-
1
-
-
78649773164
-
Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition
-
A. Adey, H.G. Morrison, Asan, X. Xun, J.O. Kitzman, and E.H. Turner Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition Genome Biology 11 12 2010 R119
-
(2010)
Genome Biology
, vol.11
, Issue.12
, pp. 119
-
-
Adey, A.1
Morrison, H.G.2
Asan3
Xun, X.4
Kitzman, J.O.5
Turner, E.H.6
-
2
-
-
79952973319
-
Single virus genomics: A new tool for virus discovery
-
L.Z. Allen, T. Ishoey, M.A. Novotny, J.S. McLean, R.S. Lasken, and S.J. Williamson Single virus genomics: A new tool for virus discovery PLoS One 6 3 2011 e17722
-
(2011)
PLoS One
, vol.6
, Issue.3
, pp. 17722
-
-
Allen, L.Z.1
Ishoey, T.2
Novotny, M.A.3
McLean, J.S.4
Lasken, R.S.5
Williamson, S.J.6
-
3
-
-
84881263143
-
Single-cell and population level viral infection dynamics revealed by phageFISH, a method to visualize intracellular and free viruses
-
E. Allers, C. Moraru, M. Duhaime, E. Beneze, N. Solonenko, and J. Barerro-Canosa Single-cell and population level viral infection dynamics revealed by phageFISH, a method to visualize intracellular and free viruses Environmental Microbiology 15 8 2013 2306 2318
-
(2013)
Environmental Microbiology
, vol.15
, Issue.8
, pp. 2306-2318
-
-
Allers, E.1
Moraru, C.2
Duhaime, M.3
Beneze, E.4
Solonenko, N.5
Barerro-Canosa, J.6
-
5
-
-
77955570845
-
Hydroxyapatite-mediated separation of double-stranded DNA, single-stranded DNA, and RNA genomes from natural viral assemblages
-
C. Andrews-Pfannkoch, D.W. Fadrosh, J. Thorpe, and S.J. Williamson Hydroxyapatite-mediated separation of double-stranded DNA, single-stranded DNA, and RNA genomes from natural viral assemblages Applied and Environmental Microbiology 76 15 2010 5039 5045
-
(2010)
Applied and Environmental Microbiology
, vol.76
, Issue.15
, pp. 5039-5045
-
-
Andrews-Pfannkoch, C.1
Fadrosh, D.W.2
Thorpe, J.3
Williamson, S.J.4
-
6
-
-
84866944629
-
Paired-end sequencing of long-range DNA fragments for de novo assembly of large, complex mammalian genomes by direct intra-molecule ligation
-
Asan, C. Geng, Y. Chen, K. Wu, Q. Cai, and Y. Wang Paired-end sequencing of long-range DNA fragments for de novo assembly of large, complex mammalian genomes by direct intra-molecule ligation PLoS One 7 9 2012 e46211
-
(2012)
PLoS One
, vol.7
, Issue.9
, pp. 46211
-
-
Asan1
Geng, C.2
Chen, Y.3
Wu, K.4
Cai, Q.5
Wang, Y.6
-
7
-
-
79955691833
-
Large scale library generation for high throughput sequencing
-
E. Borgstrom, S. Lundin, and J. Lundeberg Large scale library generation for high throughput sequencing PLoS One 6 4 2011 e19119
-
(2011)
PLoS One
, vol.6
, Issue.4
, pp. 19119
-
-
Borgstrom, E.1
Lundin, S.2
Lundeberg, J.3
-
8
-
-
56149118576
-
Modelling the fitness consequences of a cyanophage-encoded photosynthesis gene
-
J.G. Bragg, and S.W. Chisholm Modelling the fitness consequences of a cyanophage-encoded photosynthesis gene PLoS One 3 2008 e3550
-
(2008)
PLoS One
, vol.3
, pp. 3550
-
-
Bragg, J.G.1
Chisholm, S.W.2
-
11
-
-
0037195156
-
Genomic analysis of uncultured marine viral communities
-
M. Breitbart, P. Salamon, B. Andresen, J.M. Mahaffy, A.M. Segall, and D. Mead Genomic analysis of uncultured marine viral communities Proceedings of the National Academy of Sciences of the United States of America 99 22 2002 14250 14255
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.22
, pp. 14250-14255
-
-
Breitbart, M.1
Salamon, P.2
Andresen, B.3
Mahaffy, J.M.4
Segall, A.M.5
Mead, D.6
-
12
-
-
84883136726
-
Global morphological analysis of marine viruses shows minimal regional variation and dominance of non-tailed viruses
-
10.1038/ismej.2013.67
-
J.R. Brum, R.O. Schenck, and M.B. Sullivan Global morphological analysis of marine viruses shows minimal regional variation and dominance of non-tailed viruses The ISME Journal advance online publication 2 May 2013 10.1038/ismej.2013.67
