jennifer Sung; Ribacke, Ulf Erik; Cooke, Sarah Volkman; Duraisingh, Manoj T.; Wirth, Dyann Fergus; Sabeti, Pardis Christine; Rinn, John L (BioMed Central, 2011)
      Background: Mounting evidence suggests a major role for epigenetic feedback in Plasmodium falciparum transcriptional regulation. Long non-coding RNAs (lncRNAs) have recently emerged as a new paradigm in epigenetic ...
    • High Depth, Whole-Genome Sequencing of Cholera Isolates from Haiti and the Dominican Republic 

      Sealfon, Rachel; Gire, Stephen; Ellis, Crystal Nicole; Calderwood, Stephen Beaven; Qadri, Firdausi; Hensley, Lisa; Kellis, Manolis; Ryan, Edward Thomas; Larocque, Regina Celes; Harris, Jason B.; Sabeti, Pardis Christine (BioMed Central, 2012)
      Background: Whole-genome sequencing is an important tool for understanding microbial evolution and identifying the emergence of functionally important variants over the course of epidemics. In October 2010, a severe cholera ...
    • Human Cerebral Malaria and Plasmodium falciparum Genotypes in Malawi 

      Milner, Danny Arnold; Vareta, Jimmy; Valim, Clarissa; Montgomery, Jacqui; Daniels, Rachel Fath; Cooke, Sarah Volkman; Neafsey, Daniel Edward; Park, Daniel John; Schaffner, Stephen; Mahesh, Nira C; Barnes, Kayla G; Rosen, David M; Lukens, Amanda Kathleen; Van-Tyne, Daria; Wiegand, Roger C.; Sabeti, Pardis Christine; Seydel, Karl B; Glover, Simon J; Kamiza, Steve; Molyneux, Malcolm E; Taylor, Terrie E; Wirth, Dyann Fergus (BioMed Central, 2012)
      Background: Cerebral malaria, a severe form of Plasmodium falciparum infection, is an important cause of mortality in sub-Saharan African children. A Taqman 24 Single Nucleotide Polymorphisms (SNP) molecular barcode assay ...
    • Identification and Functional Validation of the Novel Antimalarial Resistance Locus PF10_0355 in Plasmodium falciparum 

      Van Tyne, Daria Natalie; Park, Daniel John; Schaffner, Stephen; Neafsey, Daniel Edward; Angelino, Elaine Lee; Cortese, Joseph F.; Barnes, Kayla G.; Rosen, David M.; Lukens, Amanda Kathleen; Daniels, Rachel Fath; Milner, Danny Arnold; Johnson, Charles A.; Shlyakhter, Ilya; Grossman, Sharon Rachel; Becker, Justin S.; Yamins, Daniel Louis Kanef; Karlsson, Elinor Kathryn; Ndiaye, Daouda; Sarr, Ousmane; Mboup, Souleymane; Happi, Christian Tientcha; Furlotte, Nicholas A.; Eskin, Eleazar; Kang, Hyun Min; Hartl, Daniel L.; Birren, Bruce W.; Wiegand, Roger C.; Lander, Eric Steven; Wirth, Dyann Fergus; Cooke, Sarah Volkman; Sabeti, Pardis Christine (Public Library of Science, 2011)
      The Plasmodium falciparum parasite's ability to adapt to environmental pressures, such as the human immune system and antimalarial drugs, makes malaria an enduring burden to public health. Understanding the genetic basis ...
    • Identification of Two Independent Risk Factors for Lupus within the MHC in United Kingdom Families 

      Fernando, Michelle M. A; Stevens, Christine R.; Sabeti, Pardis Christine; Walsh, Emily C; McWhinnie, Alasdair J. M; Shah, Anila; Green, Todd; Rioux, John D; Vyse, Timothy J; Gibson, Greg (Public Library of Science, 2007)
      The association of the major histocompatibility complex (MHC) with SLE is well established yet the causal variants arising from this region remain to be identified, largely due to inadequate study design and the strong ...
    • Identifying Recent Adaptations in Large-Scale Genomic Data 

