-
1
-
-
85027927719
-
Enterotypes of the human gut microbiome
-
MetaHIT Consortium
-
M. Arumugam, J. Raes, E. Pelletier, D. Le Paslier, T. Yamada, D.R. Mende, G.R. Fernandes, J. Tap, T. Bruls, J.M. Batto MetaHIT Consortium Enterotypes of the human gut microbiome Nature 473 2011 174 180
-
(2011)
Nature
, vol.473
, pp. 174-180
-
-
Arumugam, M.1
Raes, J.2
Pelletier, E.3
Le Paslier, D.4
Yamada, T.5
Mende, D.R.6
Fernandes, G.R.7
Tap, J.8
Bruls, T.9
Batto, J.M.10
-
2
-
-
10144254414
-
Intestinal inflammation, ileal structure and function in HIV
-
I. Bjarnason, D.R. Sharpstone, N. Francis, A. Marker, C. Taylor, M. Barrett, A. Macpherson, C. Baldwin, I.S. Menzies, and R.C. Crane Intestinal inflammation, ileal structure and function in HIV AIDS 10 1996 1385 1391
-
(1996)
AIDS
, vol.10
, pp. 1385-1391
-
-
Bjarnason, I.1
Sharpstone, D.R.2
Francis, N.3
Marker, A.4
Taylor, C.5
Barrett, M.6
Macpherson, A.7
Baldwin, C.8
Menzies, I.S.9
Crane, R.C.10
-
3
-
-
84873830235
-
HIV and coronary heart disease: Time for a better understanding
-
F. Boccara, S. Lang, C. Meuleman, S. Ederhy, M. Mary-Krause, D. Costagliola, J. Capeau, and A. Cohen HIV and coronary heart disease: time for a better understanding J. Am. Coll. Cardiol. 61 2013 511 523
-
(2013)
J. Am. Coll. Cardiol.
, vol.61
, pp. 511-523
-
-
Boccara, F.1
Lang, S.2
Meuleman, C.3
Ederhy, S.4
Mary-Krause, M.5
Costagliola, D.6
Capeau, J.7
Cohen, A.8
-
4
-
-
84864655418
-
Failure to eradicate Isospora belli diarrhoea despite immune reconstitution in adults with HIV - A case series
-
10.1371/journal.pone.0042844
-
T.H. Boyles, J. Black, G. Meintjes, and M. Mendelson Failure to eradicate Isospora belli diarrhoea despite immune reconstitution in adults with HIV - a case series PLoS ONE 7 2012 e42844 10.1371/journal.pone.0042844
-
(2012)
PLoS ONE
, vol.7
, pp. 42844
-
-
Boyles, T.H.1
Black, J.2
Meintjes, G.3
Mendelson, M.4
-
5
-
-
44649201289
-
HIV infection and the gastrointestinal immune system
-
J.M. Brenchley, and D.C. Douek HIV infection and the gastrointestinal immune system Mucosal Immunol. 1 2008 23 30
-
(2008)
Mucosal Immunol.
, vol.1
, pp. 23-30
-
-
Brenchley, J.M.1
Douek, D.C.2
-
6
-
-
4644342929
-
CD4+ T cell depletion during all stages of HIV disease occurs predominantly in the gastrointestinal tract
-
J.M. Brenchley, T.W. Schacker, L.E. Ruff, D.A. Price, J.H. Taylor, G.J. Beilman, P.L. Nguyen, A. Khoruts, M. Larson, A.T. Haase, and D.C. Douek CD4+ T cell depletion during all stages of HIV disease occurs predominantly in the gastrointestinal tract J. Exp. Med. 200 2004 749 759
-
(2004)
J. Exp. Med.
, vol.200
, pp. 749-759
-
-
Brenchley, J.M.1
Schacker, T.W.2
Ruff, L.E.3
Price, D.A.4
Taylor, J.H.5
Beilman, G.J.6
Nguyen, P.L.7
Khoruts, A.8
Larson, M.9
Haase, A.T.10
Douek, D.C.11
-
7
-
-
33845532053
-
Microbial translocation is a cause of systemic immune activation in chronic HIV infection
-
J.M. Brenchley, D.A. Price, T.W. Schacker, T.E. Asher, G. Silvestri, S. Rao, Z. Kazzaz, E. Bornstein, O. Lambotte, and D. Altmann Microbial translocation is a cause of systemic immune activation in chronic HIV infection Nat. Med. 12 2006 1365 1371
-
(2006)
Nat. Med.
