-
1
-
-
84855219212
-
Optimizing Illumina next-generation sequencing library preparation for extremely AT-biased genomes
-
Oyola SO, Otto TD, Gu Y, Maslen G, Manske M, Campino S, Turner DJ, Macinnis B, Kwiatkowski DP, Swerdlow HP, Quail MA. 2012. Optimizing Illumina next-generation sequencing library preparation for extremely AT-biased genomes. BMC Genomics 13:1. http://dx.doi.org /10.1186/1471-2164-13-1.
-
(2012)
BMC Genomics
, vol.13
, pp. 1
-
-
Oyola, S.O.1
Otto, T.D.2
Gu, Y.3
Maslen, G.4
Manske, M.5
Campino, S.6
Turner, D.J.7
McInnis, B.8
Kwiatkowski, D.P.9
Swerdlow, H.P.10
Quail, M.A.11
-
2
-
-
63949083912
-
Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes
-
Kozarewa I, Ning Z, Quail MA, Sanders MJ, Berriman M, Turner DJ. 2009. Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes. Nat Methods 6:291-295. http://dx.doi.org/10.1038/nmeth.1311.
-
(2009)
Nat Methods
, vol.6
, pp. 291-295
-
-
Kozarewa, I.1
Ning, Z.2
Quail, M.A.3
Sanders, M.J.4
Berriman, M.5
Turner, D.J.6
-
3
-
-
84865591846
-
A tale of three next generation sequencing platforms: Comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers
-
Quail MA, Smith M, Coupland P, Otto TD, Harris SR, Connor TR, Bertoni A, Swerdlow HP, Gu Y. 2012. A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers. BMC Genomics 13:341. http://dx.doi .org/10.1186/1471-2164-13-341.
-
(2012)
BMC Genomics
, vol.13
, pp. 341
-
-
Quail, M.A.1
Smith, M.2
Coupland, P.3
Otto, T.D.4
Harris, S.R.5
Connor, T.R.6
Bertoni, A.7
Swerdlow, H.P.8
Gu, Y.9
-
4
-
-
78649773164
-
Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition
-
Adey A, Morrison HG, Asan, Xun X, Kitzman JO, Turner EH, Stackhouse B, MacKenzie AP, Caruccio NC, Zhang X, Shendure J. 2010. Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition. Genome Biol 11:R119. http://dx.doi .org/10.1186/gb-2010-11-12-r119.
-
(2010)
Genome Biol
, vol.11
-
-
Adey, A.1
Morrison, H.G.2
Asan3
Xun, X.4
Kitzman, J.O.5
Turner, E.H.6
Stackhouse, B.7
McKenzie, A.P.8
Caruccio, N.C.9
Zhang, X.10
Shendure, J.11
-
5
-
-
82355193803
-
Systematic comparison of three methods for fragmentation of longrange PCR products for next generation sequencing
-
Knierim E, Lucke B, Schwarz JM, Schuelke M, Seelow D. 2011. Systematic comparison of three methods for fragmentation of longrange PCR products for next generation sequencing. PLoS One 6:e28240. http://dx.doi.org/10.1371/journal.pone.0028240.
-
(2011)
PLoS One
, vol.6
-
-
Knierim, E.1
Lucke, B.2
Schwarz, J.M.3
Schuelke, M.4
Seelow, D.5
-
6
-
-
79952432498
-
Identification of a salmonellosis outbreak by means of molecular sequencing
-
Lienau EK, Strain E, Wang C, Zheng J, Ottesen AR, Keys CE, Hammack TS, Musser SM, Brown EW, Allard MW, Cao G, Meng J, Stones R. 2011. Identification of a salmonellosis outbreak by means of molecular sequencing. N Engl J Med 364:981-982. http://dx.doi.org/10.1056 /NEJMc1100443.
-
(2011)
N Engl J Med
, vol.364
, pp. 981-982
-
-
Lienau, E.K.1
Strain, E.2
Wang, C.3
Zheng, J.4
Ottesen, A.R.5
Keys, C.E.6
Hammack, T.S.7
Musser, S.M.8
Brown, E.W.9
Allard, M.W.10
Cao, G.11
Meng, J.12
Stones, R.13
-
7
-
-
84875870499
-
A genomic day in the life of a clinical microbiology laboratory
-
Long SW, Williams D, Valson C, Cantu CC, Cernoch P, Musser JM, Olsen RJ. 2013. A genomic day in the life of a clinical microbiology laboratory. J Clin Microbiol 51:1272-1277. http://dx.doi.org/10.1128 /JCM.03237-12.
-
(2013)
J Clin Microbiol
, vol.51
, pp. 1272-1277
-
-
Long, S.W.1
Williams, D.2
Valson, C.3
Cantu, C.C.4
Cernoch, P.5
Musser, J.M.6
Olsen, R.J.7
-
8
-
-
84930257767
-
-
5 June. U.S. Department of Defense, Washington, DC
-
Pellerin C. 5 June 2013. Global force's needs shapeDODbiosurveillance. U.S. Department of Defense, Washington, DC. http://www.defense.gov /news/newsarticle.aspx?id 120224.
-
(2013)
Global force's needs shapeDODbiosurveillance.
-
-
Pellerin, C.1
-
9
-
-
84877936514
-
-
31 July
-
Obama B. 31 July 2012. National strategy for biosurveillance. https: //www.whitehouse.gov/sites/default/files/National_Strategy_for _Biosurveillance_July_2012.pdf.
-
(2012)
National strategy for biosurveillance.
-
-
Obama, B.1
-
10
-
-
79953172949
-
Bacillus anthracis comparative genome analysis in support of the Amerithrax investigation
-
Rasko DA, Worsham PL, Abshire TG, Stanley ST, Bannan JD, Wilson MR, Langham RJ, Decker RS, Jiang L, Read TD, Phillippy AM, Salzberg SL, Pop M, Van Ert MN, Kenefic LJ, Keim PS, Fraser-Liggett CM, Ravel J. 2011. Bacillus anthracis comparative genome analysis in support of the Amerithrax investigation. Proc Natl Acad Sci U S A 108: 5027-5032. http://dx.doi.org/10.1073/pnas.1016657108.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 5027-5032
-
-
Rasko, D.A.1
Worsham, P.L.2
Abshire, T.G.3
Stanley, S.T.4
Bannan, J.D.5
Wilson, M.R.6
Langham, R.J.7
Decker, R.S.8
Jiang, L.9
Read, T.D.10
Phillippy, A.M.11
Salzberg, S.L.12
Pop, M.13
Van Ert, M.N.14
Kenefic, L.J.15
Keim, P.S.16
Fraser-Liggett, C.M.17
Ravel, J.18
-
11
-
-
84930248534
-
-
Code of Federal Regulations. Title 42. Public health. Chapter I. Public Health Service, Department of Health and Human Services. Subchapter F. Subpart F. Importations. §71.54. Import regulations for infectious biological agents, infectious substances, and vectors
-
Code of Federal Regulations. 2013. Title 42. Public health. Chapter I. Public Health Service, Department of Health and Human Services. Subchapter F. Quarantine, inspection, licensing. Part 71. Foreign quarantine. Subpart F. Importations. §71.54. Import regulations for infectious biological agents, infectious substances, and vectors.
-
(2013)
Quarantine, inspection, licensing. Part 71. Foreign quarantine.
-
-
-
12
-
-
84860756398
-
Performance comparison of benchtop highthroughput sequencing platforms
-
Loman NJ, Misra RV, Dallman TJ, Constantinidou C, Gharbia SE, Wain J, Pallen MJ. 2012. Performance comparison of benchtop highthroughput sequencing platforms. Nat Biotechnol 30:434-439. http: //dx.doi.org/10.1038/nbt.2198.
-
(2012)
Nat Biotechnol
, vol.30
, pp. 434-439
-
-
Loman, N.J.1
Misra, R.V.2
Dallman, T.J.3
Constantinidou, C.4
Gharbia, S.E.5
Wain, J.6
Pallen, M.J.7
-
13
-
-
72849144434
-
Sequencing technologies-the next generation
-
Metzker ML. 2010. Sequencing technologies-the next generation. Nat Rev Genet 11:31-46. http://dx.doi.org/10.1038/nrg2626.
-
(2010)
Nat Rev Genet
, vol.11
, pp. 31-46
-
-
Metzker, M.L.1
-
14
-
-
84877266636
-
Updating benchtop sequencing performance comparison
-
Jünemann S, Sedlazeck FJ, Prior K, Albersmeier A, John U, Kalinowski J, Mellmann A, Goesmann A, von Haeseler A, Stoye J, Harmsen D. 2013. Updating benchtop sequencing performance comparison. Nat Biotechnol 31:294-296. http://dx.doi.org/10.1038/nbt.2522.
-
(2013)
Nat Biotechnol
, vol.31
, pp. 294-296
-
-
Jünemann, S.1
Sedlazeck, F.J.2
Prior, K.3
Albersmeier, A.4
John, U.5
Kalinowski, J.6
Mellmann, A.7
Goesmann, A.8
von Haeseler, A.9
Stoye, J.10
Harmsen, D.11
-
15
-
-
84869020066
-
Generation of artificial FASTQ files to evaluate the performance of next-generation sequencing pipelines
-
Frampton M, Houlston R. 2012. Generation of artificial FASTQ files to evaluate the performance of next-generation sequencing pipelines. PLoS One 7:e49110. http://dx.doi.org/10.1371/journal.pone.0049110.
-
(2012)
PLoS One
, vol.7
-
-
Frampton, M.1
Houlston, R.2
-
16
-
-
84875647144
-
QC-Chain: Fast and holistic quality control method for next-generation sequencing data
-
Zhou Q, Su X, Wang A, Xu J, Ning K. 2013. QC-Chain: fast and holistic quality control method for next-generation sequencing data. PLoS One 8:e60234. http://dx.doi.org/10.1371/journal.pone.0060234.
-
(2013)
PLoS One
, vol.8
-
-
Zhou, Q.1
Su, X.2
Wang, A.3
Xu, J.4
Ning, K.5
-
17
-
-
84883745092
-
The advantages of SMRT sequencing
-
Roberts RJ, Carneiro MO, Schatz MC. 2013. The advantages of SMRT sequencing. Genome Biol 14:405. http://dx.doi.org/10.1186/gb-2013-14 -6-405.
-
(2013)
Genome Biol
, vol.14
, pp. 405
-
-
Roberts, R.J.1
Carneiro, M.O.2
Schatz, M.C.3
-
18
-
-
84880798154
-
Nonhybrid, finished microbial genome assemblies from longread SMRT sequencing data
-
Chin C-S, Alexander DH, Marks P, Klammer AA, Drake J, Heiner C, Clum A, Copeland A, Huddleston J, Eichler EE, Turner SW, Korlach J. 2013. Nonhybrid, finished microbial genome assemblies from longread SMRT sequencing data. Nat Methods 10:563-569. http://dx.doi.org /10.1038/nmeth.2474.
-
(2013)
Nat Methods
, vol.10
, pp. 563-569
-
-
Chin, C.-S.1
Alexander, D.H.2
Marks, P.3
Klammer, A.A.4
Drake, J.5
Heiner, C.6
Clum, A.7
Copeland, A.8
Huddleston, J.9
Eichler, E.E.10
Turner, S.W.11
Korlach, J.12
-
19
-
-
84889659729
-
High-throughput DNA sequencing errors are reduced by orders of magnitude using circle sequencing
-
Lou DI, Hussmann JA, McBee RM, Acevedo A, Andino R, Press WH, Sawyer SL. 2013. High-throughput DNA sequencing errors are reduced by orders of magnitude using circle sequencing. Proc Natl Acad SciUSA 110:19872-19877. http://dx.doi.org/10.1073/pnas.1319590110.
-
(2013)
Proc Natl Acad SciUSA
, vol.110
, pp. 19872-19877
-
-
Lou, D.I.1
Hussmann, J.A.2
McBee, R.M.3
Acevedo, A.4
Andino, R.5
Press, W.H.6
Sawyer, S.L.7
-
20
-
-
84894247591
-
Genomics DNA sequencers still waiting for the nanopore revolution
-
Pennisi E. 2014. Genomics DNA sequencers still waiting for the nanopore revolution. Science 343:829 - 830. http://dx.doi.org/10 .1126/science.343.6173.829.
-
(2014)
Science
, vol.343
, pp. 829-830
-
-
Pennisi, E.1
-
21
-
-
84913554630
-
One chromosome, one contig: Complete microbial genomes from long-read sequencing and assembly
-
Koren S, Phillippy AM. 2015. One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly. Curr Opin Microbiol 23C:110-120. http://dx.doi.org/10.1016/j.mib.2014.11.014.
-
(2015)
Curr Opin Microbiol
, vol.23 C
, pp. 110-120
-
-
Koren, S.1
Phillippy, A.M.2
-
22
-
-
79955724657
-
Comparing de novo genome assembly: The long and short of it
-
Narzisi G, Mishra B. 2011. Comparing de novo genome assembly: the long and short of it. PLoS One 6:e19175. http://dx.doi.org/10.1371 /journal.pone.0019175.
-
(2011)
PLoS One
, vol.6
-
-
Narzisi, G.1
Mishra, B.2
-
23
-
-
79952655567
-
A practical comparison of de novo genome assembly software tools for nextgeneration sequencing technologies
-
Zhang W, Chen J, Yang Y, Tang Y, Shang J, Shen B. 2011. A practical comparison of de novo genome assembly software tools for nextgeneration sequencing technologies. PLoS One 6:e17915. http://dx.doi .org/10.1371/journal.pone.0017915.
-
(2011)
PLoS One
, vol.6
-
-
Zhang, W.1
Chen, J.2
Yang, Y.3
Tang, Y.4
Shang, J.5
Shen, B.6
-
24
-
-
83055181941
-
Assemblathon 1: A competitive assessment of de novo short read assembly methods
-
Earl D, Bradnam K, St John J, Darling A, Lin D, Fass J, Yu HOK, Buffalo V, Zerbino DR, Diekhans M, Nguyen N, Ariyaratne PN, Sung W-K, Ning Z, Haimel M, Simpson JT, Fonseca NA, Birol İ, Docking TR, Ho IY, Rokhsar DS, Chikhi R, Lavenier D, Chapuis G, Naquin D, Maillet N, Schatz MC, Kelley DR, Phillippy AM, Koren S, Yang S-P, Wu W, Chou W-C, Srivastava A, Shaw TI, Ruby JG, Skewes-Cox P, Betegon M, Dimon MT, Solovyev V, Seledtsov I, Kosarev P, Vorobyev D, Ramirez-Gonzalez R, Leggett R, MacLean D, Xia F, Luo R, Li Z, Xie Y, et al. 2011. Assemblathon 1: a competitive assessment of de novo short read assembly methods. Genome Res 21:2224-2241. http://dx.doi.org /10.1101/gr.126599.111.
-
(2011)
Genome Res
, vol.21
, pp. 2224-2241
-
-
Earl, D.1
Bradnam, K.2
St John, J.3
Darling, A.4
Lin, D.5
Fass, J.6
Yu, H.O.K.7
Buffalo, V.8
Zerbino, D.R.9
Diekhans, M.10
Nguyen, N.11
Ariyaratne, P.N.12
Sung, W.-K.13
Ning, Z.14
Haimel, M.15
Simpson, J.T.16
Fonseca, N.A.17
Birol, İ.18
Docking, T.R.19
Ho, I.Y.20
Rokhsar, D.S.21
Chikhi, R.22
Lavenier, D.23
Chapuis, G.24
Naquin, D.25
Maillet, N.26
Schatz, M.C.27
Kelley, D.R.28
Phillippy, A.M.29
Koren, S.30
Yang, S.-P.31
Wu, W.32
Chou, W.-C.33
Srivastava, A.34
Shaw, T.I.35
Ruby, J.G.36
Skewes-Cox, P.37
Betegon, M.38
Dimon, M.T.39
Solovyev, V.40
Seledtsov, I.41
Kosarev, P.42
Vorobyev, D.43
Ramirez-Gonzalez, R.44
Leggett, R.45
McLean, D.46
Xia, F.47
Luo, R.48
Li, Z.49
Xie, Y.50
more..
-
25
-
-
43149115851
-
Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
-
Zerbino DR, Birney E. 2008. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18:821-829. http://dx.doi .org/10.1101/gr.074492.107.
-
(2008)
Genome Res
, vol.18
, pp. 821-829
-
-
Zerbino, D.R.1
Birney, E.2
-
26
-
-
75649124547
-
De novo assembly of human genomes with massively parallel short read sequencing
-
Li R, Zhu H, Ruan J, Qian W, Fang X, Shi Z, Li Y, Li S, Shan G, Kristiansen K, Li S, Yang H, Wang J, Wang J. 2010. De novo assembly of human genomes with massively parallel short read sequencing. Genome Res 20:265-272. http://dx.doi.org/10.1101/gr.097261.109.
-
(2010)
Genome Res
, vol.20
, pp. 265-272
-
-
Li, R.1
Zhu, H.2
Ruan, J.3
Qian, W.4
Fang, X.5
Shi, Z.6
Li, Y.7
Li, S.8
Shan, G.9
Kristiansen, K.10
Li, S.11
Yang, H.12
Wang, J.13
Wang, J.14
-
27
-
-
66449136667
-
ABySS: A parallel assembler for short read sequence data
-
Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJM, Birol I. 2009. ABySS: a parallel assembler for short read sequence data. Genome Res 19:1117-1123. http://dx.doi.org/10.1101/gr.089532.108.