-
(2013)
The ISME Journal Advance Online Publication
-
-
Brum, J.R.1
Schenck, R.O.2
Sullivan, M.B.3
-
14
-
-
80052579099
-
Implementing a genomic data management system using iRODS in the Wellcome Trust Sanger Institute
-
G.T. Chiang, P. Clapham, G. Qi, K. Sale, and G. Coates Implementing a genomic data management system using iRODS in the Wellcome Trust Sanger Institute BMC Bioinformatics 12 2011 361
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 361
-
-
Chiang, G.T.1
Clapham, P.2
Qi, G.3
Sale, K.4
Coates, G.5
-
15
-
-
33645461497
-
Transcription of a 'photosynthetic' T4-type phage during infection of a marine cyanobacterium
-
M.R.J. Clokie, J. Shan, S. Bailey, Y. Jia, and H.M. Krisch Transcription of a 'photosynthetic' T4-type phage during infection of a marine cyanobacterium Environmental Microbiology 8 2006 827 835
-
(2006)
Environmental Microbiology
, vol.8
, pp. 827-835
-
-
Clokie, M.R.J.1
Shan, J.2
Bailey, S.3
Jia, Y.4
Krisch, H.M.5
-
16
-
-
33745513227
-
Metagenomic analysis of coastal RNA virus communities
-
A.I. Culley, A.S. Lang, and C.A. Suttle Metagenomic analysis of coastal RNA virus communities Science 312 5781 2006 1795 1798
-
(2006)
Science
, vol.312
, Issue.5781
, pp. 1795-1798
-
-
Culley, A.I.1
Lang, A.S.2
Suttle, C.A.3
-
17
-
-
42049110060
-
Efficient phage-mediated pigment biosynthesis in oceanic cyanobacteria
-
T. Dammeyer, S.C. Bagby, M.B. Sullivan, S.W. Chisholm, and N. Frankenberg-Dinkel Efficient phage-mediated pigment biosynthesis in oceanic cyanobacteria Current Biology 18 6 2008 442 448
-
(2008)
Current Biology
, vol.18
, Issue.6
, pp. 442-448
-
-
Dammeyer, T.1
Bagby, S.C.2
Sullivan, M.B.3
Chisholm, S.W.4
Frankenberg-Dinkel, N.5
-
18
-
-
84872165538
-
Contrasting life strategies of viruses that infect photo- and heterotrophic bacteria, as revealed by viral tagging
-
10.1128/mBio.00373-12 e00373-12
-
L. Deng, A. Gregory, S. Yilmaz, B.T. Poulos, P. Hugenholtz, and M.B. Sullivan Contrasting life strategies of viruses that infect photo- and heterotrophic bacteria, as revealed by viral tagging mBio 3 6 2012 10.1128/mBio.00373-12 e00373-12
-
(2012)
MBio
, vol.3
, Issue.6
-
-
Deng, L.1
Gregory, A.2
Yilmaz, S.3
Poulos, B.T.4
Hugenholtz, P.5
Sullivan, M.B.6
-
19
-
-
84865720549
-
Towards quantitative metagenomics of wild viruses and other ultra-low concentration DNA samples: A rigorous assessment and optimization of the linker amplification method
-
M. Duhaime, L. Deng, B. Poulos, and M.B. Sullivan Towards quantitative metagenomics of wild viruses and other ultra-low concentration DNA samples: A rigorous assessment and optimization of the linker amplification method Environmental Microbiology 14 2012 2526 2537
-
(2012)
Environmental Microbiology
, vol.14
, pp. 2526-2537
-
-
Duhaime, M.1
Deng, L.2
Poulos, B.3
Sullivan, M.B.4
-
20
-
-
84870665503
-
Ocean viruses: Rigorously evaluating the metagenomic sample-to-sequence pipeline
-
M. Duhaime, and M.B. Sullivan Ocean viruses: Rigorously evaluating the metagenomic sample-to-sequence pipeline Virology 434 2012 181 186
-
(2012)
Virology
, vol.434
, pp. 181-186
-
-
Duhaime, M.1
Sullivan, M.B.2
-
21
-
-
33748325739
-
Routes to improving the reliability of low level DNA analysis using real-time PCR
-
S.L. Ellison, C.A. English, M.J. Burns, and J.T. Keer Routes to improving the reliability of low level DNA analysis using real-time PCR BMC Biotechnology 6 2006 33
-
(2006)
BMC Biotechnology
, vol.6
, pp. 33
-
-
Ellison, S.L.1
English, C.A.2
Burns, M.J.3
Keer, J.T.4
-
22
-
-
77951041162
-
Transcriptome analysis of Pseudomonas syringae identifies new genes, noncoding RNAs, and antisense activity
-
