Browsing Harvard Medical School by Title

Now showing items 7106-7125 of 18428

    • Genome engineering in Saccharomyces cerevisiae using CRISPR-Cas systems 

      DiCarlo, James; Norville, Julie; Mali, Prashant; Rios Villanueva, Xavier; Aach, John Dennis; Church, George McDonald (Oxford University Press, 2013)
      Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) and CRISPR-associated (Cas) systems in bacteria and archaea use RNA-guided nuclease activity to provide adaptive immunity against invading foreign nucleic ...

    • The Genome of the Chicken DT40 Bursal Lymphoma Cell Line 

      Molnár, János; Póti, Ádám; Pipek, Orsolya; Krzystanek, Marcin; Kanu, Nnennaya; Swanton, Charles; Tusnády, Gábor E.; Szallasi, Zoltan; Csabai, István; Szüts, Dávid (Genetics Society of America, 2014)
      The chicken DT40 cell line is a widely used model system in the study of multiple cellular processes due to the efficiency of homologous gene targeting. The cell line was derived from a bursal lymphoma induced by avian ...

    • Genome of the Netherlands population-specific imputations identify an ABCA6 variant associated with cholesterol levels 

      van Leeuwen, Elisabeth M.; Karssen, Lennart C.; Deelen, Joris; Isaacs, Aaron; Medina-Gomez, Carolina; Mbarek, Hamdi; Kanterakis, Alexandros; Trompet, Stella; Postmus, Iris; Verweij, Niek; van Enckevort, David J.; Huffman, Jennifer E.; White, Charles C.; Feitosa, Mary F.; Bartz, Traci M.; Manichaikul, Ani; Joshi, Peter K.; Peloso, Gina M.; Deelen, Patrick; van Dijk, Freerk; Willemsen, Gonneke; de Geus, Eco J.; Milaneschi, Yuri; Penninx, Brenda W.J.H.; Francioli, Laurent C.; Menelaou, Androniki; Pulit, Sara L.; Rivadeneira, Fernando; Hofman, Albert; Oostra, Ben A.; Franco, Oscar H.; Leach, Irene Mateo; Beekman, Marian; de Craen, Anton J.M.; Uh, Hae-Won; Trochet, Holly; Hocking, Lynne J.; Porteous, David J.; Sattar, Naveed; Packard, Chris J.; Buckley, Brendan M.; Brody, Jennifer A.; Bis, Joshua C.; Rotter, Jerome I.; Mychaleckyj, Josyf C.; Campbell, Harry; Duan, Qing; Lange, Leslie A.; Wilson, James F.; Hayward, Caroline; Polasek, Ozren; Vitart, Veronique; Rudan, Igor; Wright, Alan F.; Rich, Stephen S.; Psaty, Bruce M.; Borecki, Ingrid B.; Kearney, Patricia M.; Stott, David J.; Adrienne Cupples, L.; Neerincx, Pieter B.T.; Elbers, Clara C.; Francesco Palamara, Pier; Pe'er, Itsik; Abdellaoui, Abdel; Kloosterman, Wigard P.; van Oven, Mannis; Vermaat, Martijn; Li, Mingkun; Laros, Jeroen F.J.; Stoneking, Mark; de Knijff, Peter; Kayser, Manfred; Veldink, Jan H.; van den Berg, Leonard H.; Byelas, Heorhiy; den Dunnen, Johan T.; Dijkstra, Martijn; Amin, Najaf; Joeri van der Velde, K.; van Setten, Jessica; Kattenberg, Mathijs; van Schaik, Barbera D.C.; Bot, Jan; Nijman, Isaäc J.; Mei, Hailiang; Koval, Vyacheslav; Ye, Kai; Lameijer, Eric-Wubbo; Moed, Matthijs H.; Hehir-Kwa, Jayne Y.; Handsaker, Robert E.; Sunyaev, Shamil R.; Sohail, Mashaal; Hormozdiari, Fereydoun; Marschall, Tobias; Schönhuth, Alexander; Guryev, Victor; Suchiman, H. Eka D.; Wolffenbuttel, Bruce H.; Platteel, Mathieu; Pitts, Steven J.; Potluri, Shobha; Cox, David R.; Li, Qibin; Li, Yingrui; Du, Yuanping; Chen, Ruoyan; Cao, Hongzhi; Li, Ning; Cao, Sujie; Wang, Jun; Bovenberg, Jasper A.; Jukema, J. Wouter; van der Harst, Pim; Sijbrands, Eric J.; Hottenga, Jouke-Jan; Uitterlinden, Andre G.; Swertz, Morris A.; van Ommen, Gert-Jan B.; de Bakker, Paul I.W.; Eline Slagboom, P.; Boomsma, Dorret I.; Wijmenga, Cisca; van Duijn, Cornelia M. (Nature Pub. Group, 2015)
      Variants associated with blood lipid levels may be population-specific. To identify low-frequency variants associated with this phenotype, population-specific reference panels may be used. Here we impute nine large Dutch ...