-
(2009)
Genome Res
, vol.19
, pp. 1117-1123
-
-
Simpson, J.T.1
Wong, K.2
Jackman, S.D.3
Schein, J.E.4
Jones, S.J.M.5
Birol, I.6
-
28
-
-
79952178131
-
High-quality draft assemblies of mammalian genomes from massively parallel sequence data
-
Gnerre S, Maccallum I, Przybylski D, Ribeiro FJ, Burton JN, Walker BJ, Sharpe T, Hall G, Shea TP, Sykes S, Berlin AM, Aird D, Costello M, Daza R, Williams L, Nicol R, Gnirke A, Nusbaum C, Lander ES, Jaffe DB. 2011. High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci U S A 108: 1513-1518. http://dx.doi.org/10.1073/pnas.1017351108.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 1513-1518
-
-
Gnerre, S.1
McCallum, I.2
Przybylski, D.3
Ribeiro, F.J.4
Burton, J.N.5
Walker, B.J.6
Sharpe, T.7
Hall, G.8
Shea, T.P.9
Sykes, S.10
Berlin, A.M.11
Aird, D.12
Costello, M.13
Daza, R.14
Williams, L.15
Nicol, R.16
Gnirke, A.17
Nusbaum, C.18
Lander, E.S.19
Jaffe, D.B.20
more..
-
29
-
-
84880196418
-
GAGE-B: An evaluation of genome assemblers for bacterial organisms
-
Magoc T, Pabinger S, Canzar S, Liu X, Su Q, Puiu D, Tallon LJ, Salzberg SL. 2013. GAGE-B: an evaluation of genome assemblers for bacterial organisms. Bioinformatics 29:1718-1725. http://dx.doi.org/10 .1093/bioinformatics/btt273.
-
(2013)
Bioinformatics
, vol.29
, pp. 1718-1725
-
-
Magoc, T.1
Pabinger, S.2
Canzar, S.3
Liu, X.4
Su, Q.5
Puiu, D.6
Tallon, L.J.7
Salzberg, S.L.8
-
30
-
-
84991528460
-
Assemblathon 2: Evaluating de novo methods of genome assembly in three vertebrate species
-
Bradnam KR, Fass JN, Alexandrov A, Baranay P, Bechner M, Birol I, Boisvert S, Chapman JA, Chapuis G, Chikhi R, Chitsaz H, Chou W-C, Corbeil J, Del Fabbro C, Docking TR, Durbin R, Earl D, Emrich S, Fedotov P, Fonseca NA, Ganapathy G, Gibbs RA, Gnerre S, Godzaridis E, Goldstein S, Haimel M, Hall G, Haussler D, Hiatt JB, Ho IY, Howard J, Hunt M, Jackman SD, Jaffe DB, Jarvis ED, Jiang H, Kazakov S, Kersey PJ, Kitzman JO, Knight JR, Koren S, Lam T-W, Lavenier D, Laviolette F, Li Y, Li Z, Liu B, Liu Y, Luo R, Maccallum I, et al. 2013. Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. Gigascience 2:10. http://dx.doi.org /10.1186/2047-217X-2-10.
-
(2013)
Gigascience
, vol.2
, pp. 10
-
-
Bradnam, K.R.1
Fass, J.N.2
Alexandrov, A.3
Baranay, P.4
Bechner, M.5
Birol, I.6
Boisvert, S.7
Chapman, J.A.8
Chapuis, G.9
Chikhi, R.10
Chitsaz, H.11
Chou, W.-C.12
Corbeil, J.13
Del Fabbro, C.14
Docking, T.R.15
Durbin, R.16
Earl, D.17
Emrich, S.18
Fedotov, P.19
Fonseca, N.A.20
Ganapathy, G.21
Gibbs, R.A.22
Gnerre, S.23
Godzaridis, E.24
Goldstein, S.25
Haimel, M.26
Hall, G.27
Haussler, D.28
Hiatt, J.B.29
Ho, I.Y.30
Howard, J.31
Hunt, M.32
Jackman, S.D.33
Jaffe, D.B.34
Jarvis, E.D.35
Jiang, H.36
Kazakov, S.37
Kersey, P.J.38
Kitzman, J.O.39
Knight, J.R.40
Koren, S.41
Lam, T.-W.42
Lavenier, D.43
Laviolette, F.44
Li, Y.45
Li, Z.46
Liu, B.47
Liu, Y.48
Luo, R.49
McCallum, I.50
more..
-
31
-
-
84869417234
-
Genome interpretation and assembly- recent progress and next steps
-
Baker S, Joecker A, Church G, Snyder M, West J, Salzberg S, Worthey E, Smith T, Wang J, Reid JG. 2012. Genome interpretation and assembly- recent progress and next steps. Nat Biotechnol 30:1081-1083. http: //dx.doi.org/10.1038/nbt.2425.
-
(2012)
Nat Biotechnol
, vol.30
, pp. 1081-1083
-
-
Baker, S.1
Joecker, A.2
Church, G.3
Snyder, M.4
West, J.5
Salzberg, S.6
Worthey, E.7
Smith, T.8
Wang, J.9
Reid, J.G.10
-
32
-
-
43349091544
-
Using MUMmer to identify similar regions in large sequence sets
-
Chapter 10: Unit 10.3
-
Delcher AL, Salzberg SL, Phillippy AM. 2003. Using MUMmer to identify similar regions in large sequence sets. Curr Protoc Bioinformatics Chapter 10:Unit 10.3. http://dx.doi.org/10.1002/0471250953.bi1003s00.
-
(2003)
Curr Protoc Bioinformatics
-
-
Delcher, A.L.1
Salzberg, S.L.2
Phillippy, A.M.3
-
33
-
-
84861898310
-
IMG: The Integrated Microbial Genomes database and comparative analysis system
-
Markowitz VM, Chen I-MA, Palaniappan K, Chu K, Szeto E, Grechkin Y, Ratner A, Jacob B, Huang J, Williams P, Huntemann M, Anderson I, Mavromatis K, Ivanova NN, Kyrpides NC. 2012. IMG: the Integrated Microbial Genomes database and comparative analysis system. Nucleic Acids Res 40:D115-D122. http://dx.doi.org/10.1093/nar/gkr1044.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D115-D122
-
-
Markowitz, V.M.1
Chen, I.-M.A.2
Palaniappan, K.3
Chu, K.4
Szeto, E.5
Grechkin, Y.6
Ratner, A.7
Jacob, B.8
Huang, J.9
Williams, P.10
Huntemann, M.11
Anderson, I.12
Mavromatis, K.13
Ivanova, N.N.14
Kyrpides, N.C.15
-
34
-
-
17744394753
-
Phylogenomics and the reconstruction of the tree of life
-
Delsuc F, Brinkmann H, Philippe H. 2005. Phylogenomics and the reconstruction of the tree of life. Nat Rev Genet 6:361-375. http://dx.doi .org/10.1038/nrg1603.
-
(2005)
Nat Rev Genet
, vol.6
, pp. 361-375
-
-
Delsuc, F.1
Brinkmann, H.2
Philippe, H.3
-
35
-
-
84872457224
-
Next-generation phylogenomics
-
Chan CX, Ragan MA. 2013. Next-generation phylogenomics. Biol Direct 8:3. http://dx.doi.org/10.1186/1745-6150-8-3.
-
(2013)
Biol Direct
, vol.8
, pp. 3
-
-
Chan, C.X.1
Ragan, M.A.2
-
36
-
-
0036324293
-
Phylogenetic approaches for describing and comparing the diversity of microbial communities
-
Martin AP. 2002. Phylogenetic approaches for describing and comparing the diversity of microbial communities. Appl Environ Microbiol 68: 3673-3682. http://dx.doi.org/10.1128/AEM.68.8.3673-3682.2002.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 3673-3682
-
-
Martin, A.P.1
-
38
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R. 2010. QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7:335-336. http://dx.doi.org/10.1038/nmeth.f.303.
-
(2010)
Nat Methods
, vol.7
, pp. 335-336
-
-
Caporaso, J.G.1
Kuczynski, J.2
Stombaugh, J.3
Bittinger, K.4
Bushman, F.D.5
Costello, E.K.6
Fierer, N.7
Peña, A.G.8
Goodrich, J.K.9
Gordon, J.I.10
Huttley, G.A.11
Kelley, S.T.12
Knights, D.13
Koenig, J.E.14
Ley, R.E.15
Lozupone, C.A.16
McDonald, D.17
Muegge, B.D.18
Pirrung, M.19
Reeder, J.20
Sevinsky, J.R.21
Turnbaugh, P.J.22
Walters, W.A.23
Widmann, J.24
Yatsunenko, T.25
Zaneveld, J.26
Knight, R.27
more..
-
39
-
-
84857411659
-
Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011
-
Grad YH, Lipsitch M, Feldgarden M, Arachchi HM, Cerqueira GC, Fitzgerald M, Godfrey P, Haas BJ, Murphy CI, Russ C, Sykes S, Walker BJ, Wortman JR, Young S, Zeng Q, Abouelleil A, Bochicchio J, Chauvin S, Desmet T, Gujja S, McCowan C, Montmayeur A, Steelman S, Frimodt-Møller J, Petersen AM, Struve C, Krogfelt KA, Bingen E, Weill F-X, Lander ES, Nusbaum C, Birren BW, Hung DT, Hanage WP. 2012. Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011. Proc Natl Acad SciUSA109:3065-3070. http://dx.doi.org/10.1073/pnas.1121491109.
-
(2012)
Proc Natl Acad SciUSA
, vol.109
, pp. 3065-3070
-
-
Grad, Y.H.1
Lipsitch, M.2
Feldgarden, M.3
Arachchi, H.M.4
Cerqueira, G.C.5
Fitzgerald, M.6
Godfrey, P.7
Haas, B.J.8
Murphy, C.I.9
Russ, C.10
Sykes, S.11
Walker, B.J.12
Wortman, J.R.13
Young, S.14
Zeng, Q.15
Abouelleil, A.16
Bochicchio, J.17
Chauvin, S.18
Desmet, T.19
Gujja, S.20
McCowan, C.21
Montmayeur, A.22
Steelman, S.23
Frimodt-Møller, J.24
Petersen, A.M.25
Struve, C.26
Krogfelt, K.A.27
Bingen, E.28
Weill, F.-X.29
Lander, E.S.30
Nusbaum, C.31
Birren, B.W.32
Hung, D.T.33
Hanage, W.P.34
more..
-
40
-
-
79960609901
-
Prospective genomic characterization of the German enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology
-
Mellmann A, Harmsen D, Cummings CA, Zentz EB, Leopold SR, Rico A, Prior K, Szczepanowski R, Ji Y, Zhang W, McLaughlin SF, Henkhaus JK, Leopold B, Bielaszewska M, Prager R, Brzoska PM, Moore RL, Guenther S, Rothberg JM, Karch H. 2011. Prospective genomic characterization of the German enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology. PLoS One 6:e22751. http://dx.doi.org/10.1371/journal.pone.0022751.
-
(2011)
PLoS One
, vol.6
-
-
Mellmann, A.1
Harmsen, D.2
Cummings, C.A.3
Zentz, E.B.4
Leopold, S.R.5
Rico, A.6
Prior, K.7
Szczepanowski, R.8
Ji, Y.9
Zhang, W.10
McLaughlin, S.F.11
Henkhaus, J.K.12
Leopold, B.13
Bielaszewska, M.14
Prager, R.15
Brzoska, P.M.16
Moore, R.L.17
Guenther, S.18
Rothberg, J.M.19
Karch, H.20
more..
-
41
-
-
84919359586
-
The application of genomics to tracing bacterial pathogen transmission
-
Croucher NJ, Didelot X. 2015. The application of genomics to tracing bacterial pathogen transmission. Curr Opin Microbiol 23C:62-67. http: //dx.doi.org/10.1016/j.mib.2014.11.004.
-
(2015)
Curr Opin Microbiol
, vol.23 C
, pp. 62-67
-
-
Croucher, N.J.1
Didelot, X.2
-
43
-
-
84930257769
-
Scientific and technical means of distinguishing between natural and other outbreaks of disease
-
(ed). Springer, New York, NY
-
Dando M, Pearson G, Kriz B (ed). 2001. Scientific and technical means of distinguishing between natural and other outbreaks of disease. Proceeding of the NATO Advanced Research Workshop, vol 35. Springer, New York, NY.
-
(2001)
Proceeding of the NATO Advanced Research Workshop
, vol.35
-
-
Dando, M.1
Pearson, G.2
Kriz, B.3
-
44
-
-
0035914370
-
Update: Investigation of anthrax associated with intentional exposure and interim public health guidelines, October 2001
-
CDC. 2001. Update: investigation of anthrax associated with intentional exposure and interim public health guidelines, October 2001. MMWR Morb Mortal Wkly Rep 50:889-893.
-
(2001)
MMWR Morb Mortal Wkly Rep
, vol.50
, pp. 889-893
-
-
C.D.C.1
-
45
-
-
0037077108
-
Comparative genome sequencing for discovery of novel polymorphisms in Bacillus anthracis
-
Read TD, Salzberg SL, Pop M, Shumway M, Umayam L, Jiang L, Holtzapple E, Busch JD, Smith KL, Schupp JM, Solomon D, Keim P, Fraser CM. 2002. Comparative genome sequencing for discovery of novel polymorphisms in Bacillus anthracis. Science 296:2028-2033. http: //dx.doi.org/10.1126/science.1071837.
-
(2002)
Science
, vol.296
, pp. 2028-2033
-
-
Read, T.D.1
Salzberg, S.L.2
Pop, M.3
Shumway, M.4
Umayam, L.5
Jiang, L.6
Holtzapple, E.7
Busch, J.D.8
Smith, K.L.9
Schupp, J.M.10
Solomon, D.11
Keim, P.12
Fraser, C.M.13
-
46
-
-
0036774995
-
Molecular subtyping of Bacillus anthracis and the 2001 bioterrorismassociated anthrax outbreak, United States
-
Hoffmaster AR, Fitzgerald CC, Ribot E, Mayer LW, Popovic T. 2002. Molecular subtyping of Bacillus anthracis and the 2001 bioterrorismassociated anthrax outbreak, United States. Emerg Infect Dis 8:1111-1116. http://dx.doi.org/10.3201/eid0810.020394.
-
(2002)
Emerg Infect Dis
, vol.8
, pp. 1111-1116
-
-
Hoffmaster, A.R.1
Fitzgerald, C.C.2
Ribot, E.3
Mayer, L.W.4
Popovic, T.5
-
47
-
-
0038752613
-
The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria
-
Read TD, Peterson SN, Tourasse N, Baillie LW, Paulsen IT, Nelson KE, Tettelin H, Fouts DE, Eisen JA, Gill SR, Holtzapple EK, Okstad OA, Helgason E, Rilstone J, Wu M, Kolonay JF, Beanan MJ, Dodson RJ, Brinkac LM, Gwinn M, DeBoy RT, Madpu R, Daugherty SC, Durkin AS, Haft DH, Nelson WC, Peterson JD, Pop M, Khouri HM, Radune D, Benton JL, Mahamoud Y, Jiang L, Hance IR, Weidman JF, Berry KJ, Plaut RD, Wolf AM, Watkins KL, Nierman WC, Hazen A, Cline R, Redmond C, Thwaite JE, White O, Salzberg SL, Thomason B, Friedlander AM, Koehler TM, Hanna PC, Kolstø A-B, Fraser CM. 2003. The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria. Nature 423:81-86. http://dx.doi.org/10.1038 /nature01586.
-
(2003)
Nature
, vol.423
, pp. 81-86
-
-
Read, T.D.1
Peterson, S.N.2
Tourasse, N.3
Baillie, L.W.4
Paulsen, I.T.5
Nelson, K.E.6
Tettelin, H.7
Fouts, D.E.8
Eisen, J.A.9
Gill, S.R.10
Holtzapple, E.K.11
Okstad, O.A.12
Helgason, E.13
Rilstone, J.14
Wu, M.15
Kolonay, J.F.16
Beanan, M.J.17
Dodson, R.J.18
Brinkac, L.M.19
Gwinn, M.20
DeBoy, R.T.21
Madpu, R.22
Daugherty, S.C.23
Durkin, A.S.24
Haft, D.H.25
Nelson, W.C.26
Peterson, J.D.27
Pop, M.28
Khouri, H.M.29
Radune, D.30
Benton, J.L.31
Mahamoud, Y.32
Jiang, L.33
Hance, I.R.34
Weidman, J.F.35
Berry, K.J.36
Plaut, R.D.37
Wolf, A.M.38
Watkins, K.L.39
Nierman, W.C.40
Hazen, A.41
Cline, R.42
Redmond, C.43
Thwaite, J.E.44
White, O.45
Salzberg, S.L.46
Thomason, B.47
Friedlander, A.M.48
Koehler, T.M.49
Hanna, P.C.50
Kolstø, A.-B.51
Fraser, C.M.52
more..