M.J. Filiatrault, P.V. Stodghill, P.A. Bronstein, S. Moll, M. Lindeberg, and G. Grills Transcriptome analysis of Pseudomonas syringae identifies new genes, noncoding RNAs, and antisense activity Journal of Bacteriology 192 9 2010 2359 2372
-
(2010)
Journal of Bacteriology
, vol.192
, Issue.9
, pp. 2359-2372
-
-
Filiatrault, M.J.1
Stodghill, P.V.2
Bronstein, P.A.3
Moll, S.4
Lindeberg, M.5
Grills, G.6
-
23
-
-
0033542481
-
Marine viruses and their biogeochemical and ecological effects
-
J.A. Fuhrman Marine viruses and their biogeochemical and ecological effects Nature 399 1999 541 548
-
(1999)
Nature
, vol.399
, pp. 541-548
-
-
Fuhrman, J.A.1
-
24
-
-
80051688000
-
Field guide to next-generation DNA sequencers
-
T.C. Glenn Field guide to next-generation DNA sequencers Molecular Ecology Resources 11 5 2011 759 769
-
(2011)
Molecular Ecology Resources
, vol.11
, Issue.5
, pp. 759-769
-
-
Glenn, T.C.1
-
25
-
-
79952178131
-
High-quality draft assemblies of mammalian genomes from massively parallel sequence data
-
S. Gnerre, I. Maccallum, D. Przybylski, F.J. Ribeiro, J.N. Burton, and B.J. Walker High-quality draft assemblies of mammalian genomes from massively parallel sequence data Proceedings of the National Academy of Sciences of the United States of America 108 4 2011 1513 1518
-
(2011)
Proceedings of the National Academy of Sciences of the United States of America
, vol.108
, Issue.4
, pp. 1513-1518
-
-
Gnerre, S.1
MacCallum, I.2
Przybylski, D.3
Ribeiro, F.J.4
Burton, J.N.5
Walker, B.J.6
-
26
-
-
70350294348
-
Systematic artifacts in metagenomes from complex microbial communities
-
V. Gomez-Alvarez, T.K. Teal, and T.M. Schmidt Systematic artifacts in metagenomes from complex microbial communities The ISME Journal 3 11 2009 1314 1317
-
(2009)
The ISME Journal
, vol.3
, Issue.11
, pp. 1314-1317
-
-
Gomez-Alvarez, V.1
Teal, T.K.2
Schmidt, T.M.3
-
27
-
-
66649092982
-
Carrying photosynthesis genes increases ecological fitness of cyanophage in silico
-
F.L. Hellweger Carrying photosynthesis genes increases ecological fitness of cyanophage in silico Environmental Microbiology 11 2009 1386 1394
-
(2009)
Environmental Microbiology
, vol.11
, pp. 1386-1394
-
-
Hellweger, F.L.1
-
28
-
-
77949347671
-
Analysis of high-throughput sequencing and annotation strategies for phage genomes
-
M.R. Henn, M.B. Sullivan, N. Stange-Thomann, M.S. Osburne, A.M. Berlin, and L. Kelly Analysis of high-throughput sequencing and annotation strategies for phage genomes PLoS One 5 2 2010 e9083
-
(2010)
PLoS One
, vol.5
, Issue.2
, pp. 9083
-
-
Henn, M.R.1
Sullivan, M.B.2
Stange-Thomann, N.3
Osburne, M.S.4
Berlin, A.M.5
Kelly, L.6
-
29
-
-
79959882452
-
Linear amplification for deep sequencing
-
W.A. Hoeijmakers, R. Bartfai, K.J. Francoijs, and H.G. Stunnenberg Linear amplification for deep sequencing Nature Protocols 6 7 2011 1026 1036
-
(2011)
Nature Protocols
, vol.6
, Issue.7
, pp. 1026-1036
-
-
Hoeijmakers, W.A.1
Bartfai, R.2
Francoijs, K.J.3
Stunnenberg, H.G.4
-
30
-
-
84856148335
-
Cultivated single-stranded DNA phages that infect marine Bacteroidetes prove difficult to detect with DNA-binding stains
-
K. Holmfeldt, D. Odic, M.B. Sullivan, M. Middelboe, and L. Riemann Cultivated single-stranded DNA phages that infect marine Bacteroidetes prove difficult to detect with DNA-binding stains Applied and Environmental Microbiology 78 3 2012 892 894
-
(2012)
Applied and Environmental Microbiology
, vol.78
, Issue.3
, pp. 892-894
-
-
Holmfeldt, K.1
Odic, D.2
Sullivan, M.B.3
Middelboe, M.4
Riemann, L.5
-
31
-
-
84881090889
-
Twelve previously unknown phage genera are ubiquitous in global oceans
-
Holmfeldt, and Karin Twelve previously unknown phage genera are ubiquitous in global oceans Proceedings of the National Academy of Sciences 110 31 2013 12798 12803
-
(2013)