, vol.12
, pp. 1365-1371
-
-
Brenchley, J.M.1
Price, D.A.2
Schacker, T.W.3
Asher, T.E.4
Silvestri, G.5
Rao, S.6
Kazzaz, Z.7
Bornstein, E.8
Lambotte, O.9
Altmann, D.10
-
8
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
J.G. Caporaso, J. Kuczynski, J. Stombaugh, K. Bittinger, F.D. Bushman, E.K. Costello, N. Fierer, A.G. Peña, J.K. Goodrich, and J.I. Gordon QIIME allows analysis of high-throughput community sequencing data Nat. Methods 7 2010 335 336
-
(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
-
9
-
-
0032493043
-
A syndrome of peripheral lipodystrophy, hyperlipidaemia and insulin resistance in patients receiving HIV protease inhibitors
-
A. Carr, K. Samaras, S. Burton, M. Law, J. Freund, D.J. Chisholm, and D.A. Cooper A syndrome of peripheral lipodystrophy, hyperlipidaemia and insulin resistance in patients receiving HIV protease inhibitors AIDS 12 1998 F51 F58
-
(1998)
AIDS
, vol.12
-
-
Carr, A.1
Samaras, K.2
Burton, S.3
Law, M.4
Freund, J.5
Chisholm, D.J.6
Cooper, D.A.7
-
10
-
-
84865134857
-
Transient inability to manage proteobacteria promotes chronic gut inflammation in TLR5-deficient mice
-
F.A. Carvalho, O. Koren, J.K. Goodrich, M.E. Johansson, I. Nalbantoglu, J.D. Aitken, Y. Su, B. Chassaing, W.A. Walters, and A. González Transient inability to manage proteobacteria promotes chronic gut inflammation in TLR5-deficient mice Cell Host Microbe 12 2012 139 152
-
(2012)
Cell Host Microbe
, vol.12
, pp. 139-152
-
-
Carvalho, F.A.1
Koren, O.2
Goodrich, J.K.3
Johansson, M.E.4
Nalbantoglu, I.5
Aitken, J.D.6
Su, Y.7
Chassaing, B.8
Walters, W.A.9
González, A.10
-
11
-
-
39349107697
-
Decreased diversity of the fecal Microbiome in recurrent Clostridium difficile-associated diarrhea
-
J.Y. Chang, D.A. Antonopoulos, A. Kalra, A. Tonelli, W.T. Khalife, T.M. Schmidt, and V.B. Young Decreased diversity of the fecal Microbiome in recurrent Clostridium difficile-associated diarrhea J. Infect. Dis. 197 2008 435 438
-
(2008)
J. Infect. Dis.
, vol.197
, pp. 435-438
-
-
Chang, J.Y.1
Antonopoulos, D.A.2
Kalra, A.3
Tonelli, A.4
Khalife, W.T.5
Schmidt, T.M.6
Young, V.B.7
-
12
-
-
84878454838
-
Inadequate T follicular cell help impairs B cell immunity during HIV infection
-
R.A. Cubas, J.C. Mudd, A.L. Savoye, M. Perreau, J. van Grevenynghe, T. Metcalf, E. Connick, A. Meditz, G.J. Freeman, and G. Abesada-Terk Jr. Inadequate T follicular cell help impairs B cell immunity during HIV infection Nat. Med. 19 2013 494 499
-
(2013)
Nat. Med.