-
49
-
-
84930257770
-
Sensing dispersal of chemical and biological agents in urban environments
-
Voeller JG (ed), Wiley, Hoboken, NJ
-
Ervin A, Hultgren A, Rhyne E, Ward K. 2010. Sensing dispersal of chemical and biological agents in urban environments, p 423-434. In Voeller JG (ed), Wiley handbook of science and technology for homeland security. Wiley, Hoboken, NJ.
-
(2010)
Wiley handbook of science and technology for homeland security.
, pp. 423-434
-
-
Ervin, A.1
Hultgren, A.2
Rhyne, E.3
Ward, K.4
-
51
-
-
79957755362
-
Improving the evidence base for decision making during a pandemic: The example of 2009 influenza A/H1N1
-
Lipsitch M, Finelli L, Heffernan RT, Leung GM, Redd SC. 2011. Improving the evidence base for decision making during a pandemic: the example of 2009 influenza A/H1N1. Biosecur Bioterror 9:89-115. http: //dx.doi.org/10.1089/bsp.2011.0007.
-
(2011)
Biosecur Bioterror
, vol.9
, pp. 89-115
-
-
Lipsitch, M.1
Finelli, L.2
Heffernan, R.T.3
Leung, G.M.4
Redd, S.C.5
-
55
-
-
84929921681
-
Dual purpose bioterrorism investigations in law enforcement and public health protection: How to make them work consistent with the rule of law
-
Sutton V. 2005. Dual purpose bioterrorism investigations in law enforcement and public health protection: how to make them work consistent with the rule of law. Houst J Health Law Policy 6:151-170.
-
(2005)
Houst J Health Law Policy
, vol.6
, pp. 151-170
-
-
Sutton, V.1
-
56
-
-
84882772290
-
-
Directive 95/46/EC of the European Parliament and of the Council of 24 October 1995 on the protection of individuals with regard to the processing of personal data and on the free movement of such data, articles 3 and 13
-
European Parliament, Council of the European Union. 1995. Directive 95/46/EC of the European Parliament and of the Council of 24 October 1995 on the protection of individuals with regard to the processing of personal data and on the free movement of such data, articles 3 and 13. Official Journal L 281.
-
(1995)
Official Journal L 281.
-
-
European Parliament, Council of the European Union,1
-
58
-
-
84930247978
-
-
Code of Federal Regulations. Title 45. Public welfare. Subtitle A. Department of Health and Human Services. Subchapter C. Subpart E. Privacy of individually identifiable health information. §164.512. Uses and disclosures for which an authorization or opportunity to agree or object is not required
-
Code of Federal Regulations. Title 45. Public welfare. Subtitle A. Department of Health and Human Services. Subchapter C. Administrative data standards and related requirements. Part 164. Security and privacy. Subpart E. Privacy of individually identifiable health information. §164.512. Uses and disclosures for which an authorization or opportunity to agree or object is not required.
-
Administrative data standards and related requirements. Part 164. Security and privacy.
-
-
-
59
-
-
84930257772
-
-
US Congress. Accessible from West, Westlaw through Public Law (P.L.) 113-296 (excluding P.L. 113-235, 113-287, and 113-291)
-
US Congress. 1947. National Security Act of 1947, 50 U.S.C.A. §§ 3001-3234. Accessible from West, Westlaw through Public Law (P.L.) 113-296 (excluding P.L. 113-235, 113-287, and 113-291).
-
(1947)
National Security Act of 1947, 50 U.S.C.A. §§ 3001-3234.
-
-
-
61
-
-
84881539274
-
Critical illness research involving collection of genomic data: The conundrum posed by low levels of genomic literacy among surrogate decision makers for critically ill patients
-
Iverson E, Celious A, Shehane E, Oerke M, Warren V, Eastman A, Kennedy CR, Freeman BD. 2013. Critical illness research involving collection of genomic data: the conundrum posed by low levels of genomic literacy among surrogate decision makers for critically ill patients. J Empir Res Hum Res Ethics 8:53-57. http://dx.doi.org/10.1525 /jer.2013.8.3.53.
-
(2013)
J Empir Res Hum Res Ethics
, vol.8
, pp. 53-57
-
-
Iverson, E.1
Celious, A.2
Shehane, E.3
Oerke, M.4
Warren, V.5
Eastman, A.6
Kennedy, C.R.7
Freeman, B.D.8
-
62
-
-
49949093313
-
Development of a large-scale de-identified DNA biobank to enable personalized medicine
-
Roden DM, Pulley JM, Basford MA, Bernard GR, Clayton EW, Balser JR, Masys DR. 2008. Development of a large-scale de-identified DNA biobank to enable personalized medicine. Clin Pharmacol Ther 84:362-369. http://dx.doi.org/10.1038/clpt.2008.89.
-
(2008)
Clin Pharmacol Ther
, vol.84
, pp. 362-369
-
-
Roden, D.M.1
Pulley, J.M.2
Basford, M.A.3
Bernard, G.R.4
Clayton, E.W.5
Balser, J.R.6
Masys, D.R.7
-
63
-
-
84880889755
-
Genomic privacy in the information age
-
Korf BR. 2013. Genomic privacy in the information age. Clin Chem 59:1148-1150. http://dx.doi.org/10.1373/clinchem.2013.205260.
-
(2013)
Clin Chem
, vol.59
, pp. 1148-1150
-
-
Korf, B.R.1
-
64
-
-
84872459720
-
Identifying personal genomes by surname inference
-
Gymrek M, McGuire AL, Golan D, Halperin E, Erlich Y. 2013. Identifying personal genomes by surname inference. Science 339:321-324. http://dx.doi.org/10.1126/science.1229566.
-
(2013)
Science
, vol.339
, pp. 321-324
-
-
Gymrek, M.1
McGuire, A.L.2
Golan, D.3
Halperin, E.4
Erlich, Y.5
-
66
-
-
84868301495
-
Global teaching and training initiatives for emerging cohort studies
-
Paulus JK, Santoyo-Vistrain R, Havelick D, Cohen A, Kalyesubula R, Ajayi IO, Mattsson JG, Adami H-O, Dalal S. 2012. Global teaching and training initiatives for emerging cohort studies. J Epidemiol Glob Health 2:125-133. http://dx.doi.org/10.1016/j.jegh.2012.07.001.
-
(2012)
J Epidemiol Glob Health
, vol.2
, pp. 125-133
-
-
Paulus, J.K.1
Santoyo-Vistrain, R.2
Havelick, D.3
Cohen, A.4
Kalyesubula, R.5
Ajayi, I.O.6
Mattsson, J.G.7
Adami, H.-O.8
Dalal, S.9
-
68
-
-
10944245505
-
Advances in detecting and responding to threats from bioterrorism and emerging infectious disease
-
Rotz LD, Hughes JM. 2004. Advances in detecting and responding to threats from bioterrorism and emerging infectious disease. Nat Med 10: S130-S136. http://dx.doi.org/10.1038/nm1152.
-
(2004)
Nat Med
, vol.10
, pp. S130-S136
-
-
Rotz, L.D.1
Hughes, J.M.2
-
69
-
-
0036670996
-
A procedure for differentiating between the intentional release of biological warfare agents and natural outbreaks of disease: Its use in analyzing the tularemia outbreak in Kosovo in 1999 and 2000
-
Grunow R, Finke E-J. 2002. A procedure for differentiating between the intentional release of biological warfare agents and natural outbreaks of disease: its use in analyzing the tularemia outbreak in Kosovo in 1999 and 2000. Clin Microbiol Infect 8:510-521. http://dx.doi.org/10.1046/j.1469 -0691.2002.00524.x.
-
(2002)
Clin Microbiol Infect
, vol.8
, pp. 510-521
-
-
Grunow, R.1
Finke, E.-J.2
-
70
-
-
33947384067
-
Discernment between deliberate and natural infectious disease outbreaks
-
Dembek ZF, Kortepeter MG, Pavlin JA. 2007. Discernment between deliberate and natural infectious disease outbreaks. Epidemiol Infect 135:353-371. http://dx.doi.org/10.1017/S0950268806007011.
-
(2007)
Epidemiol Infect
, vol.135
, pp. 353-371
-
-
Dembek, Z.F.1
Kortepeter, M.G.2
Pavlin, J.A.3
-
71
-
-
84155167211
-
Unusual epidemic events: A new method of early orientation and differentiation between natural and deliberate epidemics
-
Radosavljevic V, Belojevic G. 2012. Unusual epidemic events: a new method of early orientation and differentiation between natural and deliberate epidemics. Public Health 126:77-81. http://dx.doi.org/10.1016 /j.puhe.2011.11.006.
-
(2012)
Public Health
, vol.126
, pp. 77-81
-
-
Radosavljevic, V.1
Belojevic, G.2
-
72
-
-
54049102056
-
RamA confers multidrug resistance in Salmonella enterica via increased expression of acrB, which is inhibited by chlorpromazine
-
Bailey AM, Paulsen IT, Piddock LJV. 2008. RamA confers multidrug resistance in Salmonella enterica via increased expression of acrB, which is inhibited by chlorpromazine. Antimicrob Agents Chemother 52: 3604-3611. http://dx.doi.org/10.1128/AAC.00661-08.
-
(2008)
Antimicrob Agents Chemother
, vol.52
, pp. 3604-3611
-
-
Bailey, A.M.1
Paulsen, I.T.2
Piddock, L.J.V.3
-
73
-
-
73149122136
-
Applications of genomescale metabolic reconstructions
-
Oberhardt MA, Palsson BØ, Papin JA. 2009. Applications of genomescale metabolic reconstructions. Mol Syst Biol 5:320. http://dx.doi.org /10.1038/msb.2009.77.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 320
-
-
Oberhardt, M.A.1
Palsson, B.Ø.2
Papin, J.A.3
-
74
-
-
79953649492
-
Reconciliation of genome-scale metabolic reconstructions for comparative systems analysis
-
Oberhardt MA, Puchałka J, Martins dos Santos VAP, Papin JA. 2011. Reconciliation of genome-scale metabolic reconstructions for comparative systems analysis. PLoS Comput Biol. 7:e1001116. http://dx.doi.org /10.1371/journal.pcbi.1001116.
-
(2011)
PLoS Comput Biol.
, vol.7
-
-
Oberhardt, M.A.1
Puchałka, J.2
dos Santos Martins, V.A.P.3
Papin, J.A.4
-
75
-
-
84869113067
-
Microbial culturomics: Paradigm shift in the human gut microbiome study
-
Lagier J-C, Armougom F, Million M, Hugon P, Pagnier I, Robert C, Bittar F, Fournous G, Gimenez G, Maraninchi M, Trape J-F, Koonin EV, La Scola B, Raoult D. 2012. Microbial culturomics: paradigm shift in the human gut microbiome study. Clin Microbiol Infect 18:1185-1193. http://dx.doi.org/10.1111/1469-0691.12023.
-
(2012)
Clin Microbiol Infect
, vol.18
, pp. 1185-1193
-
-
Lagier, J.-C.1
Armougom, F.2
Million, M.3
Hugon, P.4
Pagnier, I.5
Robert, C.6
Bittar, F.7
Fournous, G.8
Gimenez, G.9
Maraninchi, M.10
Trape, J.-F.11
Koonin, E.V.12
La Scola, B.13
Raoult, D.14
-
76
-
-
84862199752
-
Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak
-
Köser CU, Holden MTG, Ellington MJ, Cartwright EJP, Brown NM, Ogilvy-Stuart AL, Hsu LY, Chewapreecha C, Croucher NJ, Harris SR, Sanders M, Enright MC, Dougan G, Bentley SD, Parkhill J, Fraser LJ, Betley JR, Schulz-Trieglaff OB, Smith GP, Peacock SJ. 2012. Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak. N Engl J Med 366:2267-2275. http://dx.doi.org/10 .1056/NEJMoa1109910.
-
(2012)
N Engl J Med
, vol.366
, pp. 2267-2275
-
-
Köser, C.U.1
Holden, M.T.G.2
Ellington, M.J.3
Cartwright, E.J.P.4
Brown, N.M.5
Ogilvy-Stuart, A.L.6
Hsu, L.Y.7
Chewapreecha, C.8
Croucher, N.J.9
Harris, S.R.10
Sanders, M.11
Enright, M.C.12
Dougan, G.13
Bentley, S.D.14
Parkhill, J.15
Fraser, L.J.16
Betley, J.R.17
Schulz-Trieglaff, O.B.18
Smith, G.P.19
Peacock, S.J.20
more..
-
77
-
-
0242523909
-
The uncultured microbial majority
-
Rappé MS, Giovannoni SJ. 2003. The uncultured microbial majority. Annu Rev Microbiol 57:369-394. http://dx.doi.org/10.1146/annurev .micro.57.030502.090759.
-
(2003)
Annu Rev Microbiol
, vol.57
, pp. 369-394
-
-
Rappé, M.S.1
Giovannoni, S.J.2
-
78
-
-
33644692952
-
Metagenomics: DNA sequencing of environmental samples
-
Tringe SG, Rubin EM. 2005. Metagenomics: DNA sequencing of environmental samples. Nat Rev Genet 6:805-814. http://dx.doi.org/10.1038 /nrg1709.
-
(2005)
Nat Rev Genet
, vol.6
, pp. 805-814
-
-
Tringe, S.G.1
Rubin, E.M.2
-
80
-
-
0036711892
-
Biological warfare at the 1346 siege of Caffa
-
Wheelis M. 2002. Biological warfare at the 1346 siege of Caffa. Emerg Infect Dis 8:971-975. http://dx.doi.org/10.3201/eid0809.010536.
-
(2002)
Emerg Infect Dis
, vol.8
, pp. 971-975
-
-
Wheelis, M.1
-
81
-
-
84883229154
-
Historical perspective on agroterrorism: Lessons learned from 1945 to 2012
-
Keremidis H, Appel B, Menrath A, Tomuzia K, Normark M, Roffey R, Knutsson R. 2013. Historical perspective on agroterrorism: lessons learned from 1945 to 2012. Biosecur Bioterror 11(Suppl 1):S17-S24. http://dx.doi.org/10.1089/bsp.2012.0080.
-
(2013)
Biosecur Bioterror
, vol.11
, pp. S17-S24
-
-
Keremidis, H.1
Appel, B.2
Menrath, A.3
Tomuzia, K.4
Normark, M.5
Roffey, R.6
Knutsson, R.7
-
82
-
-
67651108596
-
Ongoing revolution in bacteriology: Routine identification of bacteria by matrix-assisted laser desorption ionization time-offlight mass spectrometry
-
Seng P, Drancourt M, Gouriet F, La Scola B, Fournier P-E, Rolain JM, Raoult D. 2009. Ongoing revolution in bacteriology: routine identification of bacteria by matrix-assisted laser desorption ionization time-offlight mass spectrometry. Clin Infect Dis 49:543-551. http://dx.doi.org /10.1086/600885.
-
(2009)
Clin Infect Dis
, vol.49
, pp. 543-551
-
-
Seng, P.1
Drancourt, M.2
Gouriet, F.3
La Scola, B.4
Fournier, P.-E.5
Rolain, J.M.6
Raoult, D.7
-
83
-
-
84863643686
-
Detection of Staphylococcus aureus delta-toxin production by whole-cell MALDI-TOF mass spectrometry
-
Gagnaire J, Dauwalder O, Boisset S, Khau D, Freydière A-M, Ader F, Bes M, Lina G, Tristan A, Reverdy M-E, Marchand A, Geissmann T, Benito Y, Durand G, Charrier J-P, Etienne J, Welker M, Van Belkum A, Vandenesch F. 2012. Detection of Staphylococcus aureus delta-toxin production by whole-cell MALDI-TOF mass spectrometry. PLoS One 7:e40660. http://dx.doi.org/10.1371/journal.pone.0040660.
-
(2012)
PLoS One
, vol.7
-
-
Gagnaire, J.1
Dauwalder, O.2
Boisset, S.3
Khau, D.4
Freydière, A.-M.5
Ader, F.6
Bes, M.7
Lina, G.8
Tristan, A.9
Reverdy, M.-E.10
Marchand, A.11
Geissmann, T.12
Benito, Y.13
Durand, G.14
Charrier, J.-P.15
Etienne, J.16
Welker, M.17
Van Belkum, A.18
Vandenesch, F.19
-
84
-
-
84861344085
-
Development of a protein standard absolute quantification (PSAQ) assay for the quantification of Staphylococcus aureus enterotoxin A in serum
-
Adrait A, Lebert D, Trauchessec M, Dupuis A, Louwagie M, Masselon C, Jaquinod M, Chevalier B, Vandenesch F, Garin J, Bruley C, Brun V. 2012. Development of a protein standard absolute quantification (PSAQ) assay for the quantification of Staphylococcus aureus enterotoxin A in serum. J Proteomics 75:3041-3049. http://dx.doi.org/10.1016/j .jprot.2011.11.031.