Proceedings of the National Academy of Sciences
, vol.110
, Issue.31
, pp. 12798-12803
-
-
Holmfeldt1
Karin2
-
32
-
-
84876484290
-
Evaluation of methods to concentrate and purify wild ocean virus communities through comparative, replicated metagenomics
-
10.1111/j.1462-2920.2012.02836.x
-
B.H. Hurwitz, L. Deng, B. Poulos, and M.B. Sullivan Evaluation of methods to concentrate and purify wild ocean virus communities through comparative, replicated metagenomics Environmental Microbiology 15 5 2013 1428 1440 10.1111/j.1462-2920.2012.02836.x
-
(2013)
Environmental Microbiology
, vol.15
, Issue.5
, pp. 1428-1440
-
-
Hurwitz, B.H.1
Deng, L.2
Poulos, B.3
Sullivan, M.B.4
-
33
-
-
84874530236
-
The Pacific Ocean Virome (POV): A marine viral metagenomic dataset and associated protein clusters for quantitative viral ecology
-
B.H. Hurwitz, and M.B. Sullivan The Pacific Ocean Virome (POV): A marine viral metagenomic dataset and associated protein clusters for quantitative viral ecology PLoS One 8 2013 e57355
-
(2013)
PLoS One
, vol.8
, pp. 57355
-
-
Hurwitz, B.H.1
Sullivan, M.B.2
-
34
-
-
84864387036
-
Phylogenomics of T4 cyanophages: Lateral gene transfer in the "core" and origins of host genes
-
J.C. Ignacio-Espinoza, and M.B. Sullivan Phylogenomics of T4 cyanophages: Lateral gene transfer in the "core" and origins of host genes Environmental Microbiology 14 2012 2113 2126
-
(2012)
Environmental Microbiology
, vol.14
, pp. 2113-2126
-
-
Ignacio-Espinoza, J.C.1
Sullivan, M.B.2
-
35
-
-
84856659328
-
Untangling genomes from metagenomes: Revealing an uncultured class of marine Euryarchaeota
-
V. Iverson, R.M. Morris, C.D. Frazar, C.T. Berthiaume, R.L. Morales, and E.V. Armbrust Untangling genomes from metagenomes: Revealing an uncultured class of marine Euryarchaeota Science 335 6068 2012 587 590
-
(2012)
Science
, vol.335
, Issue.6068
, pp. 587-590
-
-
Iverson, V.1
Morris, R.M.2
Frazar, C.D.3
Berthiaume, C.T.4
Morales, R.L.5
Armbrust, E.V.6
-
36
-
-
84859876367
-
A simple and efficient method for concentration of ocean viruses by chemical flocculation
-
S.G. John, C.B. Mendez, L. Deng, B. Poulos, A.K.M. Kauffman, and S. Kern A simple and efficient method for concentration of ocean viruses by chemical flocculation Environmental Microbiology Reports 3 2 2011 195 202
-
(2011)
Environmental Microbiology Reports
, vol.3
, Issue.2
, pp. 195-202
-
-
John, S.G.1
Mendez, C.B.2
Deng, L.3
Poulos, B.4
Kauffman, A.K.M.5
Kern, S.6
-
37
-
-
83155190998
-
Amplification methods bias metagenomic libraries of uncultured single-stranded and double-stranded DNA viruses
-
K.H. Kim, and J.W. Bae Amplification methods bias metagenomic libraries of uncultured single-stranded and double-stranded DNA viruses Applied and Environmental Microbiology 77 21 2011 7663 7668
-
(2011)
Applied and Environmental Microbiology
, vol.77
, Issue.21
, pp. 7663-7668
-
-
Kim, K.H.1
Bae, J.W.2
-
38
-
-
54449093935
-
Amplification of uncultured single-stranded DNA viruses from rice paddy soil
-
K.H. Kim, H.W. Chang, Y.D. Nam, S.W. Roh, M.S. Kim, and Y. Sung Amplification of uncultured single-stranded DNA viruses from rice paddy soil Applied and Environmental Microbiology 74 19 2008 5975 5985
-
(2008)
Applied and Environmental Microbiology
, vol.74
, Issue.19
, pp. 5975-5985
-
-
Kim, K.H.1
Chang, H.W.2
Nam, Y.D.3
Roh, S.W.4
Kim, M.S.5
Sung, Y.6
-
40
-
-
84862024684
-
Unlocking the potential of metagenomics through replicated experimental design
-
R. Knight, J. Jansson, D. Field, N. Fierer, N. Desai, and J.A. Fuhrman Unlocking the potential of metagenomics through replicated experimental design Nature Biotechnology 30 6 2012 513 520
-
(2012)
Nature Biotechnology
, vol.30
, Issue.6
, pp. 513-520
-
-
Knight, R.1
Jansson, J.2
Field, D.3
Fierer, N.4
Desai, N.5
Fuhrman, J.A.6