, vol.19
, pp. 494-499
-
-
Cubas, R.A.1
Mudd, J.C.2
Savoye, A.L.3
Perreau, M.4
Van Grevenynghe, J.5
Metcalf, T.6
Connick, E.7
Meditz, A.8
Freeman, G.J.9
Abesada-Terk, Jr.G.10
-
13
-
-
77957075815
-
Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa
-
C. De Filippo, D. Cavalieri, M. Di Paola, M. Ramazzotti, J.B. Poullet, S. Massart, S. Collini, G. Pieraccini, and P. Lionetti Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa Proc. Natl. Acad. Sci. USA 107 2010 14691 14696
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 14691-14696
-
-
De Filippo, C.1
Cavalieri, D.2
Di Paola, M.3
Ramazzotti, M.4
Poullet, J.B.5
Massart, S.6
Collini, S.7
Pieraccini, G.8
Lionetti, P.9
-
14
-
-
33746061683
-
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
-
T.Z. DeSantis, P. Hugenholtz, N. Larsen, M. Rojas, E.L. Brodie, K. Keller, T. Huber, D. Dalevi, P. Hu, and G.L. Andersen Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB Appl. Environ. Microbiol. 72 2006 5069 5072
-
(2006)
Appl. Environ. Microbiol.
, vol.72
, pp. 5069-5072
-
-
Desantis, T.Z.1
Hugenholtz, P.2
Larsen, N.3
Rojas, M.4
Brodie, E.L.5
Keller, K.6
Huber, T.7
Dalevi, D.8
Hu, P.9
Andersen, G.L.10
-
15
-
-
84863621018
-
HIV-1 infection of human intestinal lamina propria CD4+ T cells in vitro is enhanced by exposure to commensal Escherichia coli
-
S.M. Dillon, J.A. Manuzak, A.K. Leone, E.J. Lee, L.M. Rogers, M.D. McCarter, and C.C. Wilson HIV-1 infection of human intestinal lamina propria CD4+ T cells in vitro is enhanced by exposure to commensal Escherichia coli J. Immunol. 189 2012 885 896
-
(2012)
J. Immunol.
, vol.189
, pp. 885-896
-
-
Dillon, S.M.1
Manuzak, J.A.2
Leone, A.K.3
Lee, E.J.4
Rogers, L.M.5
McCarter, M.D.6
Wilson, C.C.7
-
16
-
-
84866392774
-
+ monocytes from viremic HIV-infected patients in TNFα overproduction in response to microbial products
-
+ monocytes from viremic HIV-infected patients in TNFα overproduction in response to microbial products Blood 120 2012 2259 2268
-
(2012)
Blood
, vol.120
, pp. 2259-2268
-
-
Dutertre, C.A.1
Amraoui, S.2
Derosa, A.3
Jourdain, J.P.4
Vimeux, L.5
Goguet, M.6
Degrelle, S.7
Feuillet, V.8
Liovat, A.S.9
Müller-Trutwin, M.10
-
17
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
R.C. Edgar Search and clustering orders of magnitude faster than BLAST Bioinformatics 26 2010 2460 2461
-
(2010)
Bioinformatics
, vol.26
, pp. 2460-2461
-
-
Edgar, R.C.1
-
18
-
-
79957576718
-
NLRP6 inflammasome regulates colonic microbial ecology and risk for colitis
-
E. Elinav, T. Strowig, A.L. Kau, J. Henao-Mejia, C.A. Thaiss, C.J. Booth, D.R. Peaper, J. Bertin, S.C. Eisenbarth, J.I. Gordon, and R.A. Flavell NLRP6 inflammasome regulates colonic microbial ecology and risk for colitis Cell 145 2011 745 757
-
(2011)
Cell
, vol.145
, pp. 745-757
-
-
Elinav, E.1
Strowig, T.2
Kau, A.L.3
Henao-Mejia, J.4
Thaiss, C.A.5
Booth, C.J.6
Peaper, D.R.7
Bertin, J.8
Eisenbarth, S.C.9
Gordon, J.I.10
Flavell, R.A.11
-
19
-
-
80051552856
-
Molecular characterization of stool microbiota in HIV-infected subjects by panbacterial and order-level 16S ribosomal DNA (rDNA) quantification and correlations with immune activation
-
C.L. Ellis, Z.M. Ma, S.K. Mann, C.S. Li, J. Wu, T.H. Knight, T. Yotter, T.L. Hayes, A.H. Maniar, and P.V. Troia-Cancio Molecular characterization of stool microbiota in HIV-infected subjects by panbacterial and order-level 16S ribosomal DNA (rDNA) quantification and correlations with immune activation J. Acquir. Immune Defic. Syndr. 57 2011 363 370
-
(2011)