-
(2012)
J Proteomics
, vol.75
, pp. 3041-3049
-
-
Adrait, A.1
Lebert, D.2
Trauchessec, M.3
Dupuis, A.4
Louwagie, M.5
Masselon, C.6
Jaquinod, M.7
Chevalier, B.8
Vandenesch, F.9
Garin, J.10
Bruley, C.11
Brun, V.12
-
85
-
-
84863779195
-
The UniProtKB/ Swiss-Prot Tox-Prot program: A central hub of integrated venom protein data
-
Jungo F, Bougueleret L, Xenarios I, Poux S. 2012. The UniProtKB/ Swiss-Prot Tox-Prot program: a central hub of integrated venom protein data. Toxicon 60:551-557. http://dx.doi.org/10.1016/j.toxicon.2012.03 .010.
-
(2012)
Toxicon
, vol.60
, pp. 551-557
-
-
Jungo, F.1
Bougueleret, L.2
Xenarios, I.3
Poux, S.4
-
86
-
-
84872000473
-
Proteomics meets the scientific method
-
Picotti P, Bodenmiller B, Aebersold R. 2013. Proteomics meets the scientific method. Nat Methods 10:24-27. http://dx.doi.org/10.1038 /nmeth.2291.
-
(2013)
Nat Methods
, vol.10
, pp. 24-27
-
-
Picotti, P.1
Bodenmiller, B.2
Aebersold, R.3
-
87
-
-
30744477062
-
Use of PCR amplification of tRNA gene-linked short tandem repeats for genotyping Entamoeba histolytica
-
Ali IKM, Zaki M, Clark CG. 2005. Use of PCR amplification of tRNA gene-linked short tandem repeats for genotyping Entamoeba histolytica. J Clin Microbiol 43:5842-5847. http://dx.doi.org/10.1128/JCM.43.12 .5842-5847.2005.
-
(2005)
J Clin Microbiol
, vol.43
, pp. 5842-5847
-
-
Ali, I.K.M.1
Zaki, M.2
Clark, C.G.3
-
88
-
-
0034020175
-
Multiple-locus variable-number tandem repeat analysis reveals genetic relationships within Bacillus anthracis
-
Keim P, Price LB, Klevytska AM, Smith KL, Schupp JM, Okinaka R, Jackson PJ, Hugh-Jones ME. 2000. Multiple-locus variable-number tandem repeat analysis reveals genetic relationships within Bacillus anthracis. J Bacteriol 182:2928-2936. http://dx.doi.org/10.1128/JB.182.10 .2928-2936.2000.
-
(2000)
J Bacteriol
, vol.182
, pp. 2928-2936
-
-
Keim, P.1
Price, L.B.2
Klevytska, A.M.3
Smith, K.L.4
Schupp, J.M.5
Okinaka, R.6
Jackson, P.J.7
Hugh-Jones, M.E.8
-
89
-
-
11844252652
-
Sensitivities and specificities of spoligotyping and mycobacterial interspersed repetitive unit-variablenumber tandem repeat typing methods for studying molecular epidemiology of tuberculosis
-
Scott AN, Menzies D, Tannenbaum T-N, Thibert L, Kozak R, Joseph L, Schwartzman K, Behr MA. 2005. Sensitivities and specificities of spoligotyping and mycobacterial interspersed repetitive unit-variablenumber tandem repeat typing methods for studying molecular epidemiology of tuberculosis. J Clin Microbiol 43:89-94. http://dx.doi.org/10 .1128/JCM.43.1.89-94.2005.
-
(2005)
J Clin Microbiol
, vol.43
, pp. 89-94
-
-
Scott, A.N.1
Menzies, D.2
Tannenbaum, T.-N.3
Thibert, L.4
Kozak, R.5
Joseph, L.6
Schwartzman, K.7
Behr, M.A.8
-
90
-
-
22244446185
-
Advances in mechanisms of genetic instability related to hereditary neurological diseases
-
Wells RD, Dere R, Hebert ML, Napierala M, Son LS. 2005. Advances in mechanisms of genetic instability related to hereditary neurological diseases. Nucleic Acids Res 33:3785-3798. http://dx.doi.org/10.1093/nar /gki697.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 3785-3798
-
-
Wells, R.D.1
Dere, R.2
Hebert, M.L.3
Napierala, M.4
Son, L.S.5
-
91
-
-
15044351543
-
Structural roles of CTG repeats in slippage expansion during DNA replication
-
Chi LM, Lam SL. 2005. Structural roles of CTG repeats in slippage expansion during DNA replication. Nucleic Acids Res 33:1604-1617. http://dx.doi.org/10.1093/nar/gki307.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 1604-1617
-
-
Chi, L.M.1
Lam, S.L.2
-
92
-
-
84858600509
-
Multilocus sequence typing of total-genome-sequenced bacteria
-
Larsen MV, Cosentino S, Rasmussen S, Friis C, Hasman H, Marvig RL, Jelsbak L, Pontén TS, Ussery DW, Aarestrup FM, Lund O. 2012. Multilocus sequence typing of total-genome-sequenced bacteria. J Clin Microbiol 50:1355-1361. http://dx.doi.org/10.1128/JCM.06094-11.
-
(2012)
J Clin Microbiol
, vol.50
, pp. 1355-1361
-
-
Larsen, M.V.1
Cosentino, S.2
Rasmussen, S.3
Friis, C.4
Hasman, H.5
Marvig, R.L.6
Jelsbak, L.7
Pontén, T.S.8
Ussery, D.W.9
Aarestrup, F.M.10
Lund, O.11
-
93
-
-
79959858450
-
Multilocus sequence typing (MLST) for lineage assignment and high resolution diversity studies in Trypanosoma cruzi
-
Yeo M, Mauricio IL, Messenger LA, Lewis MD, Llewellyn MS, Acosta N, Bhattacharyya T, Diosque P, Carrasco HJ, Miles MA. 2011. Multilocus sequence typing (MLST) for lineage assignment and high resolution diversity studies in Trypanosoma cruzi. PLoS Negl Trop Dis 5:e1049. http://dx.doi.org/10.1371/journal.pntd.0001049.
-
(2011)
PLoS Negl Trop Dis
, vol.5
-
-
Yeo, M.1
Mauricio, I.L.2
Messenger, L.A.3
Lewis, M.D.4
Llewellyn, M.S.5
Acosta, N.6
Bhattacharyya, T.7
Diosque, P.8
Carrasco, H.J.9
Miles, M.A.10
-
94
-
-
23144435334
-
The Multilocus Sequence Typing Network: Mlst.net
-
Aanensen DM, Spratt BG. 2005. The Multilocus Sequence Typing Network: mlst.net.Nucleic Acids Res 33:W728-W733. http://dx.doi.org/10 .1093/nar/gki415.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W728-W733
-
-
Aanensen, D.M.1
Spratt, B.G.2
-
95
-
-
77957822719
-
Navigating the future of bacterial molecular epidemiology
-
Baker S, Hanage WP, Holt KE. 2010. Navigating the future of bacterial molecular epidemiology. Curr Opin Microbiol 13:640-645. http://dx .doi.org/10.1016/j.mib.2010.08.002.
-
(2010)
Curr Opin Microbiol
, vol.13
, pp. 640-645
-
-
Baker, S.1
Hanage, W.P.2
Holt, K.E.3
-
96
-
-
79957972974
-
Clonal differences between nontyphoidal Salmonella (NTS) recovered from children and animals living in close contact in the Gambia
-
Dione MM, Ikumapayi UN, Saha D, Mohammed NI, Geerts S, Ieven M, Adegbola RA, Antonio M. 2011. Clonal differences between nontyphoidal Salmonella (NTS) recovered from children and animals living in close contact in the Gambia. PLoS Negl Trop Dis 5:e1148. http://dx .doi.org/10.1371/journal.pntd.0001148.
-
(2011)
PLoS Negl Trop Dis
, vol.5
-
-
Dione, M.M.1
Ikumapayi, U.N.2
Saha, D.3
Mohammed, N.I.4
Geerts, S.5
Ieven, M.6
Adegbola, R.A.7
Antonio, M.8
-
97
-
-
84857136812
-
Comparative genomics of 2009 seasonal plague (Yersinia pestis) in New Mexico
-
Gibbons HS, Krepps MD, Ouellette G, Karavis M, Onischuk L, Leonard P, Broomall S, Sickler T, Betters JL, McGregor P, Donarum G, Liem A, Fochler E, McNew L, Rosenzweig CN, Skowronski E. 2012. Comparative genomics of 2009 seasonal plague (Yersinia pestis) in New Mexico. PLoS One 7:e31604. http://dx.doi.org/10.1371 /journal.pone.0031604.
-
(2012)
PLoS One
, vol.7
-
-
Gibbons, H.S.1
Krepps, M.D.2
Ouellette, G.3
Karavis, M.4
Onischuk, L.5
Leonard, P.6
Broomall, S.7
Sickler, T.8
Betters, J.L.9
McGregor, P.10
Donarum, G.11
Liem, A.12
Fochler, E.13
McNew, L.14
Rosenzweig, C.N.15
Skowronski, E.16
-
99
-
-
80051804184
-
Characterisation of the Escherichia coli strain associated with an outbreak of haemolytic uraemic syndrome in Germany, 2011: A microbiological study
-
Bielaszewska M, Mellmann A, Zhang W, Köck R, Fruth A, Bauwens A, Peters G, Karch H. 2011. Characterisation of the Escherichia coli strain associated with an outbreak of haemolytic uraemic syndrome in Germany, 2011: a microbiological study. Lancet Infect Dis 11:671-676. http: //dx.doi.org/10.1016/S1473-3099(11)70165-7.
-
(2011)
Lancet Infect Dis
, vol.11
, pp. 671-676
-
-
Bielaszewska, M.1
Mellmann, A.2
Zhang, W.3
Köck, R.4
Fruth, A.5
Bauwens, A.6
Peters, G.7
Karch, H.8
-
100
-
-
79960270116
-
Outbreak of haemolytic uraemic syndrome and bloody diarrhoea due to Escherichia coli O104:H4, south-west France, June 2011
-
pii 19905
-
Gault G, Weill FX, Mariani-Kurkdjian P, Jourdan-da Silva N, King L, Aldabe B, Charron M, Ong N, Castor C, Mace M, Bingen E, Noel H, Vaillant V, Bone A, Vendrely B, Delmas Y, Combe C, Bercion R, d'Andigne E, Desjardin M, de Valk H, Rolland P. 2011. Outbreak of haemolytic uraemic syndrome and bloody diarrhoea due to Escherichia coli O104:H4, south-west France, June 2011. Euro Surveill 16(26):pii 19905. http://www.eurosurveillance.org/ViewArticle.aspx- ?ArticleId 19905.
-
(2011)
Euro Surveill
, vol.16
, Issue.26
-
-
Gault, G.1
Weill, F.X.2
Mariani-Kurkdjian, P.3
Jourdan-Da Silva, N.4
King, L.5
Aldabe, B.6
Charron, M.7
Ong, N.8
Castor, C.9
Mace, M.10
Bingen, E.11
Noel, H.12
Vaillant, V.13
Bone, A.14
Vendrely, B.15
Delmas, Y.16
Combe, C.17
Bercion, R.18
d'Andigne, E.19
Desjardin, M.20
de Valk, H.21
Rolland, P.22
more..
-
101
-
-
33745630056
-
A case of hemolytic uremic syndrome caused by Escherichia coli O104: H4
-
Bae WK, Lee YK, Cho MS, Ma SK, Kim SW, Kim NH, Choi KC. 2006. A case of hemolytic uremic syndrome caused by Escherichia coli O104: H4. Yonsei Med J 47:437-439. http://dx.doi.org/10.3349/ymj.2006.47.3 .437.
-
(2006)
Yonsei Med J
, vol.47
, pp. 437-439
-
-
Bae, W.K.1
Lee, Y.K.2
Cho, M.S.3
Ma, S.K.4
Kim, S.W.5
Kim, N.H.6
Choi, K.C.7
-
102
-
-
48749112422
-
Analysis of collection of hemolytic uremic syndrome-associated enterohemorrhagic Escherichia coli
-
Mellmann A, Bielaszewska M, Köck R, Friedrich AW, Fruth A, Middendorf B, Harmsen D, Schmidt MA, Karch H. 2008. Analysis of collection of hemolytic uremic syndrome-associated enterohemorrhagic Escherichia coli. Emerg Infect Dis 14:1287-1290. http://dx.doi.org/10 .3201/eid1408.071082.
-
(2008)
Emerg Infect Dis
, vol.14
, pp. 1287-1290
-
-
Mellmann, A.1
Bielaszewska, M.2
Köck, R.3
Friedrich, A.W.4
Fruth, A.5
Middendorf, B.6
Harmsen, D.7
Schmidt, M.A.8
Karch, H.9
-
103
-
-
80955168000
-
Epidemic profile of Shiga-toxin-producing Escherichia coli O104:H4 outbreak in Germany
-
Frank C, Werber D, Cramer JP, Askar M, Faber M, an der Heiden M, Bernard H, Fruth A, Prager R, Spode A, Wadl M, Zoufaly A, Jordan S, Kemper MJ, Follin P, Müller L, King LA, Rosner B, Buchholz U, Stark K, Krause G. 2011. Epidemic profile of Shiga-toxin-producing Escherichia coli O104:H4 outbreak in Germany.NEngl J Med 365:1771-1780. http://dx.doi.org/10.1056/NEJMoa1106483.
-
(2011)
NEngl J Med
, vol.365
, pp. 1771-1780
-
-
Frank, C.1
Werber, D.2
Cramer, J.P.3
Askar, M.4
Faber, M.5
an der Heiden, M.6
Bernard, H.7
Fruth, A.8
Prager, R.9
Spode, A.10
Wadl, M.11
Zoufaly, A.12
Jordan, S.13
Kemper, M.J.14
Follin, P.15
Müller, L.16
King, L.A.17
Rosner, B.18
Buchholz, U.19
Stark, K.20
Krause, G.21
more..
-
104
-
-
79960089780
-
The new face of enterohaemorrhagic Escherichia coli infections
-
pii 19898
-
Jansen A, Kielstein JT. 2011. The new face of enterohaemorrhagic Escherichia coli infections. Euro Surveill 16(25):pii 19898. http://www .eurosurveillance.org/ViewArticle.aspx?ArticleId 19898.
-
(2011)
Euro Surveill
, vol.16
, Issue.25
-
-
Jansen, A.1
Kielstein, J.T.2
-
105
-
-
80053233574
-
Escherichia coli O104:H4 south-west France, June 2011
-
Mariani-Kurkdjian P, Bingen E, Gault G, Jourdan-Da Silva N, Weill F-X. 2011. Escherichia coli O104:H4 south-west France, June 2011. Lancet Infect Dis 11:732-733. http://dx.doi.org/10.1016/S1473 -3099(11)70266-3.
-
(2011)
Lancet Infect Dis
, vol.11
, pp. 732-733
-
-
Mariani-Kurkdjian, P.1
Bingen, E.2
Gault, G.3
Jourdan-Da Silva, N.4
Weill, F.-X.5
-
106
-
-
80052173621
-
Open-source genomic analysis of Shiga-toxin-producing E. coli O104:H4
-
Rohde H, Qin J, Cui Y, Li D, Loman NJ, Hentschke M, Chen W, Pu F, Peng Y, Li J, Xi F, Li S, Li Y, Zhang Z, Yang X, Zhao M, Wang P, Guan Y, Cen Z, Zhao X, Christner M, Kobbe R, Loos S, Oh J, Yang L, Danchin A, Gao GF, Song Y, Li Y, Yang H, Wang J, Xu J, Pallen MJ, Wang J, Aepfelbacher M, Yang R. 2011. Open-source genomic analysis of Shiga-toxin-producing E. coli O104:H4. N Engl J Med 365:718-724. http://dx.doi.org/10.1056/NEJMoa1107643.
-
(2011)
N Engl J Med
, vol.365
, pp. 718-724
-
-
Rohde, H.1
Qin, J.2
Cui, Y.3
Li, D.4
Loman, N.J.5
Hentschke, M.6
Chen, W.7
Pu, F.8
Peng, Y.9
Li, J.10
Xi, F.11
Li, S.12
Li, Y.13
Zhang, Z.14
Yang, X.15
Zhao, M.16
Wang, P.17
Guan, Y.18
Cen, Z.19
Zhao, X.20
Christner, M.21
Kobbe, R.22
Loos, S.23
Oh, J.24
Yang, L.25
Danchin, A.26
Gao, G.F.27
Song, Y.28
Li, Y.29
Yang, H.30
Wang, J.31
Xu, J.32
Pallen, M.J.33
Wang, J.34
Aepfelbacher, M.35
Yang, R.36
more..
-
107
-
-
80052150179
-
Origins of the E. coli strain causing an outbreak of hemolytic-uremic syndrome in Germany
-
Rasko DA, Webster DR, Sahl JW, Bashir A, Boisen N, Scheutz F, Paxinos EE, Sebra R, Chin C-S, Iliopoulos D, Klammer A, Peluso P, Lee L, Kislyuk AO, Bullard J, Kasarskis A, Wang S, Eid J, Rank D, Redman JC, Steyert SR, Frimodt-Møller J, Struve C, Petersen AM, Krogfelt KA, Nataro JP, Schadt EE, Waldor MK. 2011. Origins of the E. coli strain causing an outbreak of hemolytic-uremic syndrome in Germany. N Engl J Med 365:709 -717. http://dx.doi.org/10 .1056/NEJMoa1106920.