-
41
-
-
63949083912
-
Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes
-
I. Kozarewa, Z. Ning, M.A. Quail, M.J. Sanders, M. Berriman, and D.J. Turner Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes Nature Methods 6 4 2009 291 295
-
(2009)
Nature Methods
, vol.6
, Issue.4
, pp. 291-295
-
-
Kozarewa, I.1
Ning, Z.2
Quail, M.A.3
Sanders, M.J.4
Berriman, M.5
Turner, D.J.6
-
42
-
-
27744480467
-
Photosynthesis genes in marine viruses yield proteins during host infection
-
D. Lindell, J.D. Jaffe, Z.I. Johnson, G.M. Church, and S.W. Chisholm Photosynthesis genes in marine viruses yield proteins during host infection Nature 438 7064 2005 86 89
-
(2005)
Nature
, vol.438
, Issue.7064
, pp. 86-89
-
-
Lindell, D.1
Jaffe, J.D.2
Johnson, Z.I.3
Church, G.M.4
Chisholm, S.W.5
-
43
-
-
3342915398
-
Transfer of photosynthesis genes to and from Prochlorococcus viruses
-
D. Lindell, M.B. Sullivan, Z.I. Johnson, A.C. Tolonen, F. Rohwer, and S.W. Chisholm Transfer of photosynthesis genes to and from Prochlorococcus viruses Proceedings of the National Academy of Sciences of the United States of America 101 30 2004 11013 11018
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, Issue.30
, pp. 11013-11018
-
-
Lindell, D.1
Sullivan, M.B.2
Johnson, Z.I.3
Tolonen, A.C.4
Rohwer, F.5
Chisholm, S.W.6
-
44
-
-
77952577869
-
Recent advances in DNA sequencing methods - General principles of sample preparation
-
S. Linnarsson Recent advances in DNA sequencing methods - General principles of sample preparation Experimental Cell Research 316 8 2010 1339 1343
-
(2010)
Experimental Cell Research
, vol.316
, Issue.8
, pp. 1339-1343
-
-
Linnarsson, S.1
-
45
-
-
84942887758
-
SOAPdenovo2: An empirically improved memory-efficient short-read de novo assembler
-
R. Luo, B. Liu, Y. Xie, Z. Li, W. Huang, and J. Yuan SOAPdenovo2: An empirically improved memory-efficient short-read de novo assembler GigaScience 1 1 2012 18
-
(2012)
GigaScience
, vol.1
, Issue.1
, pp. 18
-
-
Luo, R.1
Liu, B.2
Xie, Y.3
Li, Z.4
Huang, W.5
Yuan, J.6
-
46
-
-
83055180102
-
Evaluation of a transposase protocol for rapid generation of shotgun high-throughput sequencing libraries from nanogram quantities of DNA
-
R. Marine, S.W. Polson, J. Ravel, G. Hatfull, D. Russell, and M. Sullivan Evaluation of a transposase protocol for rapid generation of shotgun high-throughput sequencing libraries from nanogram quantities of DNA Applied and Environmental Microbiology 77 22 2011 8071 8079
-
(2011)
Applied and Environmental Microbiology
, vol.77
, Issue.22
, pp. 8071-8079
-
-
Marine, R.1
Polson, S.W.2
Ravel, J.3
Hatfull, G.4
Russell, D.5
Sullivan, M.6
-
47
-
-
72849144434
-
Sequencing technologies - The next generation
-
M.L. Metzker Sequencing technologies - The next generation Nature Reviews. Genetics 11 1 2010 31 46
-
(2010)
Nature Reviews. Genetics
, vol.11
, Issue.1
, pp. 31-46
-
-
Metzker, M.L.1
-
48
-
-
77956095453
-
Metagenomic sequencing of an in vitro-simulated microbial community
-
J.L. Morgan, A.E. Darling, and J.A. Eisen Metagenomic sequencing of an in vitro-simulated microbial community PLoS One 5 4 2010 e10209
-
(2010)
PLoS One
, vol.5
, Issue.4
, pp. 10209
-
-
Morgan, J.L.1
Darling, A.E.2
Eisen, J.A.3
-
49
-
-
84867397631
-
MetaVelvet: An extension of Velvet assembler to de novo metagenome assembly from short sequence reads
-
T. Namiki, T. Hachiya, H. Tanaka, and Y. Sakakibara MetaVelvet: An extension of Velvet assembler to de novo metagenome assembly from short sequence reads Nucleic Acids Research 40 20 2012 e155
-
(2012)
Nucleic Acids Research
, vol.40
, Issue.20
, pp. 155
-
-
Namiki, T.1
Hachiya, T.2
Tanaka, H.3
Sakakibara, Y.4
-
51
-
-
44849088966
-
Prophages in marine bacteria: Dangerous molecular time bombs or the key to survival in the seas?