J. Acquir. Immune Defic. Syndr.
, vol.57
, pp. 363-370
-
-
Ellis, C.L.1
Ma, Z.M.2
Mann, S.K.3
Li, C.S.4
Wu, J.5
Knight, T.H.6
Yotter, T.7
Hayes, T.L.8
Maniar, A.H.9
Troia-Cancio, P.V.10
-
20
-
-
48749093073
-
Collagen deposition limits immune reconstitution in the gut
-
J. Estes, J.V. Baker, J.M. Brenchley, A. Khoruts, J.L. Barthold, A. Bantle, C.S. Reilly, G.J. Beilman, M.E. George, and D.C. Douek Collagen deposition limits immune reconstitution in the gut J. Infect. Dis. 198 2008 456 464
-
(2008)
J. Infect. Dis.
, vol.198
, pp. 456-464
-
-
Estes, J.1
Baker, J.V.2
Brenchley, J.M.3
Khoruts, A.4
Barthold, J.L.5
Bantle, A.6
Reilly, C.S.7
Beilman, G.J.8
George, M.E.9
Douek, D.C.10
-
21
-
-
0026499429
-
Conservation evaluation and phylogenetic diversity
-
D.P. Faith Conservation evaluation and phylogenetic diversity Biol. Conserv. 61 1992 1 10
-
(1992)
Biol. Conserv.
, vol.61
, pp. 1-10
-
-
Faith, D.P.1
-
22
-
-
17044458632
-
Improvement of chronic diarrhoea in patients with advanced HIV-1 infection during potent antiretroviral therapy
-
N.A. Foudraine, G.J. Weverling, T. van Gool, M.T. Roos, F. de Wolf, P.P. Koopmans, P.J. van den Broek, P.L. Meenhorst, R. van Leeuwen, J.M. Lange, and P. Reiss Improvement of chronic diarrhoea in patients with advanced HIV-1 infection during potent antiretroviral therapy AIDS 12 1998 35 41
-
(1998)
AIDS
, vol.12
, pp. 35-41
-
-
Foudraine, N.A.1
Weverling, G.J.2
Van Gool, T.3
Roos, M.T.4
De Wolf, F.5
Koopmans, P.P.6
Van Den Broek, P.J.7
Meenhorst, P.L.8
Van Leeuwen, R.9
Lange, J.M.10
Reiss, P.11
-
23
-
-
84864395103
-
Bacteroides uniformis CECT 7771 ameliorates metabolic and immunological dysfunction in mice with high-fat-diet induced obesity
-
10.1371/journal.pone.0041079
-
P. Gauffin Cano, A. Santacruz, A. Moya, and Y. Sanz Bacteroides uniformis CECT 7771 ameliorates metabolic and immunological dysfunction in mice with high-fat-diet induced obesity PLoS ONE 7 2012 e41079 10.1371/journal.pone. 0041079
-
(2012)
PLoS ONE
, vol.7
, pp. 41079
-
-
Gauffin Cano, P.1
Santacruz, A.2
Moya, A.3
Sanz, Y.4
-
24
-
-
58549102934
-
A short-oligonucleotide microarray that allows improved detection of gastrointestinal tract microbial communities
-
10.1186/1471-2180-8-195
-
C.R. Harrington, S. Lucchini, K.P. Ridgway, U. Wegmann, T.J. Eaton, J.C. Hinton, M.J. Gasson, and A. Narbad A short-oligonucleotide microarray that allows improved detection of gastrointestinal tract microbial communities BMC Microbiol. 8 2008 195 10.1186/1471-2180-8-195
-
(2008)
BMC Microbiol.