-
(2011)
N Engl J Med
, vol.365
, pp. 709-717
-
-
Rasko, D.A.1
Webster, D.R.2
Sahl, J.W.3
Bashir, A.4
Boisen, N.5
Scheutz, F.6
Paxinos, E.E.7
Sebra, R.8
Chin, C.-S.9
Iliopoulos, D.10
Klammer, A.11
Peluso, P.12
Lee, L.13
Kislyuk, A.O.14
Bullard, J.15
Kasarskis, A.16
Wang, S.17
Eid, J.18
Rank, D.19
Redman, J.C.20
Steyert, S.R.21
Frimodt-Møller, J.22
Struve, C.23
Petersen, A.M.24
Krogfelt, K.A.25
Nataro, J.P.26
Schadt, E.E.27
Waldor, M.K.28
more..
-
108
-
-
85014164811
-
-
(ed). 2nd ed. Elsevier, San Diego, CA
-
Budowle B, Schutzer SE, Breeze RG, Keim PS, Morse SA (ed). 2011. Microbial forensics, 2nd ed. Elsevier, San Diego, CA.
-
(2011)
Microbial forensics
-
-
Budowle, B.1
Schutzer, S.E.2
Breeze, R.G.3
Keim, P.S.4
Morse, S.A.5
-
109
-
-
19144366982
-
The metagenomics of soil
-
Daniel R. 2005. The metagenomics of soil. Nat Rev Microbiol 3:470-478. http://dx.doi.org/10.1038/nrmicro1160.
-
(2005)
Nat Rev Microbiol
, vol.3
, pp. 470-478
-
-
Daniel, R.1
-
110
-
-
84930257775
-
-
Reference deleted
-
Reference deleted.
-
-
-
-
111
-
-
84907193791
-
Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak
-
Gire SK, Goba A, Andersen KG, Sealfon RSG, Park DJ, Kanneh L, Jalloh S, Momoh M, Fullah M, Dudas G, Wohl S, Moses LM, Yozwiak NL, Winnicki S, Matranga CB, Malboeuf CM, Qu J, Gladden AD, Schaffner SF, Yang X, Jiang P-P, Nekoui M, Colubri A, Coomber MR, Fonnie M, Moigboi A, Gbakie M, Kamara FK, Tucker V, Konuwa E, Saffa S, Sellu J, Jalloh AA, Kovoma A, Koninga J, Mustapha I, Kargbo K, Foday M, Yillah M, Kanneh F, Robert W, Massally JLB, Chapman SB, Bochicchio J, Murphy C, Nusbaum C, Young S, Birren BW, Grant DS, Scheiffelin JS, et al. 2014. Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak. Science 345: 1369-1372. http://dx.doi.org/10.1126/science.1259657.
-
(2014)
Science
, vol.345
, pp. 1369-1372
-
-
Gire, S.K.1
Goba, A.2
Andersen, K.G.3
Sealfon, R.S.G.4
Park, D.J.5
Kanneh, L.6
Jalloh, S.7
Momoh, M.8
Fullah, M.9
Dudas, G.10
Wohl, S.11
Moses, L.M.12
Yozwiak, N.L.13
Winnicki, S.14
Matranga, C.B.15
Malboeuf, C.M.16
Qu, J.17
Gladden, A.D.18
Schaffner, S.F.19
Yang, X.20
Jiang, P.-P.21
Nekoui, M.22
Colubri, A.23
Coomber, M.R.24
Fonnie, M.25
Moigboi, A.26
Gbakie, M.27
Kamara, F.K.28
Tucker, V.29
Konuwa, E.30
Saffa, S.31
Sellu, J.32
Jalloh, A.A.33
Kovoma, A.34
Koninga, J.35
Mustapha, I.36
Kargbo, K.37
Foday, M.38
Yillah, M.39
Kanneh, F.40
Robert, W.41
Massally, J.L.B.42
Chapman, S.B.43
Bochicchio, J.44
Murphy, C.45
Nusbaum, C.46
Young, S.47
Birren, B.W.48
Grant, D.S.49
Scheiffelin, J.S.50
more..
-
112
-
-
84891832581
-
International law and the E. coli outbreaks in Europe
-
Fidler D. 2011. International law and the E. coli outbreaks in Europe.Am Soc Int Law Insights 15:1-6. http://www.asil.org/insights/volume/15 /issue/14/international-law-and-e-coli-outbreaks-europe.
-
(2011)
Am Soc Int Law Insights
, vol.15
, pp. 1-6
-
-
Fidler, D.1
-
113
-
-
80955166936
-
German outbreak of Escherichia coli O104:H4 associated with sprouts
-
Buchholz U, Bernard H, Werber D, Böhmer MM, Remschmidt C, Wilking H, Deleré Y, an der Heiden M, Adlhoch C, Dreesman J, Ehlers J, Ethelberg S, Faber M, Frank C, Fricke G, Greiner M, Höhle M, Ivarsson S, Jark U, Kirchner M, Koch J, Krause G, Luber P, Rosner B, Stark K, Kühne M. 2011. German outbreak of Escherichia coli O104:H4 associated with sprouts. N Engl J Med 365:1763-1770. http://dx.doi.org /10.1056/NEJMoa1106482.
-
(2011)
N Engl J Med
, vol.365
, pp. 1763-1770
-
-
Buchholz, U.1
Bernard, H.2
Werber, D.3
Böhmer, M.M.4
Remschmidt, C.5
Wilking, H.6
Deleré, Y.7
an der Heiden, M.8
Adlhoch, C.9
Dreesman, J.10
Ehlers, J.11
Ethelberg, S.12
Faber, M.13
Frank, C.14
Fricke, G.15
Greiner, M.16
Höhle, M.17
Ivarsson, S.18
Jark, U.19
Kirchner, M.20
Koch, J.21
Krause, G.22
Luber, P.23
Rosner, B.24
Stark, K.25
Kühne, M.26
more..
-
116
-
-
79958254856
-
Microbe outbreak panics Europe
-
Turner M. 2011. Microbe outbreak panics Europe. Nature 474:137. http: //dx.doi.org/10.1038/474137a.
-
(2011)
Nature
, vol.474
, pp. 137
-
-
Turner, M.1
-
117
-
-
84904841142
-
Validation of high throughput sequencing and microbial forensics applications
-
Budowle B, Connell ND, Bielecka-Oder A, Colwell RR, Corbett CR, Fletcher J, Forsman M, Kadavy DR, Markotic A, Morse SA, Murch RS, Sajantila A, Schmedes SE, Ternus KL, Turner SD, Minot S. 2014. Validation of high throughput sequencing and microbial forensics applications. Investig Genet 5:9. http://dx.doi.org/10.1186/2041-2223-5-9.
-
(2014)
Investig Genet
, vol.5
, pp. 9
-
-
Budowle, B.1
Connell, N.D.2
Bielecka-Oder, A.3
Colwell, R.R.4
Corbett, C.R.5
Fletcher, J.6
Forsman, M.7
Kadavy, D.R.8
Markotic, A.9
Morse, S.A.10
Murch, R.S.11
Sajantila, A.12
Schmedes, S.E.13
Ternus, K.L.14
Turner, S.D.15
Minot, S.16
-
119
-
-
19144362371
-
Microbial community genomics in the ocean
-
DeLong EF. 2005. Microbial community genomics in the ocean. Nat Rev Microbiol 3:459-469. http://dx.doi.org/10.1038/nrmicro1158.
-
(2005)
Nat Rev Microbiol
, vol.3
, pp. 459-469
-
-
DeLong, E.F.1
-
120
-
-
33947238287
-
The Sorcerer II Global Ocean Sampling expedition: Northwest Atlantic through eastern tropical Pacific
-
Rusch DB, Halpern AL, Sutton G, Heidelberg KB, Williamson S, Yooseph S, Wu D, Eisen JA, Hoffman JM, Remington K, Beeson K, Tran B, Smith H, Baden-Tillson H, Stewart C, Thorpe J, Freeman J, Andrews-Pfannkoch C, Venter JE, Li K, Kravitz S, Heidelberg JF, Utterback T, Rogers Y-H, Falcón LI, Souza V, Bonilla-Rosso G, Eguiarte LE, Karl DM, Sathyendranath S, Platt T, Bermingham E, Gallardo V, Tamayo-Castillo G, Ferrari MR, Strausberg RL, Nealson K, Friedman R, Frazier M, Venter JC. 2007. The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biol 5:e77. http://dx.doi.org /10.1371/journal.pbio.0050077.
-
(2007)
PLoS Biol
, vol.5
-
-
Rusch, D.B.1
Halpern, A.L.2
Sutton, G.3
Heidelberg, K.B.4
Williamson, S.5
Yooseph, S.6
Wu, D.7
Eisen, J.A.8
Hoffman, J.M.9
Remington, K.10
Beeson, K.11
Tran, B.12
Smith, H.13
Baden-Tillson, H.14
Stewart, C.15
Thorpe, J.16
Freeman, J.17
Andrews-Pfannkoch, C.18
Venter, J.E.19
Li, K.20
Kravitz, S.21
Heidelberg, J.F.22
Utterback, T.23
Rogers, Y.-H.24
Falcón, L.I.25
Souza, V.26
Bonilla-Rosso, G.27
Eguiarte, L.E.28
Karl, D.M.29
Sathyendranath, S.30
Platt, T.31
Bermingham, E.32
Gallardo, V.33
Tamayo-Castillo, G.34
Ferrari, M.R.35
Strausberg, R.L.36
Nealson, K.37
Friedman, R.38
Frazier, M.39
Venter, J.C.40
more..
-
121
-
-
84863988682
-
Architectural design influences the diversity and structure of the built environment microbiome
-
Kembel SW, Jones E, Kline J, Northcutt D, Stenson J, Womack AM, Bohannan BJ, Brown GZ, Green JL. 2012. Architectural design influences the diversity and structure of the built environment microbiome. ISME J 6:1469-1479. http://dx.doi.org/10.1038/ismej.2011.211.
-
(2012)
ISME J
, vol.6
, pp. 1469-1479
-
-
Kembel, S.W.1
Jones, E.2
Kline, J.3
Northcutt, D.4
Stenson, J.5
Womack, A.M.6
Bohannan, B.J.7
Brown, G.Z.8
Green, J.L.9
-
122
-
-
84862276328
-
Structure, function and diversity of the healthy human microbiome
-
Human Microbiome Project Consortium. 2012. Structure, function and diversity of the healthy human microbiome. Nature 486:207-214. http://dx.doi.org/10.1038/nature11234.
-
(2012)
Nature
, vol.486
, pp. 207-214
-
-
-
124
-
-
84865767565
-
Inclusion of residual tissue in biobanks: Opt-in or opt-out?
-
Giesbertz NAA, Bredenoord AL, van Delden JJM. 2012. Inclusion of residual tissue in biobanks: opt-in or opt-out? PLoS Biol 10:e1001373. http://dx.doi.org/10.1371/journal.pbio.1001373.
-
(2012)
PLoS Biol
, vol.10
-
-
Giesbertz, N.A.A.1
Bredenoord, A.L.2
van Delden, J.J.M.3
-
126
-
-
84875921666
-
A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4
-
Loman NJ, Constantinidou C, Christner M, Rohde H, Chan J, Quick J, Weir J, Quince C, Smith G, Betley J, Aepfelbacher M, Pallen M. 2013. A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4. JAMA 309:1502-1510. http://dx.doi.org/10.1001/jama.2013 .3231.
-
(2013)
JAMA
, vol.309
, pp. 1502-1510
-
-
Loman, N.J.1
Constantinidou, C.2
Christner, M.3
Rohde, H.4
Chan, J.5
Quick, J.6
Weir, J.7
Quince, C.8
Smith, G.9
Betley, J.10
Aepfelbacher, M.11
Pallen, M.12
-
127
-
-
84888616865
-
Etiology of diarrhea in Bangladeshi infants in the first year of life using molecular methods
-
Taniuchi M, Sobuz SU, Begum S, Platts-Mills JA, Liu J, Yang Z, Wang X-Q, Petri WA, Jr, Haque R, Houpt ER. 2013. Etiology of diarrhea in Bangladeshi infants in the first year of life using molecular methods. J Infect Dis 208:1794-1802. http://dx.doi.org/10.1093/infdis/jit507.
-
(2013)
J Infect Dis
, vol.208
, pp. 1794-1802
-
-
Taniuchi, M.1
Sobuz, S.U.2
Begum, S.3
Platts-Mills, J.A.4
Liu, J.5
Yang, Z.6
Wang, X.-Q.7
Petri, W.A.8
Haque, R.9
Houpt, E.R.10
-
128
-
-
84856891051
-
MRSA infection is associated with increased mortality
-
Otto M. 2012. MRSA infection is associated with increased mortality. Future Microbiol 7:189-191. http://dx.doi.org/10.2217/fmb.11.156.
-
(2012)
Future Microbiol
, vol.7
, pp. 189-191
-
-
Otto, M.1
-
129
-
-
33748681343
-
How long do nosocomial pathogens persist on inanimate surfaces? A systematic review
-
Kramer A, Schwebke I, Kampf G. 2006. How long do nosocomial pathogens persist on inanimate surfaces? A systematic review. BMC Infect Dis 6:130. http://dx.doi.org/10.1186/1471-2334-6-130.
-
(2006)
BMC Infect Dis
, vol.6
, pp. 130
-
-
Kramer, A.1
Schwebke, I.2
Kampf, G.3
-
130
-
-
84930248476
-
-
CDC, Atlanta, GA
-
CDC. 2007. Active Bacterial Core Surveillance (ABCs) report, Emerging Infections Program Network, methicillin-resistant Staphylococcus aureus, 2007. CDC, Atlanta, GA.
-
(2007)
Active Bacterial Core Surveillance (ABCs) report, Emerging Infections Program Network, methicillin-resistant Staphylococcus aureus, 2007.
-
-
-
131
-
-
84872515273
-
Whole-genome sequencing for analysis of an outbreak of meticillin- resistant Staphylococcus aureus: A descriptive study
-
Harris SR, Cartwright EJ, Török ME, Holden MT, Brown NM, Ogilvy- Stuart AL, Ellington MJ, Quail MA, Bentley SD, Parkhill J, Peacock SJ. 2013. Whole-genome sequencing for analysis of an outbreak of meticillin- resistant Staphylococcus aureus: a descriptive study. Lancet Infect Dis 13:130-136. http://dx.doi.org/10.1016/S1473-3099(12)70268-2.
-
(2013)
Lancet Infect Dis
, vol.13
, pp. 130-136
-
-
Harris, S.R.1
Cartwright, E.J.2
Török, M.E.3
Holden, M.T.4
Brown, N.M.5
Ogilvy-Stuart, A.L.6
Ellington, M.J.7
Quail, M.A.8
Bentley, S.D.9
Parkhill, J.10
Peacock, S.J.11
-
132
-
-
78751609559
-
Molecular diversity within clonal complex 22 methicillin- resistant Staphylococcus aureus encoding Panton-Valentine leukocidin in England and Wales
-
Boakes E, Kearns AM, Ganner M, Perry C, Warner M, Hill RL, Ellington MJ. 2011. Molecular diversity within clonal complex 22 methicillin- resistant Staphylococcus aureus encoding Panton-Valentine leukocidin in England and Wales. Clin Microbiol Infect 17:140-145. http: //dx.doi.org/10.1111/j.1469-0691.2010.03199.x.
-
(2011)
Clin Microbiol Infect
, vol.17
, pp. 140-145
-
-
Boakes, E.1
Kearns, A.M.2
Ganner, M.3
Perry, C.4
Warner, M.5
Hill, R.L.6
Ellington, M.J.7
-
134
-
-
0033791727
-
Mechanism of quinolone resistance in Staphylococcus aureus
-
Tanaka M, Wang T, Onodera Y, Uchida Y, Sato K. 2000. Mechanism of quinolone resistance in Staphylococcus aureus. J Infect Chemother 6:131-139. http://dx.doi.org/10.1007/s101560070010.
-
(2000)
J Infect Chemother
, vol.6
, pp. 131-139
-
-
Tanaka, M.1
Wang, T.2
Onodera, Y.3
Uchida, Y.4
Sato, K.5
-
135
-
-
0035137371
-
Differential effect of rpoB mutations on antibacterial activities of rifampicin and KRM-1648 against Staphylococcus aureus
-
Wichelhaus TA, Schäfer V, Brade V, Böddinghaus B. 2001. Differential effect of rpoB mutations on antibacterial activities of rifampicin and KRM-1648 against Staphylococcus aureus. J Antimicrob Chemother 47: 153-156. http://dx.doi.org/10.1093/jac/47.2.153.
-
(2001)
J Antimicrob Chemother
, vol.47
, pp. 153-156
-
-
Wichelhaus, T.A.1
Schäfer, V.2
Brade, V.3
Böddinghaus, B.4
-
136
-
-
84873163965
-
MRSA transmission on a neonatal intensive care unit: Epidemiological and genome-based phylogenetic analyses
-
Nübel U, Nachtnebel M, Falkenhorst G, Benzler J, Hecht J, Kube M, Bröcker F, Moelling K, Bührer C, Gastmeier P, Piening B, Behnke M, Dehnert M, Layer F, Witte W, Eckmanns T. 2013. MRSA transmission on a neonatal intensive care unit: epidemiological and genome-based phylogenetic analyses. PLoS One 8:e54898. http://dx.doi.org/10.1371 /journal.pone.0054898.