-
J.H. Paul Prophages in marine bacteria: Dangerous molecular time bombs or the key to survival in the seas? The ISME Journal 2 6 2008 579 589
-
(2008)
The ISME Journal
, vol.2
, Issue.6
, pp. 579-589
-
-
Paul, J.H.1
-
52
-
-
84861760530
-
IDBA-UD: A de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
-
Y. Peng, H.C. Leung, S.M. Yiu, and F.Y. Chin IDBA-UD: A de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth Bioinformatics 28 11 2012 1420 1428
-
(2012)
Bioinformatics
, vol.28
, Issue.11
, pp. 1420-1428
-
-
Peng, Y.1
Leung, H.C.2
Yiu, S.M.3
Chin, F.Y.4
-
54
-
-
57049122389
-
A large genome center's improvements to the Illumina sequencing system
-
M.A. Quail, I. Kozarewa, F. Smith, A. Scally, P.J. Stephens, and R. Durbin A large genome center's improvements to the Illumina sequencing system Nature Methods 5 12 2008 1005 1010
-
(2008)
Nature Methods
, vol.5
, Issue.12
, pp. 1005-1010
-
-
Quail, M.A.1
Kozarewa, I.2
Smith, F.3
Scally, A.4
Stephens, P.J.5
Durbin, R.6
-
55
-
-
77955603295
-
Unlocking short read sequencing for metagenomics
-
S. Rodrigue, A.C. Materna, S.C. Timberlake, M.C. Blackburn, R.R. Malmstrom, and E.J. Alm Unlocking short read sequencing for metagenomics PLoS One 5 7 2010 e11840
-
(2010)
PLoS One
, vol.5
, Issue.7
, pp. 11840
-
-
Rodrigue, S.1
Materna, A.C.2
Timberlake, S.C.3
Blackburn, M.C.4
Malmstrom, R.R.5
Alm, E.J.6
-
56
-
-
84860595791
-
Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture
-
N. Rohland, and D. Reich Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture Genome Research 22 5 2012 939 946
-
(2012)
Genome Research
, vol.22
, Issue.5
, pp. 939-946
-
-
Rohland, N.1
Reich, D.2
-
57
-
-
84867142649
-
A field guide to eukaryotic circular single-stranded DNA viruses: Insights gained from metagenomics
-
K. Rosario, S. Duffy, and M. Breitbart A field guide to eukaryotic circular single-stranded DNA viruses: Insights gained from metagenomics Archives of Virology 157 10 2012 1851 1871
-
(2012)
Archives of Virology
, vol.157
, Issue.10
, pp. 1851-1871
-
-
Rosario, K.1
Duffy, S.2
Breitbart, M.3
-
58
-
-
84863838397
-
Evolution and diversity of the Microviridae viral family through a collection of 81 new complete genomes assembled from virome reads
-
S. Roux, M. Krupovic, A. Poulet, D. Debroas, and F. Enault Evolution and diversity of the Microviridae viral family through a collection of 81 new complete genomes assembled from virome reads PLoS One 7 2012 e40418
-
(2012)
PLoS One
, vol.7
, pp. 40418
-
-
Roux, S.1
Krupovic, M.2
Poulet, A.3
Debroas, D.4
Enault, F.5
-
59
-
-
46949106154
-
Assembly of viral metagenomes from Yellowstone hot springs
-
T. Schoenfeld, M. Patterson, P.M. Richardson, K.E. Wommack, M. Young, and D. Mead Assembly of viral metagenomes from Yellowstone hot springs Applied and Environmental Microbiology 74 13 2008 4164 4174
-
(2008)
Applied and Environmental Microbiology
, vol.74
, Issue.13
, pp. 4164-4174
-
-
Schoenfeld, T.1
Patterson, M.2
Richardson, P.M.3
Wommack, K.E.4
Young, M.5
Mead, D.6
-
60
-
-
79961209508
-
Sequencing of high G+C microbial genomes using the ultrafast pyrosequencing technology
-
P. Schwientek, R. Szczepanowski, C. Ruckert, J. Stoye, and A. Puhler Sequencing of high G+C microbial genomes using the ultrafast pyrosequencing technology Journal of Biotechnology 155 1 2011 68 77
-
(2011)
Journal of Biotechnology
, vol.155
, Issue.1
, pp. 68-77
-
-
Schwientek, P.1
Szczepanowski, R.2
Ruckert, C.3
Stoye, J.4
Puhler, A.5
-
61
-
-
79959588019
-
Comparative metagenomics of microbial traits within oceanic viral communities
-
I. Sharon, N. Battchikova, E.M. Aro, C. Giglione, T. Meinnel, and F. Glaser Comparative metagenomics of microbial traits within oceanic viral communities The ISME Journal 5 7 2011 1178 1190
-
(2011)
The ISME Journal
, vol.5
, Issue.7
, pp. 1178-1190
-
-
Sharon, I.1
Battchikova, N.2
Aro, E.M.3
Giglione, C.4
Meinnel, T.5
Glaser, F.6
-
62
-
-
0036808470
-
Theoretical considerations of amplification strategies
-
C.A. Shaw Theoretical considerations of amplification strategies Neurochemical Research 27 2002 1123 1131
-
(2002)
Neurochemical Research
, vol.27
, pp. 1123-1131
-
-
Shaw, C.A.1
-
63
-
-
66449136667
-
ABySS: A parallel assembler for short read sequence data
-
J.T. Simpson, K. Wong, S.D. Jackman, J.E. Schein, S.J. Jones, and I. Birol ABySS: A parallel assembler for short read sequence data Genome Research 19 6 2009 1117 1123
-
(2009)
Genome Research
, vol.19
, Issue.6
, pp. 1117-1123
-
-
Simpson, J.T.1
Wong, K.2
Jackman, S.D.3
Schein, J.E.4
Jones, S.J.5
Birol, I.6
-
64
-
-
84877278609
-
Sequencing platform and library preparation choices impact viral metagenomes
-
S. Solonenko, J.C. Ignacio-Espinoza, A. Alberti, C. Cruaud, S.J. Hallam, and K.T. Konstantinidis Sequencing platform and library preparation choices impact viral metagenomes BMC Genomics 14 1 2013 320
-
(2013)
BMC Genomics
, vol.14
, Issue.1
, pp. 320
-
-
Solonenko, S.1
Ignacio-Espinoza, J.C.2
Alberti, A.3
Cruaud, C.4
Hallam, S.J.5
Konstantinidis, K.T.6
-
65
-
-
84876490711
-
Are we missing half of the viruses in the ocean?