    • Genome Sequence of a Cynomolgus Macaque Adenovirus (CynAdV-1) Isolate from a Primate Colony in the United Kingdom 

      Zeng, Zhiwei; Zhang, Jing; Jing, Shuping; Cheng, Zetao; Bofill-Mas, Silvia; Maluquer de Motes, Carlos; Hundesa, Ayalkibet; Girones, Rosina; Seto, Donald; Zhang, Qiwei (American Society for Microbiology, 2016)
      The genome sequence of a simian adenovirus from a cynomolgus macaque, denoted CynAdV-1, is presented here. Phylogenetic analysis supports CynAdV-1 in an independent clade, comprising a new simian adenovirus (SAdV) species. ...

    • Genome Sequence of Streptomyces sp. Strain RTd22, an Endophyte of the Mexican Sunflower 

      Chagas, Fernanda O.; Ruzzini, Antonio C.; Bacha, Larissa V.; Samborskyy, Markyian; Conti, Raphael; Pessotti, Rita C.; de Oliveira, Luciana G.; Clardy, Jon; Pupo, Monica T. (American Society for Microbiology, 2016)
      We report here the complete genome sequence of Streptomyces sp. strain RTd22, an endophytic actinobacterium that was isolated from the roots of the Mexican sunflower Tithonia diversifolia. The bacterium’s 11.1-Mb linear ...

    • Genome Sequences of Three Pseudoalteromonas Strains (P1-8, P1-11, and P1-30), Isolated from the Marine Hydroid Hydractinia echinata 

      Klassen, Jonathan L.; Rischer, Maja; Wolf, Thomas; Guo, Huijuan; Shelest, Ekaterina; Clardy, Jon; Beemelmanns, Christine (American Society for Microbiology, 2015)
      The genomes of three Pseudoalteromonas strains (P1-8, P1-11, and P1-30) were sequenced and assembled. These genomes will inform future study of the genes responsible for the production of biologically active compounds ...

    • Genome Wide Association Identifies PPFIA1 as a Candidate Gene for Acute Lung Injury Risk Following Major Trauma 

      Christie, Jason D.; Wurfel, Mark M.; Feng, Rui; O'Keefe, Grant E.; Bradfield, Jonathan; Ware, Lorraine B.; Calfee, Carolyn S.; Matthay, Michael; Meyer, Nuala J.; Kim, Cecilia; Li, Mingyao; Akey, Joshua; Barnes, Kathleen C.; Sevransky, Jonathan; Lanken, Paul N.; May, Addison K.; Aplenc, Richard; Maloney, James P.; Hakonarson, Hakon; Christiani, David C.; Cohen, Mitchell J. (Public Library of Science, 2012)
      Acute Lung Injury (ALI) is a syndrome with high associated mortality characterized by severe hypoxemia and pulmonary infiltrates in patients with critical illness. We conducted the first investigation to use the genome ...