-
(2013)
PLoS One
, vol.8
-
-
Nübel, U.1
Nachtnebel, M.2
Falkenhorst, G.3
Benzler, J.4
Hecht, J.5
Kube, M.6
Bröcker, F.7
Moelling, K.8
Bührer, C.9
Gastmeier, P.10
Piening, B.11
Behnke, M.12
Dehnert, M.13
Layer, F.14
Witte, W.15
Eckmanns, T.16
-
137
-
-
79955416536
-
Testing spatiotemporal hypothesis of bacterial evolution using methicillin-resistant Staphylococcus aureus ST239 genome- wide data within a Bayesian framework
-
Gray RR, Tatem AJ, Johnson JA, Alekseyenko AV, Pybus OG, Suchard MA, Salemi M. 2011. Testing spatiotemporal hypothesis of bacterial evolution using methicillin-resistant Staphylococcus aureus ST239 genome- wide data within a Bayesian framework. Mol Biol Evol 28:1593-1603. http://dx.doi.org/10.1093/molbev/msq319.
-
(2011)
Mol Biol Evol
, vol.28
, pp. 1593-1603
-
-
Gray, R.R.1
Tatem, A.J.2
Johnson, J.A.3
Alekseyenko, A.V.4
Pybus, O.G.5
Suchard, M.A.6
Salemi, M.7
-
138
-
-
75649084906
-
Evolution of MRSAduring hospital transmission and intercontinental spread
-
Harris SR, Feil EJ, Holden MTG, Quail MA, Nickerson EK, Chantratita N, Gardete S, Tavares A, Day N, Lindsay JA, Edgeworth JD, de Lencastre H, Parkhill J, Peacock SJ, Bentley SD. 2010. Evolution of MRSAduring hospital transmission and intercontinental spread. Science 327:469-474. http://dx.doi.org/10.1126/science.1182395.
-
(2010)
Science
, vol.327
, pp. 469-474
-
-
Harris, S.R.1
Feil, E.J.2
Holden, M.T.G.3
Quail, M.A.4
Nickerson, E.K.5
Chantratita, N.6
Gardete, S.7
Tavares, A.8
Day, N.9
Lindsay, J.A.10
Edgeworth, J.D.11
de Lencastre, H.12
Parkhill, J.13
Peacock, S.J.14
Bentley, S.D.15
-
139
-
-
33846409899
-
Guidelines for the prevention and management of community-associated methicillin-resistant Staphylococcus aureus: A perspective for Canadian health care practitioners
-
Barton M, Hawkes M, Moore D, Conly J, Nicolle L, Allen U, Boyd N, Embree J, Van Horne L, Le Saux N, Richardson S, Moore A, Tran D, Waters V, Vearncombe M, Katz K, Weese JS, Embil J, Ofner-Agostini M, Ford-Jones EL. 2006. Guidelines for the prevention and management of community-associated methicillin-resistant Staphylococcus aureus: a perspective for Canadian health care practitioners. Can J Infect Dis Med Microbiol 17:4C-24C.
-
(2006)
Can J Infect Dis Med Microbiol
, vol.17
, pp. 4C-24C
-
-
Barton, M.1
Hawkes, M.2
Moore, D.3
Conly, J.4
Nicolle, L.5
Allen, U.6
Boyd, N.7
Embree, J.8
Van Horne, L.9
Le Saux, N.10
Richardson, S.11
Moore, A.12
Tran, D.13
Waters, V.14
Vearncombe, M.15
Katz, K.16
Weese, J.S.17
Embil, J.18
Ofner-Agostini, M.19
Ford-Jones, E.L.20
more..
-
140
-
-
84892566288
-
Asymptomatic Clostridium difficile colonisation and onward transmission
-
Eyre DW, Griffiths D, Vaughan A, Golubchik T, Acharya M, O'Connor L, Crook DW, Walker AS, Peto TEA. 2013. Asymptomatic Clostridium difficile colonisation and onward transmission. PLoS One 8:e78445. http://dx.doi.org/10.1371/journal.pone.0078445.
-
(2013)
PLoS One
, vol.8
-
-
Eyre, D.W.1
Griffiths, D.2
Vaughan, A.3
Golubchik, T.4
Acharya, M.5
O'Connor, L.6
Crook, D.W.7
Walker, A.S.8
Peto, T.E.A.9
-
141
-
-
77249116214
-
SHEA guideline for management of healthcare workers who are infected with hepatitis B virus, hepatitis C virus, and/or human immunodeficiency virus
-
Henderson DK, Dembry L, Fishman NO, Grady C, Lundstrom T, Palmore TN, Sepkowitz KA, Weber DJ. 2010. SHEA guideline for management of healthcare workers who are infected with hepatitis B virus, hepatitis C virus, and/or human immunodeficiency virus. Infect Control Hosp Epidemiol 31:203-232. http://dx.doi.org/10.1086/650298.
-
(2010)
Infect Control Hosp Epidemiol
, vol.31
, pp. 203-232
-
-
Henderson, D.K.1
Dembry, L.2
Fishman, N.O.3
Grady, C.4
Lundstrom, T.5
Palmore, T.N.6
Sepkowitz, K.A.7
Weber, D.J.8
-
142
-
-
84865680485
-
Updated CDC recommendations for the management of hepatitis B virus-infected health-care providers and students
-
Centers for Disease Control and Prevention. 2012. Updated CDC recommendations for the management of hepatitis B virus-infected health-care providers and students.MMWRRecommend Rep 61(RR3): 1-12.
-
(2012)
MMWRRecommend Rep
, vol.61
, Issue.RR3
, pp. 1-12
-
-
-
143
-
-
84872595631
-
Use of whole-genome sequencing for outbreak investigations
-
Diep BA. 2013. Use of whole-genome sequencing for outbreak investigations. Lancet Infect Dis 13:99-101. http://dx.doi.org/10.1016/S1473 -3099(12)70276-1.
-
(2013)
Lancet Infect Dis
, vol.13
, pp. 99-101
-
-
Diep, B.A.1
-
144
-
-
84872513471
-
Wholegenome sequencing to delineate Mycobacterium tuberculosis outbreaks: A retrospective observational study
-
Walker TM, Ip CL, Harrell RH, Evans JT, Kapatai G, Dedicoat MJ, Eyre DW, Wilson DJ, Hawkey PM, Crook DW, Parkhill J, Harris D, Walker AS, Bowden R, Monk P, Smith EG, Peto TE. 2013. Wholegenome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study. Lancet Infect Dis 13:137-146. http: //dx.doi.org/10.1016/S1473-3099(12)70277-3.
-
(2013)
Lancet Infect Dis
, vol.13
, pp. 137-146
-
-
Walker, T.M.1
Ip, C.L.2
Harrell, R.H.3
Evans, J.T.4
Kapatai, G.5
Dedicoat, M.J.6
Eyre, D.W.7
Wilson, D.J.8
Hawkey, P.M.9
Crook, D.W.10
Parkhill, J.11
Harris, D.12
Walker, A.S.13
Bowden, R.14
Monk, P.15
Smith, E.G.16
Peto, T.E.17
-
145
-
-
79951995822
-
Whole-genome sequencing and social-network analysis of a tuberculosis outbreak
-
Gardy JL, Johnston JC, Ho Sui SJ, Cook VJ, Shah L, Brodkin E, Rempel S, Moore R, Zhao Y, Holt R, Varhol R, Birol I, Lem M, Sharma MK, Elwood K, Jones SJM, Brinkman FSL, Brunham RC, Tang P. 2011. Whole-genome sequencing and social-network analysis of a tuberculosis outbreak.NEngl J Med 364:730-739. http://dx.doi.org/10 .1056/NEJMoa1003176.
-
(2011)
NEngl J Med
, vol.364
, pp. 730-739
-
-
Gardy, J.L.1
Johnston, J.C.2
Ho Sui, S.J.3
Cook, V.J.4
Shah, L.5
Brodkin, E.6
Rempel, S.7
Moore, R.8
Zhao, Y.9
Holt, R.10
Varhol, R.11
Birol, I.12
Lem, M.13
Sharma, M.K.14
Elwood, K.15
Jones, S.J.M.16
Brinkman, F.S.L.17
Brunham, R.C.18
Tang, P.19
-
147
-
-
79952337110
-
Tuberculosis outbreak investigations in the United States, 2002-2008
-
Mitruka K, Oeltmann JE, Ijaz K, Haddad MB. 2011. Tuberculosis outbreak investigations in the United States, 2002-2008. Emerg Infect Dis 17:425-431. http://dx.doi.org/10.3201/eid1703.101550.
-
(2011)
Emerg Infect Dis
, vol.17
, pp. 425-431
-
-
Mitruka, K.1
Oeltmann, J.E.2
Ijaz, K.3
Haddad, M.B.4
-
148
-
-
0345782283
-
A network-informed approach to investigating a tuberculosis outbreak: Implications for enhancing contact investigations
-
McElroy PD, Rothenberg RB, Varghese R, Woodruff R, Minns GO, Muth SQ, Lambert LA, Ridzon R. 2003. A network-informed approach to investigating a tuberculosis outbreak: implications for enhancing contact investigations. Int J Tuberc Lung Dis 7:S486-S493.
-
(2003)
Int J Tuberc Lung Dis
, vol.7
, pp. S486-S493
-
-
McElroy, P.D.1
Rothenberg, R.B.2
Varghese, R.3
Woodruff, R.4
Minns, G.O.5
Muth, S.Q.6
Lambert, L.A.7
Ridzon, R.8
-
149
-
-
77954761323
-
The 2009 A (H1N1) influenza virus pandemic: A review
-
Girard MP, Tam JS, Assossou OM, Kieny MP. 2010. The 2009 A (H1N1) influenza virus pandemic: a review. Vaccine 28:4895-4902. http://dx.doi.org/10.1016/j.vaccine.2010.05.031.
-
(2010)
Vaccine
, vol.28
, pp. 4895-4902
-
-
Girard, M.P.1
Tam, J.S.2
Assossou, O.M.3
Kieny, M.P.4
-
150
-
-
84870279179
-
Prediction and prevention of the next pandemic zoonosis
-
Morse SS, Mazet JAK, Woolhouse M, Parrish CR, Carroll D, Karesh WB, Zambrana-Torrelio C, Lipkin WI, Daszak P. 2012. Prediction and prevention of the next pandemic zoonosis. Lancet 380:1956-1965. http: //dx.doi.org/10.1016/S0140-6736(12)61684-5.
-
(2012)
Lancet
, vol.380
, pp. 1956-1965
-
-
Morse, S.S.1
Mazet, J.A.K.2
Woolhouse, M.3
Parrish, C.R.4
Carroll, D.5
Karesh, W.B.6
Zambrana-Torrelio, C.7
Lipkin, W.I.8
Daszak, P.9
-
152
-
-
84871415482
-
Genomic characterization of a newly discovered coronavirus associated with acute respiratory distress syndrome in humans
-
Van Boheemen S, de Graaf M, Lauber C, Bestebroer TM, Raj VS, Zaki AM, Osterhaus ADME, Haagmans BL, Gorbalenya AE, Snijder EJ, Fouchier RAM. 2012. Genomic characterization of a newly discovered coronavirus associated with acute respiratory distress syndrome in humans. mBio 3(6):e00473-12. http://dx.doi.org/10.1128/mBio.00473-12.
-
(2012)
mBio
, vol.3
, Issue.6
, pp. e00473-e00512
-
-
Van Boheemen, S.1
de Graaf, M.2
Lauber, C.3
Bestebroer, T.M.4
Raj, V.S.5
Zaki, A.M.6
Osterhaus, A.D.M.E.7
Haagmans, B.L.8
Gorbalenya, A.E.9
Snijder, E.J.10
Fouchier, R.A.M.11
-
153
-
-
84869081784
-
Is the discovery of the novel human betacoronavirus 2c EMC/2012 (HCoV-EMC) the beginning of another SARS-like pandemic?
-
Chan JFW, Li KSM, To KKW, Cheng VCC, Chen H, Yuen K-Y. 2012. Is the discovery of the novel human betacoronavirus 2c EMC/2012 (HCoV-EMC) the beginning of another SARS-like pandemic? J Infect 65:477-489. http://dx.doi.org/10.1016/j.jinf.2012.10.002.
-
(2012)
J Infect
, vol.65
, pp. 477-489
-
-
Chan, J.F.W.1
Li, K.S.M.2
To, K.K.W.3
Cheng, V.C.C.4
Chen, H.5
Yuen, K.-Y.6
-
156
-
-
84874258234
-
Emergence and spread of extensively and totally drug-resistant tuberculosis, South Africa
-
Klopper M, Warren RM, Hayes C, Gey van Pittius NC, Streicher EM, Müller B, Sirgel FA, Chabula-Nxiweni M, Hoosain E, Coetzee G, van Helden PD, Victor TC, Trollip AP. 2013. Emergence and spread of extensively and totally drug-resistant tuberculosis, South Africa. Emerg Infect Dis 19:449-455. http://dx.doi.org/10.3201/eid1903.120246.
-
(2013)
Emerg Infect Dis
, vol.19
, pp. 449-455
-
-
Klopper, M.1
Warren, R.M.2
Hayes, C.3
van Gey Pittius, N.C.4
Streicher, E.M.5
Müller, B.6
Sirgel, F.A.7
Chabula-Nxiweni, M.8
Hoosain, E.9
Coetzee, G.10
van Helden, P.D.11
Victor, T.C.12
Trollip, A.P.13
-
157
-
-
84866156985
-
Risk assessment of airborne infectious diseases in aircraft cabins
-
Gupta JK, Lin C-H, Chen Q. 2012. Risk assessment of airborne infectious diseases in aircraft cabins. Indoor Air 22:388-395. http://dx.doi.org /10.1111/j.1600-0668.2012.00773.x.
-
(2012)
Indoor Air
, vol.22
, pp. 388-395
-
-
Gupta, J.K.1
Lin, C.-H.2
Chen, Q.3
-
158
-
-
45249111605
-
Tuberculosis and air travel:WHOguidance in the era of drug-resistant TB
-
Martinez L, Blanc L, Nunn P, Raviglione M. 2008. Tuberculosis and air travel:WHOguidance in the era of drug-resistant TB. Travel Med Infect Dis 6:177-181. http://dx.doi.org/10.1016/j.tmaid.2007.10.004.
-
(2008)
Travel Med Infect Dis
, vol.6
, pp. 177-181
-
-
Martinez, L.1
Blanc, L.2
Nunn, P.3
Raviglione, M.4
-
159
-
-
84988590631
-
Control of extensively drug-resistant tuberculosis (XDR-TB): A root cause analysis
-
Ruger JP. 2010. Control of extensively drug-resistant tuberculosis (XDR-TB): a root cause analysis. Glob Heal Gov 3:1-20.
-
(2010)
Glob Heal Gov
, vol.3
, pp. 1-20
-
-
Ruger, J.P.1
-
160
-
-
84859545563
-
Microevolution of extensively drug-resistant tuberculosis in Russia
-
Casali N, Nikolayevskyy V, Balabanova Y, Ignatyeva O, Kontsevaya I, Harris SR, Bentley SD, Parkhill J, Nejentsev S, Hoffner SE, Horstmann RD, Brown T, Drobniewski F. 2012. Microevolution of extensively drug-resistant tuberculosis in Russia. Genome Res 22:735-745. http://dx .doi.org/10.1101/gr.128678.111.
-
(2012)
Genome Res
, vol.22
, pp. 735-745
-
-
Casali, N.1
Nikolayevskyy, V.2
Balabanova, Y.3
Ignatyeva, O.4
Kontsevaya, I.5
Harris, S.R.6
Bentley, S.D.7
Parkhill, J.8
Nejentsev, S.9
Hoffner, S.E.10
Horstmann, R.D.11
Brown, T.12
Drobniewski, F.13
-
161
-
-
57749117452
-
Tuberculosis and illicit drug use: Review and update
-
Deiss RG, Rodwell TC, Garfein RS. 2009. Tuberculosis and illicit drug use: review and update. Clin Infect Dis 48:72-82. http://dx.doi.org/10 .1086/594126.
-
(2009)
Clin Infect Dis
, vol.48
, pp. 72-82
-
-
Deiss, R.G.1
Rodwell, T.C.2
Garfein, R.S.3
-
162
-
-
84874469388
-
Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: A longitudinal molecular epidemiological study
-
Roetzer A, Diel R, Kohl TA, Rückert C, Nübel U, Blom J, Wirth T, Jaenicke S, Schuback S, Rüsch-Gerdes S, Supply P, Kalinowski J, Niemann S. 2013. Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study. PLoS Med 10:e1001387. http://dx.doi.org/10.1371/journal.pmed.1001387.