-
G.F. Steward, A.I. Culley, J.A. Mueller, E.M. Wood-Charlson, M. Belcaid, and G. Poisson Are we missing half of the viruses in the ocean? The ISME Journal 7 3 2013 672 679
-
(2013)
The ISME Journal
, vol.7
, Issue.3
, pp. 672-679
-
-
Steward, G.F.1
Culley, A.I.2
Mueller, J.A.3
Wood-Charlson, E.M.4
Belcaid, M.5
Poisson, G.6
-
66
-
-
33747369803
-
Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts
-
M.B. Sullivan, D. Lindell, J.A. Lee, L.R. Thompson, J.P. Bielawski, and S.W. Chisholm Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts PLoS Biology 4 2006 e234
-
(2006)
PLoS Biology
, vol.4
, pp. 234
-
-
Sullivan, M.B.1
Lindell, D.2
Lee, J.A.3
Thompson, L.R.4
Bielawski, J.P.5
Chisholm, S.W.6
-
67
-
-
0041375471
-
Cyanophages infecting the oceanic cyanobacterium Prochlorococcus
-
M.B. Sullivan, J.B. Waterbury, and S.W. Chisholm Cyanophages infecting the oceanic cyanobacterium Prochlorococcus Nature 424 2003 1047 1051
-
(2003)
Nature
, vol.424
, pp. 1047-1051
-
-
Sullivan, M.B.1
Waterbury, J.B.2
Chisholm, S.W.3
-
68
-
-
25144506135
-
Viruses in the sea
-
C.A. Suttle Viruses in the sea Nature 437 7057 2005 356 361
-
(2005)
Nature
, vol.437
, Issue.7057
, pp. 356-361
-
-
Suttle, C.A.1
-
69
-
-
34548792911
-
Marine viruses - Major players in the global ecosystem
-
C.A. Suttle Marine viruses - Major players in the global ecosystem Nature Reviews. Microbiology 5 2007 801 812
-
(2007)
Nature Reviews. Microbiology
, vol.5
, pp. 801-812
-
-
Suttle, C.A.1
-
70
-
-
79959855149
-
Probing individual environmental bacteria for viruses by using microfluidic digital PCR
-
A.D. Tadmor, E.A. Ottesen, J.R. Leadbetter, and R. Phillips Probing individual environmental bacteria for viruses by using microfluidic digital PCR Science 333 6038 2011 58 62
-
(2011)
Science
, vol.333
, Issue.6038
, pp. 58-62
-
-
Tadmor, A.D.1
Ottesen, E.A.2
Leadbetter, J.R.3
Phillips, R.4
-
71
-
-
0033826796
-
Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic ecosystems
-
T.F. Thingstad Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic ecosystems Limnology and Oceanography 45 6 2000 1320 1328
-
(2000)
Limnology and Oceanography
, vol.45
, Issue.6
, pp. 1320-1328
-
-
Thingstad, T.F.1
-
72
-
-
80053624997
-
Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism
-
L.R. Thompson, Q. Zeng, L. Kelly, K.H. Huang, A.U. Singer, and J. Stubbe Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism Proceedings of the National Academy of Sciences of the United States of America 108 39 2011 E757 E764
-
(2011)
Proceedings of the National Academy of Sciences of the United States of America
, vol.108
, Issue.39
-
-
Thompson, L.R.1
Zeng, Q.2
Kelly, L.3
Huang, K.H.4
Singer, A.U.5
Stubbe, J.6
-
73
-
-
64749109065
-
Laboratory procedures to generate viral metagenomes
-
R.V. Thurber, M. Haynes, M. Breitbart, L. Wegley, and F. Rohwer Laboratory procedures to generate viral metagenomes Nature Protocols 4 4 2009 470 483
-
(2009)
Nature Protocols
, vol.4
, Issue.4
, pp. 470-483
-
-
Thurber, R.V.1
Haynes, M.2
Breitbart, M.3
Wegley, L.4
Rohwer, F.5
-
74
-
-
84867539514
-
Fragmentation of DNA in a sub-microliter microfluidic sonication device
-
Q. Tseng, A.M. Lomonosov, E.E. Furlong, and C.A. Merten Fragmentation of DNA in a sub-microliter microfluidic sonication device Lab on a Chip 12 22 2012 4677 4682
-
(2012)
Lab on A Chip
, vol.12
, Issue.22
, pp. 4677-4682
-
-
Tseng, Q.1
Lomonosov, A.M.2
Furlong, E.E.3
Merten, C.A.4
-
75
-
-
1542377296
-
Community structure and metabolism through reconstruction of microbial genomes from the environment
-
G.W. Tyson, J. Chapman, P. Hugenholtz, E.E. Allen, R.J. Ram, and P.M. Richardson Community structure and metabolism through reconstruction of microbial genomes from the environment Nature 428 6978 2004 37 43
-
(2004)
Nature
, vol.428
, Issue.6978
, pp. 37-43
-
-
Tyson, G.W.1
Chapman, J.2
Hugenholtz, P.3
Allen, E.E.4