    • A Genome Wide Association Study Identifies Common Variants Associated with Lipid Levels in the Chinese Population 

      Zhou, Li; He, Meian; Mo, Zengnan; Wu, Chen; Yang, Handong; Yu, Dianke; Yang, Xiaobo; Zhang, Xiaomin; Wang, Yiqin; Sun, Jielin; Gao, Yong; Tan, Aihua; He, Yunfeng; Zhang, Haiying; Qin, Xue; Zhu, Jingwen; Li, Huaixing; Lin, Xu; Zhu, Jiang; Min, Xinwen; Lang, Mingjian; Li, Dongfeng; Zhai, Kan; Chang, Jiang; Tan, Wen; Yuan, Jing; Chen, Weihong; Wang, Youjie; Wei, Sheng; Miao, Xiaoping; Wang, Feng; Fang, Weimin; Liang, Yuan; Deng, Qifei; Dai, Xiayun; Lin, Dafeng; Huang, Suli; Guo, Huan; Lilly Zheng, S.; Xu, Jianfeng; Lin, Dongxin; Hu, Frank B.; Wu, Tangchun (Public Library of Science, 2013)
      Plasma lipid levels are important risk factors for cardiovascular disease and are influenced by genetic and environmental factors. Recent genome wide association studies (GWAS) have identified several lipid-associated loci, ...

    • Genome Wide Association Study of Age at Menarche in the Japanese Population 

      Tanikawa, Chizu; Okada, Yukinori; Takahashi, Atsushi; Oda, Katsutoshi; Kamatani, Naoyuki; Kubo, Michiaki; Nakamura, Yusuke; Matsuda, Koichi (Public Library of Science, 2013)
      Age at menarche (AAM) is a complex trait involving both genetic and environmental factors. To identify the genetic factors associated with AAM, we conducted a large-scale meta-analysis of genome-wide association studies ...

    • Genome-Encoded Cytoplasmic Double-Stranded RNAs, Found in C9ORF72 ALS-FTD Brain, Propagate Neuronal Loss 

      Rodriguez, Steve; Sahin, Asli; Schrank, Benjamin R.; Al Lawati, Hawra; Costantino, Isabel; Benz, Eric; Fard, Darian; Albers, Alefiya; Cao, Luxiang; Gomez, Alexis; Evans, Kyle; Ratti, Elena; Cudkowicz, Merit; Frosch, Matthew; Talkowski, Michael; Sorger, Peter; Hyman, Bradley; Albers, Mark (Science Press / AAAS, 2021-07-07)
      Triggers of innate immune signaling in the CNS of amyotrophic lateral sclerosis and frontotemporal degeneration (ALS/FTD) patients remain elusive. We report the presence of cytoplasmic double-stranded RNA (cdsRNA), an ...

    • Genome-scale engineering for systems and synthetic biology 

      Esvelt, Kevin Michael; Wang, Harris H (Nature Publishing Group, 2013)
      Genome-modification technologies enable the rational engineering and perturbation of biological systems. Historically, these methods have been limited to gene insertions or mutations at random or at a few pre-defined ...

    • Genome-Scale in Vivo CRISPR Screen Identifies RNLS as a Target for Beta Cell Protection in Type 1 Diabetes 

      Cai, Erica P.; Ishikawa, Yuki; Zhang, Wei; de Carvalho Leite, Nayara; Li, Jian; Hou, Shurong; Kiaf, Badr; Hollister-Lock, Jennifer; Yilmaz, Nese Kurt; Schiffer, Celia A.; Melton, Douglas; Kissler, Stephan; Yi, Peng (Springer Science and Business Media LLC, 2020-07-27)
      Type 1 diabetes (T1D) is caused by the autoimmune destruction of pancreatic beta cells. Pluripotent stem cells can now be differentiated into beta cells, raising the prospect of a cell replacement therapy for T1D. However, ...

    • Genome-Scale Promoter Engineering by Coselection MAGE 

      Wang, Harris He; Kim, Hwangbeom; Cong, Le; Jeong, Jaehwan; Bang, Duhee; Church, George McDonald (Nature Publishing Group, 2012)
      Multiplex Automated Genome Engineering (MAGE) employs short oligonucleotides to scarlessly modify genomes. However, insertions of >10 bases are still inefficient, but can be improved substantially by selection of highly ...

    • Genome-scale Proteome Quantification by DEEP SEQ Mass Spectrometry 

      Zhou, Feng; Lu, Yu; Ficarro, Scott B.; Adelmant, Guillaume; Jiang, Wenyu; Luckey, C. John; Marto, Jarrod A. (2013)
      Advances in chemistry and massively parallel detection underlie DNA sequencing platforms that are poised for application in personalized medicine. In stark contrast, systematic generation of protein-level data lags well-behind ...