-
(2013)
PLoS Med
, vol.10
-
-
Roetzer, A.1
Diel, R.2
Kohl, T.A.3
Rückert, C.4
Nübel, U.5
Blom, J.6
Wirth, T.7
Jaenicke, S.8
Schuback, S.9
Rüsch-Gerdes, S.10
Supply, P.11
Kalinowski, J.12
Niemann, S.13
-
164
-
-
0037439496
-
Tuberculosis drug resistance: A global threat
-
Nachega JB, Chaisson RE. 2003. Tuberculosis drug resistance: a global threat. Clin Infect Dis 36:S24 -S30. http://dx.doi.org/10.1086/344657.
-
(2003)
Clin Infect Dis
, vol.36
, pp. S24-S30
-
-
Nachega, J.B.1
Chaisson, R.E.2
-
165
-
-
84869218774
-
Nextgeneration Ion Torrent sequencing of drug resistance mutations in Mycobacterium tuberculosis strains
-
Daum LT, Rodriguez JD, Worthy SA, Ismail NA, Omar SV, Dreyer AW, Fourie PB, Hoosen AA, Chambers JP, Fischer GW. 2012. Nextgeneration Ion Torrent sequencing of drug resistance mutations in Mycobacterium tuberculosis strains. J Clin Microbiol 50:3831-3837. http: //dx.doi.org/10.1128/JCM.01893-12.
-
(2012)
J Clin Microbiol
, vol.50
, pp. 3831-3837
-
-
Daum, L.T.1
Rodriguez, J.D.2
Worthy, S.A.3
Ismail, N.A.4
Omar, S.V.5
Dreyer, A.W.6
Fourie, P.B.7
Hoosen, A.A.8
Chambers, J.P.9
Fischer, G.W.10
-
166
-
-
84868681893
-
Using routinely reported tuberculosis genotyping and surveillance data to predict tuberculosis outbreaks
-
Althomsons SP, Kammerer JS, Shang N, Navin TR. 2012. Using routinely reported tuberculosis genotyping and surveillance data to predict tuberculosis outbreaks. PLoS One 7:e48754. http://dx.doi.org/10.1371 /journal.pone.0048754.
-
(2012)
PLoS One
, vol.7
-
-
Althomsons, S.P.1
Kammerer, J.S.2
Shang, N.3
Navin, T.R.4
-
168
-
-
80155180010
-
Outbreak of tuberculosis among Guatemalan immigrants in rural Minnesota
-
Lowther SA, Miramontes R, Navara B, Sabuwala N, Brueshaber M, Solarz S, Haddad MB, Sodt D, Lynfield R. 2008. Outbreak of tuberculosis among Guatemalan immigrants in rural Minnesota. Public Health Rep 126:726-732.
-
(2008)
Public Health Rep
, vol.126
, pp. 726-732
-
-
Lowther, S.A.1
Miramontes, R.2
Navara, B.3
Sabuwala, N.4
Brueshaber, M.5
Solarz, S.6
Haddad, M.B.7
Sodt, D.8
Lynfield, R.9
-
169
-
-
58149174244
-
High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography
-
Hershberg R, Lipatov M, Small PM, Sheffer H, Niemann S, Homolka S, Roach JC, Kremer K, Petrov DA, Feldman MW, Gagneux S. 2008. High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography. PLoS Biol 6:e311. http://dx.doi.org/10 .1371/journal.pbio.0060311.
-
(2008)
PLoS Biol
, vol.6
-
-
Hershberg, R.1
Lipatov, M.2
Small, P.M.3
Sheffer, H.4
Niemann, S.5
Homolka, S.6
Roach, J.C.7
Kremer, K.8
Petrov, D.A.9
Feldman, M.W.10
Gagneux, S.11
-
170
-
-
0033598717
-
Mutation rates among RNA viruses
-
Drake JW, Holland JJ. 1999. Mutation rates among RNA viruses. Proc Natl Acad Sci U S A 96:13910-13913. http://dx.doi.org/10.1073/pnas.96 .24.13910.
-
(1999)
Proc Natl Acad Sci U S A
, vol.96
, pp. 13910-13913
-
-
Drake, J.W.1
Holland, J.J.2
-
171
-
-
0034630910
-
Viruses at the edge of adaptation
-
Domingo E. 2000. Viruses at the edge of adaptation. Virology 270:251-253. http://dx.doi.org/10.1006/viro.2000.0320.
-
(2000)
Virology
, vol.270
, pp. 251-253
-
-
Domingo, E.1
-
172
-
-
78650746800
-
Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences
-
Scaduto DI, Brown JM, Haaland WC, Zwickl DJ, Hillis DM, Metzker ML. 2010. Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences. Proc Natl Acad Sci U S A 107:21242-21247. http://dx.doi.org/10.1073/pnas.1015673107.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 21242-21247
-
-
Scaduto, D.I.1
Brown, J.M.2
Haaland, W.C.3
Zwickl, D.J.4
Hillis, D.M.5
Metzker, M.L.6
-
173
-
-
22044458575
-
Monocyte Toll-like receptor 4 expression and LPS-induced cytokine production increase during gestational aging
-
Förster-Waldl E, Sadeghi K, Tamandl D, Gerhold B, Hallwirth U, Rohrmeister K, Hayde M, Prusa AR, Herkner K, Boltz-Nitulescu G, Pollak A, Spittler A. 2005. Monocyte Toll-like receptor 4 expression and LPS-induced cytokine production increase during gestational aging. Pediatr Res 58:121-124. http://dx.doi.org/10.1203/01.PDR.0000163397 .53466.0F.
-
(2005)
Pediatr Res
, vol.58
, pp. 121-124
-
-
Förster-Waldl, E.1
Sadeghi, K.2
Tamandl, D.3
Gerhold, B.4
Hallwirth, U.5
Rohrmeister, K.6
Hayde, M.7
Prusa, A.R.8
Herkner, K.9
Boltz-Nitulescu, G.10
Pollak, A.11
Spittler, A.12
-
174
-
-
84899973386
-
Community case clusters of Middle East respiratory syndrome coronavirus in Hafr Al-Batin, Kingdom of Saudi Arabia: A descriptive genomic study
-
Memish ZA, Cotten M, Watson SJ, Kellam P, Zumla A, Alhakeem RF, Assiri A, Rabeeah AA, Al-Tawfiq JA. 2014. Community case clusters of Middle East respiratory syndrome coronavirus in Hafr Al-Batin, Kingdom of Saudi Arabia: a descriptive genomic study. Int J Infect Dis 23:63-68. http://dx.doi.org/10.1016/j.ijid.2014.03.1372.
-
(2014)
Int J Infect Dis
, vol.23
, pp. 63-68
-
-
Memish, Z.A.1
Cotten, M.2
Watson, S.J.3
Kellam, P.4
Zumla, A.5
Alhakeem, R.F.6
Assiri, A.7
Rabeeah, A.A.8
Al-Tawfiq, J.A.9
-
175
-
-
84907518965
-
The early spread and epidemic ignition of HIV-1 in human populations
-
Faria NR, Rambaut A, Suchard MA, Baele G, Bedford T, Ward MJ, Tatem AJ, Sousa JD, Arinaminpathy N, Pepin J, Posada D, Peeters M, Pybus OG, Lemey P. 2014. The early spread and epidemic ignition of HIV-1 in human populations. Science 346:56-61. http://dx.doi.org/10 .1126/science.1256739.
-
(2014)
Science
, vol.346
, pp. 56-61
-
-
Faria, N.R.1
Rambaut, A.2
Suchard, M.A.3
Baele, G.4
Bedford, T.5
Ward, M.J.6
Tatem, A.J.7
Sousa, J.D.8
Arinaminpathy, N.9
Pepin, J.10
Posada, D.11
Peeters, M.12
Pybus, O.G.13
Lemey, P.14
-
177
-
-
0035922057
-
The generation and persistence of genetic variation in foot-and-mouth disease virus
-
Haydon DT, Samuel AR, Knowles NJ. 2001. The generation and persistence of genetic variation in foot-and-mouth disease virus. Prev Vet Med 51:111-124. http://dx.doi.org/10.1016/S0167-5877(01)00210-0.
-
(2001)
Prev Vet Med
, vol.51
, pp. 111-124
-
-
Haydon, D.T.1
Samuel, A.R.2
Knowles, N.J.3
-
178
-
-
84870665545
-
A Bayesian inference framework to reconstruct transmission trees using epidemiological and genetic data
-
Morelli MJ, Thébaud G, Chadoeuf J, King DP, Haydon DT, Soubeyrand S. 2012. A Bayesian inference framework to reconstruct transmission trees using epidemiological and genetic data. PLoS Comput Biol 8:e1002768. http://dx.doi.org/10.1371/journal.pcbi.1002768.
-
(2012)
PLoS Comput Biol
, vol.8
-
-
Morelli, M.J.1
Thébaud, G.2
Chadoeuf, J.3
King, D.P.4
Haydon, D.T.5
Soubeyrand, S.6
-
179
-
-
0012534354
-
Comparisons of the complete genomes of Asian, African and European isolates of a recent foot-and-mouth disease virus type O pandemic strain (PanAsia)
-
Mason PW, Pacheco JM, Zhao Q-Z, Knowles NJ. 2003. Comparisons of the complete genomes of Asian, African and European isolates of a recent foot-and-mouth disease virus type O pandemic strain (PanAsia). J Gen Virol 84:1583-1593. http://dx.doi.org/10.1099/vir.0.18669-0.
-
(2003)
J Gen Virol
, vol.84
, pp. 1583-1593
-
-
Mason, P.W.1
Pacheco, J.M.2
Zhao, Q.-Z.3
Knowles, N.J.4
-
180
-
-
46249087034
-
Comparative genomics of serotype Asia 1 foot-and-mouth disease virus isolates from India sampled over the last two decades
-
Mohapatra JK, Sanyal A, Hemadri D, Tosh C, Biswas S, Knowles NJ, Rasool TJ, Bandyopadhyay SK, Pattnaik B. 2008. Comparative genomics of serotype Asia 1 foot-and-mouth disease virus isolates from India sampled over the last two decades. Virus Res 136:16-29. http://dx.doi .org/10.1016/j.virusres.2008.04.010.
-
(2008)
Virus Res
, vol.136
, pp. 16-29
-
-
Mohapatra, J.K.1
Sanyal, A.2
Hemadri, D.3
Tosh, C.4
Biswas, S.5
Knowles, N.J.6
Rasool, T.J.7
Bandyopadhyay, S.K.8
Pattnaik, B.9
-
181
-
-
18144374835
-
Comparative genomics of foot-and-mouth disease virus
-
Carrillo C, Tulman ER, Delhon G, Lu Z, Carreno A, Vagnozzi A, Kutish GF, Rock DL. 2005. Comparative genomics of foot-and-mouth disease virus. J Virol 79:6487-6504. http://dx.doi.org/10.1128/JVI.79.10 .6487-6504.2005.
-
(2005)
J Virol
, vol.79
, pp. 6487-6504
-
-
Carrillo, C.1
Tulman, E.R.2
Delhon, G.3
Lu, Z.4
Carreno, A.5
Vagnozzi, A.6
Kutish, G.F.7
Rock, D.L.8
-
182
-
-
79551513564
-
Rescue of footand- mouth disease viruses that are pathogenic for cattle from preserved viral RNA samples
-
Belsham GJ, Jamal SM, Tjørnehøj K, Bøtner A. 2011. Rescue of footand- mouth disease viruses that are pathogenic for cattle from preserved viral RNA samples. PLoS One 6:e14621. http://dx.doi.org/10.1371 /journal.pone.0014621.
-
(2011)
PLoS One
, vol.6
-
-
Belsham, G.J.1
Jamal, S.M.2
Tjørnehøj, K.3
Bøtner, A.4
-
183
-
-
33750735091
-
Molecular epidemiology of the foot-and-mouth disease virus outbreak in the United Kingdom in 2001
-
Cottam EM, Haydon DT, Paton DJ, Gloster J, Wilesmith JW, Ferris NP, Hutchings GH, King DP. 2006. Molecular epidemiology of the foot-and-mouth disease virus outbreak in the United Kingdom in 2001. J Virol 80:11274-11282. http://dx.doi.org/10.1128/JVI.01236-06.
-
(2006)
J Virol
, vol.80
, pp. 11274-11282
-
-
Cottam, E.M.1
Haydon, D.T.2
Paton, D.J.3
Gloster, J.4
Wilesmith, J.W.5
Ferris, N.P.6
Hutchings, G.H.7
King, D.P.8
-
184
-
-
43049110625
-
Transmission pathways of foot-and-mouth disease virus in the United Kingdom in 2007
-
Cottam EM, Wadsworth J, Shaw AE, Rowlands RJ, Goatley L, Maan S, Maan NS, Mertens PPC, Ebert K, Li Y, Ryan ED, Juleff N, Ferris NP, Wilesmith JW, Haydon DT, King DP, Paton DJ, Knowles NJ. 2008. Transmission pathways of foot-and-mouth disease virus in the United Kingdom in 2007. PLoS Pathog 4:e1000050. http://dx.doi.org/10.1371 /journal.ppat.1000050.
-
(2008)
PLoS Pathog
, vol.4
-
-
Cottam, E.M.1
Wadsworth, J.2
Shaw, A.E.3
Rowlands, R.J.4
Goatley, L.5
Maan, S.6
Maan, N.S.7
Mertens, P.P.C.8
Ebert, K.9
Li, Y.10
Ryan, E.D.11
Juleff, N.12
Ferris, N.P.13
Wilesmith, J.W.14
Haydon, D.T.15
King, D.P.16
Paton, D.J.17
Knowles, N.J.18
-
185
-
-
79953199052
-
How does cellular heparan sulfate function in viral pathogenicity?
-
Zhu W, Li J, Liang G. 2011. How does cellular heparan sulfate function in viral pathogenicity? Biomed Environ Sci 24:81-87. http://dx.doi.org /10.3967/0895-3988.2011.01.011.
-
(2011)
Biomed Environ Sci
, vol.24
, pp. 81-87
-
-
Zhu, W.1
Li, J.2
Liang, G.3
-
187
-
-
84870652831
-
Reconstruction of the transmission history of RNA virus outbreaks using full genome sequences: Foot-and-mouth disease virus in Bulgaria in 2011
-
Valdazo-González B, Polihronova L, Alexandrov T, Normann P, Knowles NJ, Hammond JM, Georgiev GK, Ozyörük F, Sumption KJ, Belsham GJ, King DP. 2012. Reconstruction of the transmission history of RNA virus outbreaks using full genome sequences: foot-and-mouth disease virus in Bulgaria in 2011. PLoS One 7:e49650. http://dx.doi.org /10.1371/journal.pone.0049650.
-
(2012)
PLoS One
, vol.7
-
-
Valdazo-González, B.1
Polihronova, L.2
Alexandrov, T.3
Normann, P.4
Knowles, N.J.5
Hammond, J.M.6
Georgiev, G.K.7
Ozyörük, F.8
Sumption, K.J.9
Belsham, G.J.10
King, D.P.11
-
188
-
-
84874034668
-
Efficient depletion of host DNA contamination in malaria clinical sequencing
-
Oyola SO, Gu Y, Manske M, Otto TD, O'Brien J, Alcock D, Macinnis B, Berriman M, Newbold CI, Kwiatkowski DP, Swerdlow HP, Quail MA. 2013. Efficient depletion of host DNA contamination in malaria clinical sequencing. J Clin Microbiol 51:745-751. http://dx.doi.org/10 .1128/JCM.02507-12.
-
(2013)
J Clin Microbiol
, vol.51
, pp. 745-751
-
-
Oyola, S.O.1
Gu, Y.2
Manske, M.3
Otto, T.D.4
O'Brien, J.5
Alcock, D.6
McInnis, B.7
Berriman, M.8
Newbold, C.I.9
Kwiatkowski, D.P.10
Swerdlow, H.P.11
Quail, M.A.12
-
189
-
-
66449121652
-
Finding the fifth base: Genome-wide sequencing of cytosine methylation
-
Lister R, Ecker JR. 2009. Finding the fifth base: genome-wide sequencing of cytosine methylation. Genome Res 19:959-966. http://dx.doi.org /10.1101/gr.083451.108.
-
(2009)
Genome Res
, vol.19
, pp. 959-966
-
-
Lister, R.1
Ecker, J.R.2
-
190
-
-
0035169663
-
Methyl-CpG-binding proteins. Targeting specific gene repression
-
Ballestar E, Wolffe AP. 2001. Methyl-CpG-binding proteins. Targeting specific gene repression. Eur J Biochem 268:1-6. http://dx.doi.org/10 .1046/j.1432-1327.2001.01869.x.
-
(2001)
Eur J Biochem
, vol.268
, pp. 1-6
-
-
Ballestar, E.1
Wolffe, A.P.2
-
191
-
-
33745127708
-
Fluorescence in situ hybridization-flow cytometry- cell sorting-based method for separation and enrichment of type I and type II methanotroph populations
-
Kalyuzhnaya MG, Zabinsky R, Bowerman S, Baker DR, Lidstrom ME, Chistoserdova L. 2006. Fluorescence in situ hybridization-flow cytometry- cell sorting-based method for separation and enrichment of type I and type II methanotroph populations. Appl Environ Microbiol 72: 4293-4301. http://dx.doi.org/10.1128/AEM.00161-06.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 4293-4301
-
-
Kalyuzhnaya, M.G.1
Zabinsky, R.2
Bowerman, S.3
Baker, D.R.4
Lidstrom, M.E.5
Chistoserdova, L.6
-
192
-
-
84879202945
-
Lifestyle-associated risk factors for community-acquired methicillin-resistant Staphylococcus aureus carriage in the Netherlands: An exploratory hospital-based case-control study
-
Van Rijen MML, Kluytmans-van den Bergh MFQ, Verkade EJM, Ten Ham PBG, Feingold BJ, Kluytmans JAJW. 2013. Lifestyle-associated risk factors for community-acquired methicillin-resistant Staphylococcus aureus carriage in the Netherlands: an exploratory hospital-based case-control study. PLoS One 8:e65594. http://dx.doi.org/10.1371 /journal.pone.0065594.