, vol.8
, pp. 195
-
-
Harrington, C.R.1
Lucchini, S.2
Ridgway, K.P.3
Wegmann, U.4
Eaton, T.J.5
Hinton, J.C.6
Gasson, M.J.7
Narbad, A.8
-
25
-
-
84878737123
-
Innate lymphoid cells regulate CD4+ T-cell responses to intestinal commensal bacteria
-
M.R. Hepworth, L.A. Monticelli, T.C. Fung, C.G. Ziegler, S. Grunberg, R. Sinha, A.R. Mantegazza, H.L. Ma, A. Crawford, and J.M. Angelosanto Innate lymphoid cells regulate CD4+ T-cell responses to intestinal commensal bacteria Nature 498 2013 113 117
-
(2013)
Nature
, vol.498
, pp. 113-117
-
-
Hepworth, M.R.1
Monticelli, L.A.2
Fung, T.C.3
Ziegler, C.G.4
Grunberg, S.5
Sinha, R.6
Mantegazza, A.R.7
Ma, H.L.8
Crawford, A.9
Angelosanto, J.M.10
-
26
-
-
63749114562
-
Evidence for dendritic cell-dependent CD4(+) T helper-1 type responses to commensal bacteria in normal human intestinal lamina propria
-
R. Howe, S. Dillon, L. Rogers, M. McCarter, C. Kelly, R. Gonzalez, N. Madinger, and C.C. Wilson Evidence for dendritic cell-dependent CD4(+) T helper-1 type responses to commensal bacteria in normal human intestinal lamina propria Clin. Immunol. 131 2009 317 332
-
(2009)
Clin. Immunol.
, vol.131
, pp. 317-332
-
-
Howe, R.1
Dillon, S.2
Rogers, L.3
McCarter, M.4
Kelly, C.5
Gonzalez, R.6
Madinger, N.7
Wilson, C.C.8
-
27
-
-
67651125105
-
Role of viral replication, antiretroviral therapy, and immunodeficiency in HIV-associated atherosclerosis
-
P.Y. Hsue, P.W. Hunt, A. Schnell, S.C. Kalapus, R. Hoh, P. Ganz, J.N. Martin, and S.G. Deeks Role of viral replication, antiretroviral therapy, and immunodeficiency in HIV-associated atherosclerosis AIDS 23 2009 1059 1067
-
(2009)
AIDS
, vol.23
, pp. 1059-1067
-
-
Hsue, P.Y.1
Hunt, P.W.2
Schnell, A.3
Kalapus, S.C.4
Hoh, R.5
Ganz, P.6
Martin, J.N.7
Deeks, S.G.8
-
28
-
-
84860510071
-
Diversity and distribution of sulphate-reducing bacteria in human faeces from healthy subjects and patients with inflammatory bowel disease
-
W. Jia, R.N. Whitehead, L. Griffiths, C. Dawson, H. Bai, R.H. Waring, D.B. Ramsden, J.O. Hunter, M. Cauchi, and C. Bessant Diversity and distribution of sulphate-reducing bacteria in human faeces from healthy subjects and patients with inflammatory bowel disease FEMS Immunol. Med. Microbiol. 65 2012 55 68
-
(2012)
FEMS Immunol. Med. Microbiol.