    • A Genome-Scale shRNA Resource for Transgenic RNAi in Drosophila 

      Ni, Jian-Quan; Zhou, Rui; Czech, Benjamin; Liu, Lu-Ping; Holderbaum, Laura; Yang-Zhou, Donghui; Shim, Hye-Seok; Tao, Rong; Handler, Dominik; Karpowicz, Phillip; Binari, Richard; Booker, Matthew; Brennecke, Julius; Perkins, Lizabeth A.; Hannon, Gregory J.; Perrimon, Norbert (Springer Science and Business Media LLC, 2011-05)
      Existing transgenic RNAi resources in Drosophila melanogaster based on long double-stranded hairpin RNAs are powerful tools for functional studies, but they are ineffective in gene knockdown during oogenesis, an important ...

    • A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control 

      Bartha, István; Carlson, Jonathan M; Brumme, Chanson J; McLaren, Paul J; Brumme, Zabrina L; John, Mina; Haas, David W; Martinez-Picado, Javier; Dalmau, Judith; López-Galíndez, Cecilio; Casado, Concepción; Rauch, Andri; Günthard, Huldrych F; Bernasconi, Enos; Vernazza, Pietro; Klimkait, Thomas; Yerly, Sabine; O’Brien, Stephen J; Listgarten, Jennifer; Pfeifer, Nico; Lippert, Christoph; Fusi, Nicolo; Kutalik, Zoltán; Allen, Todd M; Müller, Viktor; Harrigan, P Richard; Heckerman, David; Telenti, Amalio; Fellay, Jacques (eLife Sciences Publications, Ltd, 2013)
      HIV-1 sequence diversity is affected by selection pressures arising from host genomic factors. Using paired human and viral data from 1071 individuals, we ran >3000 genome-wide scans, testing for associations between host ...

    • Genome-wide 5-hydroxymethylcytosine modification pattern is a novel epigenetic feature of globozoospermia 

      Wang, Xiu-Xia; Sun, Bao-Fa; Jiao, Jiao; Chong, Ze-Chen; Chen, Yu-Shen; Wang, Xiao-Li; Zhao, Yue; Zhou, Yi-Ming; Li, Da (Impact Journals LLC, 2015)
      Discovery of 5-hydroxymethylcytosine (5hmC) in mammalian genomes has excited the field of epigenetics, but information on the genome-wide distribution of 5hmC is limited. Globozoospermia is a rare but severe cause of male ...

    • Genome-wide analyses implicate 33 loci in heritable dog osteosarcoma, including regulatory variants near CDKN2A/B 

      Karlsson, Elinor K; Sigurdsson, Snaevar; Ivansson, Emma; Thomas, Rachael; Elvers, Ingegerd; Wright, Jason; Howald, Cedric; Tonomura, Noriko; Perloski, Michele; Swofford, Ross; Biagi, Tara; Fryc, Sarah; Anderson, Nathan; Courtay-Cahen, Celine; Youell, Lisa; Ricketts, Sally L; Mandlebaum, Sarah; Rivera, Patricio; von Euler, Henrik; Kisseberth, William C; London, Cheryl A; Lander, Eric S; Couto, Guillermo; Comstock, Kenine; Starkey, Mike P; Modiano, Jaime F; Breen, Matthew; Lindblad-Toh, Kerstin (BioMed Central, 2013)
      Background: Canine osteosarcoma is clinically nearly identical to the human disease, but is common and highly heritable, making genetic dissection feasible. Results: Through genome-wide association analyses in three breeds ...