      Grossman, Shamai Aaron; Andersen, Kristian G; Shlyakhter, Ilya; Tabrizi, Shervin; Winnicki, Sarah M.; Yen, Angela; Park, Daniel J.; Griesemer, Dustin Shahab; Karlsson, Elinor Kathryn; Wong, Sunny H.; Cabili, Moran; Adegbola, Richard A.; Bamezai, Rameshwar N.K.; Hill, Adrian V.S.; Vannberg, Fredrik O.; Rinn, John L; Lander, Eric Steven; Schaffner, Stephen; Sabeti, Pardis Christine (Elsevier BV, 2013)
      Summary: Although several hundred regions of the human genome harbor signals of positive natural selection, few of the relevant adaptive traits and variants have been elucidated. Using full-genome sequence variation from ...
    • In vivo Ebola virus infection leads to a strong innate response in circulating immune cells 

      Caballero, Ignacio S.; Honko, Anna N.; Gire, Stephen K.; Winnicki, Sarah M.; Melé, Marta; Gerhardinger, Chiara; Lin, Aaron E.; Rinn, John L.; Sabeti, Pardis C.; Hensley, Lisa E.; Connor, John H. (BioMed Central, 2016)
      Background: Ebola virus is the causative agent of a severe syndrome in humans with a fatality rate that can approach 90 %. During infection, the host immune response is thought to become dysregulated, but the mechanisms ...
    • ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus 

      Karp, Peter D.; Berger, Bonnie; Kovats, Diane; Lengauer, Thomas; Linial, Michal; Sabeti, Pardis; Hide, Winston; Rost, Burkhard (Public Library of Science, 2015)
      Speed is of the essence in combating Ebola; thus, computational approaches should form a significant component of Ebola research. As for the development of any modern drug, computational biology is uniquely positioned to ...
    • The Landscape of Human Evolution 

      Sabeti, Pardis Christine (American Association for the Advancement of Science, 2011)
    • Lassa Fever in Post-Conflict Sierra Leone 

      Shaffer, Jeffrey G.; Grant, Donald S.; Schieffelin, John S.; Boisen, Matt L.; Goba, Augustine; Hartnett, Jessica N.; Levy, Danielle C.; Yenni, Rachael E.; Moses, Lina M.; Fullah, Mohammed; Momoh, Mambo; Fonnie, Mbalu; Fonnie, Richard; Kanneh, Lansana; Koroma, Veronica J.; Kargbo, Kandeh; Ottomassathien, Darin; Muncy, Ivana J.; Jones, Abigail B.; Illick, Megan M.; Kulakosky, Peter C.; Haislip, Allyson M.; Bishop, Christopher M.; Elliot, Deborah H.; Brown, Bethany L.; Zhu, Hu; Hastie, Kathryn M.; Andersen, Kristian G.; Gire, Stephen K.; Tabrizi, Shervin; Tariyal, Ridhi; Stremlau, Mathew; Matschiner, Alex; Sampey, Darryl B.; Spence, Jennifer S.; Cross, Robert W.; Geisbert, Joan B.; Folarin, Onikepe A.; Happi, Christian T.; Pitts, Kelly R.; Geske, F. Jon; Geisbert, Thomas W.; Saphire, Erica Ollmann; Robinson, James E.; Wilson, Russell B.; Sabeti, Pardis C.; Henderson, Lee A.; Khan, S. Humarr; Bausch, Daniel G.; Branco, Luis M.; Garry, Robert F. (Public Library of Science, 2014)
      Background: Lassa fever (LF), an often-fatal hemorrhagic disease caused by Lassa virus (LASV), is a major public health threat in West Africa. When the violent civil conflict in Sierra Leone (1991 to 2002) ended, an ...
    • Lassa Hemorrhagic Fever in a Late Term Pregnancy from Northern Sierra Leone with a Positive Maternal Outcome: Case Report 

      Branco, Luis M.; Boisen, Matt L.; Andersen, Kristian G; Grove, Jessica N.; Moses, Lina M.; Muncy, Ivana J.; Henderson, Lee A.; Schieffellin, John S.; Robinson, James E.; Bangura, James J.; Grant, Donald S.; Raabe, Vanessa N.; Fonnie, Mbalu; Sabeti, Pardis Christine; Garry, Robert F. (BioMed Central, 2011)
      Lassa fever (LF) is a devastating viral disease prevalent in West Africa. Efforts to take on this public health crisis have been hindered by lack of infrastructure and rapid field deployable diagnosis in areas where the ...
    • A Malaria Fingerprint in the Human Genome? 

      Daily, Johanna P.; Sabeti, Pardis Christine (Massachusetts Medical Society, 2008)