Ram, R.J.5
Richardson, P.M.6
-
76
-
-
11144354360
-
Environmental genome shotgun sequencing of the Sargasso Sea
-
J.C. Venter, K. Remington, J.F. Heidelberg, A.L. Halpern, D. Rusch, and J.A. Eisen Environmental genome shotgun sequencing of the Sargasso Sea Science 304 5667 2004 66 74
-
(2004)
Science
, vol.304
, Issue.5667
, pp. 66-74
-
-
Venter, J.C.1
Remington, K.2
Heidelberg, J.F.3
Halpern, A.L.4
Rusch, D.5
Eisen, J.A.6
-
77
-
-
78049372489
-
Miniaturization and parallelization of biological and chemical assays in microfluidic devices
-
S. Vyawahare, A.D. Griffiths, and C.A. Merten Miniaturization and parallelization of biological and chemical assays in microfluidic devices Chemistry & Biology 17 10 2010 1052 1065
-
(2010)
Chemistry & Biology
, vol.17
, Issue.10
, pp. 1052-1065
-
-
Vyawahare, S.1
Griffiths, A.D.2
Merten, C.A.3
-
78
-
-
84863470343
-
Nanopores: A journey towards DNA sequencing
-
M. Wanunu Nanopores: A journey towards DNA sequencing Physics of Life Reviews 9 2 2012 125 158
-
(2012)
Physics of Life Reviews
, vol.9
, Issue.2
, pp. 125-158
-
-
Wanunu, M.1
-
79
-
-
1942486000
-
Ecology of prokaryotic viruses
-
M.G. Weinbauer Ecology of prokaryotic viruses FEMS Microbiology Reviews 28 2 2004 127 181
-
(2004)
FEMS Microbiology Reviews
, vol.28
, Issue.2
, pp. 127-181
-
-
Weinbauer, M.G.1
-
80
-
-
0842266354
-
Are viruses driving microbial diversification and diversity?
-
M.G. Weinbauer, and F. Rassoulzadegan Are viruses driving microbial diversification and diversity? Environmental Microbiology 6 1 2004 1 11
-
(2004)
Environmental Microbiology
, vol.6
, Issue.1
, pp. 1-11
-
-
Weinbauer, M.G.1
Rassoulzadegan, F.2
-
81
-
-
0032858844
-
Viruses and nutrient cycles in the sea
-
S.W. Wilhelm, and C.A. Suttle Viruses and nutrient cycles in the sea Bioscience 49 10 1999 781 788
-
(1999)
Bioscience
, vol.49
, Issue.10
, pp. 781-788
-
-
Wilhelm, S.W.1
Suttle, C.A.2
-
84
-
-
78649707158
-
Multiple displacement amplification compromises quantitative analysis of metagenomes
-
S. Yilmaz, M. Allgaier, and P. Hugenholtz Multiple displacement amplification compromises quantitative analysis of metagenomes Nature Methods 7 12 2010 943 944
-
(2010)
Nature Methods
, vol.7
, Issue.12
, pp. 943-944
-
-
Yilmaz, S.1
Allgaier, M.2
Hugenholtz, P.3
-
85
-
-
77949511368
-
Pebble and rock band: Heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler
-
D.R. Zerbino, G.K. McEwen, E.H. Margulies, and E. Birney Pebble and rock band: Heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler PLoS One 4 12 2009 e8407
-
(2009)
PLoS One
, vol.4
, Issue.12
, pp. 8407
-
-
Zerbino, D.R.1
McEwen, G.K.2
Margulies, E.H.3
Birney, E.4
-
86
-
-
33745085561
-
Sequencing genomes from single cells by polymerase cloning
-
K. Zhang, A.C. Martiny, N.B. Reppas, K.W. Barry, J. Malek, and S.W. Chisholm Sequencing genomes from single cells by polymerase cloning Nature Biotechnology 24 6 2006 680 686
-
(2006)
Nature Biotechnology
, vol.24
, Issue.6
, pp. 680-686
-
-
Zhang, K.1
Martiny, A.C.2
Reppas, N.B.3
Barry, K.W.4
Malek, J.5
Chisholm, S.W.6
-
87
-
-
84874193410
-
Abundant SAR11 viruses in the ocean
-
Y. Zhao, B. Temperton, J.C. Thrash, M.S. Schwalbach, K.L. Vergin, and Z.C. Landry Abundant SAR11 viruses in the ocean Nature 494 7437 2013 357 360
-
(2013)
Nature
, vol.494
, Issue.7437
, pp. 357-360
-
-
Zhao, Y.1
Temperton, B.2
Thrash, J.C.3
Schwalbach, M.S.4
Vergin, K.L.5
Landry, Z.C.6
-
88
-
-
77955264391
-
Titration-free massively parallel pyrosequencing using trace amounts of starting material
-
Z. Zheng, A. Advani, O. Melefors, S. Glavas, H. Nordstrom, and W. Ye Titration-free massively parallel pyrosequencing using trace amounts of starting material Nucleic Acids Research 38 13 2010 e137
-
(2010)
Nucleic Acids Research
, vol.38
, Issue.13
, pp. 137
-
-
Zheng, Z.1
Advani, A.2
Melefors, O.3
Glavas, S.4
Nordstrom, H.5
Ye, W.6
|