    • Genome-wide Analysis Identifies Novel Loci Associated with Ovarian Cancer Outcomes: Findings from the Ovarian Cancer Association Consortium 

      Johnatty, S. E.; Tyrer, J. P.; Kar, S.; Beesley, J.; Lu, Y.; Gao, B.; Fasching, P. A.; Hein, A.; Ekici, A. B.; Beckmann, M. W.; Lambrechts, D.; Van Nieuwenhuysen, E.; Vergote, I.; Lambrechts, S.; Rossing, M. A.; Doherty, J. A.; Chang-Claude, J.; Modugno, F.; Ness, R. B.; Moysich, K. B.; Levine, D. A.; Kiemeney, L. A.; Massuger, L. F. A. G.; Gronwald, J.; Lubinski, J.; Jakubowska, A.; Cybulski, C.; Brinton, L.; Lissowska, J.; Wentzensen, N.; Song, H.; Rhenius, V.; Campbell, I.; Eccles, D.; Sieh, W.; Whittemore, A. S.; McGuire, V.; Rothstein, J. H.; Sutphen, R.; Anton-Culver, H.; Ziogas, A.; Gayther, S. A.; Gentry-Maharaj, A.; Menon, U.; Ramus, S. J.; Pearce, C. L.; Pike, M. C.; Stram, D. O.; Wu, A. H.; Kupryjanczyk, J.; Dansonka-Mieszkowska, A.; Rzepecka, I. K.; Spiewankiewicz, B.; Goodman, M. T.; Wilkens, L. R.; Carney, M. E.; Thompson, P. J.; Heitz, F.; du Bois, A.; Schwaab, I.; Harter, P.; Pisterer, J.; Hillemanns, P.; Karlan, B. Y.; Walsh, C.; Lester, J.; Orsulic, S.; Winham, S. J.; Earp, M.; Larson, M. C.; Fogarty, Z. C.; Hogdall, E.; Jensen, A.; Kjaer, S. K.; Fridley, B. L.; Cunningham, J. M.; Vierkant, R. A.; Schildkraut, J. M.; Iversen, E. S.; Terry, Kathryn Lynne; Cramer, Daniel William; Bandera, E. V.; Orlow, I.; Pejovic, T.; Bean, Y.; Hogdall, C.; Lundvall, L.; McNeish, I.; Paul, J.; Carty, K.; Siddiqui, N.; Glasspool, R.; Sellers, T.; Kennedy, C.; Chiew, Y.-E.; Berchuck, A.; MacGregor, S.; Pharoah, P. D. P.; Goode, E. L.; deFazio, A.; Webb, P. M.; Chenevix-Trench, G. (American Association for Cancer Research (AACR), 2015)
      PURPOSE: Chemotherapy resistance remains a major challenge in the treatment of ovarian cancer. We hypothesize that germline polymorphisms might be associated with clinical outcome. EXPERIMENTAL DESIGN: We analyzed ...

    • Genome-Wide Analysis of Copy Number Variants in Attention Deficit Hyperactivity Disorder: The Role of Rare Variants and Duplications at 15q13.3 

      Williams, Nigel M.; Franke, Barbara; Mick, Eric; Anney, Richard J.L.; Freitag, Christine M.; Gill, Michael; Thapar, Anita; O'Donovan, Michael C.; Owen, Michael J.; Holmans, Peter; Kent, Lindsey; Middleton, Frank; Zhang-James, Yanli; Liu, Lu; Meyer, Jobst; Nguyen, Thuy Trang; Romanos, Jasmin; Romanos, Marcel; Seitz, Christiane; Renner, Tobias J.; Walitza, Susanne; Warnke, Andreas; Palmason, Haukur; Buitelaar, Jan; Rommelse, Nanda; Vasquez, Alejandro Arias; Hawi, Ziarih; Langley, Kate; Sergeant, Joseph; Steinhausen, Hans-Christoph; Roeyers, Herbert; Biederman, Joseph; Zaharieva, Irina; Hakonarson, Hakon; Elia, Josephine; Lionel, Anath C.; Crosbie, Jennifer; Marshall, Christian R.; Schachar, Russell; Scherer, Stephen W.; Todorov, Alexandre; Smalley, Susan L.; Loo, Sandra; Nelson, Stanley; Shtir, Corina; Asherson, Philip; Reif, Andreas; Lesch, Klaus-Peter; Faraone, Stephen V. (American Psychiatric Publishing, 2013)
      Objective: Attention deficit hyperactivity disorder (ADHD) is a common, highly heritable psychiatric disorder. Because of its multifactorial etiology, however, identifying the genes involved has been difficult. The authors ...