-
(2013)
PLoS One
, vol.8
-
-
Van Rijen, M.M.L.1
Kluytmans-Van den Bergh, M.F.Q.2
Verkade, E.J.M.3
Ten Ham, P.B.G.4
Feingold, B.J.5
Kluytmans, J.A.J.W.6
-
193
-
-
84918507089
-
The impact of genomics on population genetics of parasitic diseases
-
Hupalo DN, Bradic M, Carlton JM. 2015. The impact of genomics on population genetics of parasitic diseases. Curr Opin Microbiol 23C:49-54. http://dx.doi.org/10.1016/j.mib.2014.11.001.
-
(2015)
Curr Opin Microbiol
, vol.23 C
, pp. 49-54
-
-
Hupalo, D.N.1
Bradic, M.2
Carlton, J.M.3
-
194
-
-
84883754411
-
After the gold rush
-
Hall N. 2013. After the gold rush. Genome Biol 14:115. http://dx.doi.org /10.1186/gb-2013-14-5-115.
-
(2013)
Genome Biol
, vol.14
, pp. 115
-
-
Hall, N.1
-
195
-
-
84859643160
-
Oxford Nanopore announcement sets sequencing sector abuzz
-
Eisenstein M. 2012. Oxford Nanopore announcement sets sequencing sector abuzz. Nat Biotechnol 30:295-296. http://dx.doi.org/10.1038 /nbt0412-295.
-
(2012)
Nat Biotechnol
, vol.30
, pp. 295-296
-
-
Eisenstein, M.1
-
197
-
-
84855236444
-
South Asia instead of Nepal may be the origin of the Haitian cholera outbreak strain
-
Reply to (Reply.)
-
Keim PS, Aarestrup FM, Shakya G, Price LB, Hendriksen RS, Engelthaler DM, Pearson T. 2011. Reply to "South Asia instead of Nepal may be the origin of the Haitian cholera outbreak strain." mBio 2(6): e00245-11. (Reply.) http://dx.doi.org/10.1128/mBio.00245-11.
-
(2011)
mBio
, vol.2
, Issue.6
, pp. e00245-e00311
-
-
Keim, P.S.1
Aarestrup, F.M.2
Shakya, G.3
Price, L.B.4
Hendriksen, R.S.5
Engelthaler, D.M.6
Pearson, T.7
-
198
-
-
80455132338
-
South Asia instead of Nepal may be the origin of the Haitian cholera outbreak strains
-
Pun SB. 2011. South Asia instead of Nepal may be the origin of the Haitian cholera outbreak strains. mBio 2(5):e00219-11. http://dx.doi.org /10.1128/mBio.00219-11.
-
(2011)
mBio
, vol.2
, Issue.5
, pp. e00219-e00311
-
-
Pun, S.B.1
-
199
-
-
84930485738
-
Comparative genomics of Vibrio cholerae from Haiti, Asia, and Africa
-
Reimer AR, Van Domselaar G, Stroika S, Walker M, Kent H, Tarr C, Talkington D, Rowe L, Olsen-Rasmussen M, Frace M, Sammons S, Dahourou GA, Boncy J, Smith AM, Mabon P, Petkau A, Graham M, Gilmour MW, Gerner-Smidt P. 2011. Comparative genomics of Vibrio cholerae from Haiti, Asia, and Africa. Emerg Infect Dis 17:2113-2121. http://dx.doi.org/10.3201/eid1711.110794.
-
(2011)
Emerg Infect Dis
, vol.17
, pp. 2113-2121
-
-
Reimer, A.R.1
Van Domselaar, G.2
Stroika, S.3
Walker, M.4
Kent, H.5
Tarr, C.6
Talkington, D.7
Rowe, L.8
Olsen-Rasmussen, M.9
Frace, M.10
Sammons, S.11
Dahourou, G.A.12
Boncy, J.13
Smith, A.M.14
Mabon, P.15
Petkau, A.16
Graham, M.17
Gilmour, M.W.18
Gerner-Smidt, P.19
-
200
-
-
78650854393
-
The origin of the Haitian cholera outbreak strain
-
Chin C-S, Sorenson J, Harris JB, Robins WP, Charles RC, Jean- Charles RR, Bullard J, Webster DR, Kasarskis A, Peluso P, Paxinos EE, Yamaichi Y, Calderwood SB, Mekalanos JJ, Schadt EE, Waldor MK. 2011. The origin of the Haitian cholera outbreak strain. N Engl J Med 364:33-42. http://dx.doi.org/10.1056/NEJMoa1012928.
-
(2011)
N Engl J Med
, vol.364
, pp. 33-42
-
-
Chin, C.-S.1
Sorenson, J.2
Harris, J.B.3
Robins, W.P.4
Charles, R.C.5
Jean-Charles, R.R.6
Bullard, J.7
Webster, D.R.8
Kasarskis, A.9
Peluso, P.10
Paxinos, E.E.11
Yamaichi, Y.12
Calderwood, S.B.13
Mekalanos, J.J.14
Schadt, E.E.15
Waldor, M.K.16
-
201
-
-
80052597651
-
Population genetics of Vibrio cholerae from Nepal in 2010: Evidence on the origin of the Haitian outbreak
-
Hendriksen RS, Price LB, Schupp JM, Gillece JD, Kaas RS, Engelthaler DM, Bortolaia V, Pearson T, Waters AE, Upadhyay BP, Shrestha SD, Adhikari S, Shakya G, Keim PS, Aarestrup FM. 2011. Population genetics of Vibrio cholerae from Nepal in 2010: evidence on the origin of the Haitian outbreak. mBio 2(4):e00157-11. http://dx.doi.org/10.1128 /mBio.00157-11.
-
(2011)
mBio
, vol.2
, Issue.4
, pp. e00157-e00211
-
-
Hendriksen, R.S.1
Price, L.B.2
Schupp, J.M.3
Gillece, J.D.4
Kaas, R.S.5
Engelthaler, D.M.6
Bortolaia, V.7
Pearson, T.8
Waters, A.E.9
Upadhyay, B.P.10
Shrestha, S.D.11
Adhikari, S.12
Shakya, G.13
Keim, P.S.14
Aarestrup, F.M.15
-
202
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. J Mol Biol 215:403-410. http://dx.doi.org/10 .1016/S0022-2836(05)80360-2.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
203
-
-
84864440400
-
Metagenomic microbial community profiling using unique clade-specific marker genes
-
Segata N, Waldron L, Ballarini A, Narasimhan V, Jousson O, Huttenhower C. 2012. Metagenomic microbial community profiling using unique clade-specific marker genes. Nat Methods 9:811-814. http://dx .doi.org/10.1038/nmeth.2066.
-
(2012)
Nat Methods
, vol.9
, pp. 811-814
-
-
Segata, N.1
Waldron, L.2
Ballarini, A.3
Narasimhan, V.4
Jousson, O.5
Huttenhower, C.6
-
204
-
-
79960869431
-
Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences
-
Liu B, Gibbons T, Ghodsi M, Treangen T, Pop M. 2011. Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences. BMC Genomics 12(Suppl 2):S4. http://dx.doi.org/10.1186 /1471-2164-12-S2-S4.
-
(2011)
BMC Genomics
, vol.12
-
-
Liu, B.1
Gibbons, T.2
Ghodsi, M.3
Treangen, T.4
Pop, M.5
-
205
-
-
84865161908
-
Genometa-a fast and accurate classifier for short metagenomic shotgun reads
-
Davenport CF, Neugebauer J, Beckmann N, Friedrich B, Kameri B, Kokott S, Paetow M, Siekmann B, Wieding-Drewes M, Wienhöfer M, Wolf S, Tümmler B, Ahlers V, Sprengel F. 2012. Genometa-a fast and accurate classifier for short metagenomic shotgun reads. PLoS One 7:e41224. http://dx.doi.org/10.1371/journal.pone.0041224.
-
(2012)
PLoS One
, vol.7
-
-
Davenport, C.F.1
Neugebauer, J.2
Beckmann, N.3
Friedrich, B.4
Kameri, B.5
Kokott, S.6
Paetow, M.7
Siekmann, B.8
Wieding-Drewes, M.9
Wienhöfer, M.10
Wolf, S.11
Tümmler, B.12
Ahlers, V.13
Sprengel, F.14
-
206
-
-
84866148001
-
Routine use of microbial whole genome sequencing in diagnostic and public health microbiology
-
Köser C, Ellington M, Cartwright E. 2012. Routine use of microbial whole genome sequencing in diagnostic and public health microbiology. PLoS Pathog 8:e1002824. http://dx.doi.org/10.1371/journal.ppat.1002824.
-
(2012)
PLoS Pathog
, vol.8
-
-
Köser, C.1
Ellington, M.2
Cartwright, E.3
-
207
-
-
79251538660
-
Rapid and highly efficient method for scarless mutagenesis within the Salmonella enterica chromosome
-
Blank K, Hensel M, Gerlach RG. 2011. Rapid and highly efficient method for scarless mutagenesis within the Salmonella enterica chromosome. PLoS One 6:e15763. http://dx.doi.org/10.1371/journal.pone.0015763.
-
(2011)
PLoS One
, vol.6
-
-
Blank, K.1
Hensel, M.2
Gerlach, R.G.3
-
208
-
-
40549105706
-
Scarless engineering of the Escherichia coli genome
-
Fehér T, Karcagi I, Gyorfy Z, Umenhoffer K, Csörgo B, Pósfai G. 2008. Scarless engineering of the Escherichia coli genome. Methods Mol Biol 416:251-259. http://dx.doi.org/10.1007/978-1-59745-321-9_16.
-
(2008)
Methods Mol Biol
, vol.416
, pp. 251-259
-
-
Fehér, T.1
Karcagi, I.2
Gyorfy, Z.3
Umenhoffer, K.4
Csörgo, B.5
Pósfai, G.6
-
209
-
-
77955117488
-
Scarless and sequential gene modification in Pseudomonas using PCR product flanked by short homology regions
-
Liang R, Liu J. 2010. Scarless and sequential gene modification in Pseudomonas using PCR product flanked by short homology regions. BMC Microbiol 10:209. http://dx.doi.org/10.1186/1471-2180-10-209.
-
(2010)
BMC Microbiol
, vol.10
, pp. 209
-
-
Liang, R.1
Liu, J.2
-
210
-
-
46949111513
-
Highly efficient method for introducing successive multiple scarless gene deletions and markerless gene insertions into the Yersinia pestis chromosome
-
Sun W, Wang S, Curtiss R. 2008. Highly efficient method for introducing successive multiple scarless gene deletions and markerless gene insertions into the Yersinia pestis chromosome. Appl Environ Microbiol 74: 4241-4245. http://dx.doi.org/10.1128/AEM.00940-08.
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 4241-4245
-
-
Sun, W.1
Wang, S.2
Curtiss, R.3
-
211
-
-
84855212129
-
Molecular dissection of an outbreak of carbapenem-resistant enterobacteriaceae reveals intergenus KPC carbapenemase transmission through a promiscuous plasmid
-
Mathers AJ, Cox HL, Kitchel B, Bonatti H, Brassinga AKC, Carroll J, Scheld WM, Hazen KC, Sifri CD. 2011. Molecular dissection of an outbreak of carbapenem-resistant enterobacteriaceae reveals intergenus KPC carbapenemase transmission through a promiscuous plasmid. mBio 2(6):e00204-11. http://dx.doi.org/10.1128/mBio.00204-11.
-
(2011)
mBio
, vol.2
, Issue.6
, pp. e00204-e00311
-
-
Mathers, A.J.1
Cox, H.L.2
Kitchel, B.3
Bonatti, H.4
Brassinga, A.K.C.5
Carroll, J.6
Scheld, W.M.7
Hazen, K.C.8
Sifri, C.D.9
-
212
-
-
0030971779
-
Tissue culture adaptation of foot-and-mouth disease virus selects viruses that bind to heparin and are attenuated in cattle
-
Sa-Carvalho D, Rieder E, Baxt B, Rodarte R, Tanuri A, Mason PW. 1997. Tissue culture adaptation of foot-and-mouth disease virus selects viruses that bind to heparin and are attenuated in cattle. J Virol 71:5115- 5123.
-
(1997)
J Virol
, vol.71
, pp. 5115-5123
-
-
Sa-Carvalho, D.1
Rieder, E.2
Baxt, B.3
Rodarte, R.4
Tanuri, A.5
Mason, P.W.6
-
213
-
-
84871302748
-
Accumulation of nucleotide substitutions occurring during experimental transmission of foot-and-mouth disease virus
-
Juleff N. 2013. Accumulation of nucleotide substitutions occurring during experimental transmission of foot-and-mouth disease virus. J Gen Virol 94:108-119. http://dx.doi.org/10.1099/vir.0.046029-0.
-
(2013)
J Gen Virol
, vol.94
, pp. 108-119
-
-
Juleff, N.1
-
214
-
-
84963769365
-
-
Associated Press. CBSNEWS.com
-
Associated Press. 2014. Ebola scares West Africans away from bush meat. CBSNEWS.com. http://www.cbsnews.com/news/ebola-virus -scares-west-africans-away-from-bush-meat/.
-
(2014)
Ebola scares West Africans away from bush meat.
-
-
-
215
-
-
84876764053
-
Outbreak investigation using high-throughput genome sequencing within a diagnostic microbiology laboratory
-
Sherry NL, Porter JL, Seemann T, Watkins A, Stinear TP, Howden BP. 2013. Outbreak investigation using high-throughput genome sequencing within a diagnostic microbiology laboratory. J Clin Microbiol 51: 1396-1401. http://dx.doi.org/10.1128/JCM.03332-12.
-
(2013)
J Clin Microbiol
, vol.51
, pp. 1396-1401
-
-
Sherry, N.L.1
Porter, J.L.2
Seemann, T.3
Watkins, A.4
Stinear, T.P.5
Howden, B.P.6
-
216
-
-
84988838406
-
A universal protocol to generate consensus level genome sequences for foot-and-mouth disease virus and other positive-sense polyadenylated RNA viruses using the Illumina MiSeq
-
Logan G, Freimanis GL, King DJ, Valdazo-González B, Bachanek- Bankowska K, Sanderson ND, Knowles NJ, King DP, Cottam EM. 2014. A universal protocol to generate consensus level genome sequences for foot-and-mouth disease virus and other positive-sense polyadenylated RNA viruses using the Illumina MiSeq. BMC Genomics 15:828. http://dx.doi.org/10.1186/1471-2164-15-828.
-
(2014)
BMC Genomics
, vol.15
, pp. 828
-
-
Logan, G.1
Freimanis, G.L.2
King, D.J.3
Valdazo-González, B.4
Bachanek-Bankowska, K.5
Sanderson, N.D.6
Knowles, N.J.7
King, D.P.8
Cottam, E.M.9
-
217
-
-
84882712754
-
Rapid bacterial genome sequencing: Methods and applications in clinical microbiology
-
Bertelli C, Greub G. 2013. Rapid bacterial genome sequencing: methods and applications in clinical microbiology. Clin Microbiol Infect 19:803-813. http://dx.doi.org/10.1111/1469-0691.12217.
-
(2013)
Clin Microbiol Infect
, vol.19
, pp. 803-813
-
-
Bertelli, C.1
Greub, G.2
-
219
-
-
84862286169
-
A framework for human microbiome research
-
Human Microbiome Project Consortium. 2012. A framework for human microbiome research. Nature 486:215-221. http://dx.doi.org/10 .1038/nature11209.
-
(2012)
Nature
, vol.486
, pp. 215-221
-
-
-
220
-
-
0037195104
-
Molecular evidence of HIV-1 transmission in a criminal case
-
Metzker ML, Mindell DP, Liu X-M, Ptak RG, Gibbs RA, Hillis DM. 2002. Molecular evidence of HIV-1 transmission in a criminal case. Proc Natl Acad Sci U S A 99:14292-14297. http://dx.doi.org/10.1073/pnas .222522599.
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 14292-14297
-
-
Metzker, M.L.1
Mindell, D.P.2
Liu, X.-M.3
Ptak, R.G.4
Gibbs, R.A.5
Hillis, D.M.6
-
221
-
-
84908052364
-
Selective whole genome amplification for resequencing target microbial species from complex natural samples
-
Leichty AR, Brisson D. 2014. Selective whole genome amplification for resequencing target microbial species from complex natural samples. Genetics 198:473-481. http://dx.doi.org/10.1534/genetics.114.165498.
-
(2014)
Genetics
, vol.198
, pp. 473-481
-
-
Leichty, A.R.1
Brisson, D.2
|