, vol.65
, pp. 55-68
-
-
Jia, W.1
Whitehead, R.N.2
Griffiths, L.3
Dawson, C.4
Bai, H.5
Waring, R.H.6
Ramsden, D.B.7
Hunter, J.O.8
Cauchi, M.9
Bessant, C.10
-
29
-
-
84860123211
-
The inhibitory receptor PD-1 regulates IgA selection and bacterial composition in the gut
-
S. Kawamoto, T.H. Tran, M. Maruya, K. Suzuki, Y. Doi, Y. Tsutsui, L.M. Kato, and S. Fagarasan The inhibitory receptor PD-1 regulates IgA selection and bacterial composition in the gut Science 336 2012 485 489
-
(2012)
Science
, vol.336
, pp. 485-489
-
-
Kawamoto, S.1
Tran, T.H.2
Maruya, M.3
Suzuki, K.4
Doi, Y.5
Tsutsui, Y.6
Kato, L.M.7
Fagarasan, S.8
-
31
-
-
79953026458
-
Supervised classification of microbiota mitigates mislabeling errors
-
D. Knights, J. Kuczynski, O. Koren, R.E. Ley, D. Field, R. Knight, T.Z. DeSantis, and S.T. Kelley Supervised classification of microbiota mitigates mislabeling errors ISME J. 5 2011 570 573
-
(2011)
ISME J.
, vol.5
, pp. 570-573
-
-
Knights, D.1
Kuczynski, J.2
Koren, O.3
Ley, R.E.4
Field, D.5
Knight, R.6
Desantis, T.Z.7
Kelley, S.T.8
-
32
-
-
0033638742
-
Diarrhea and abnormalities of gastrointestinal function in a cohort of men and women with HIV infection
-
T.A. Knox, D. Spiegelman, S.C. Skinner, and S. Gorbach Diarrhea and abnormalities of gastrointestinal function in a cohort of men and women with HIV infection Am. J. Gastroenterol. 95 2000 3482 3489
-
(2000)
Am. J. Gastroenterol.
, vol.95
, pp. 3482-3489
-
-
Knox, T.A.1
Spiegelman, D.2
Skinner, S.C.3
Gorbach, S.4
-
33
-
-
84877331372
-
Intestinal microbiota metabolism of L-carnitine, a nutrient in red meat, promotes atherosclerosis
-
R.A. Koeth, Z. Wang, B.S. Levison, J.A. Buffa, E. Org, B.T. Sheehy, E.B. Britt, X. Fu, Y. Wu, and L. Li Intestinal microbiota metabolism of L-carnitine, a nutrient in red meat, promotes atherosclerosis Nat. Med. 19 2013 576 585
-
(2013)
Nat. Med.
, vol.19
, pp. 576-585
-
-
Koeth, R.A.1
Wang, Z.2
Levison, B.S.3
Buffa, J.A.4
Org, E.5
Sheehy, B.T.6
Britt, E.B.7
Fu, X.8
Wu, Y.9
Li, L.10
-
34
-
-
84864614787
-
Host remodeling of the gut microbiome and metabolic changes during pregnancy
-
O. Koren, J.K. Goodrich, T.C. Cullender, A. Spor, K. Laitinen, H.K. Bäckhed, A. Gonzalez, J.J. Werner, L.T. Angenent, and R. Knight Host remodeling of the gut microbiome and metabolic changes during pregnancy Cell 150 2012 470 480
-
(2012)
Cell
, vol.150
, pp. 470-480
-
-
Koren, O.1
Goodrich, J.K.2
Cullender, T.C.3
Spor, A.4
Laitinen, K.5
Bäckhed, H.K.6
Gonzalez, A.7
Werner, J.J.8
Angenent, L.T.9
Knight, R.10
-
35
-
-
84873510063
-
A guide to enterotypes across the human body: Meta-analysis of microbial community structures in human microbiome datasets
-
10.1371/journal.pcbi.1002863
-
O. Koren, D. Knights, A. Gonzalez, L. Waldron, N. Segata, R. Knight, C. Huttenhower, and R.E. Ley A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets PLoS Comput. Biol. 9 2013 e1002863 10.1371/journal.pcbi.1002863
-
(2013)
PLoS Comput. Biol.
, vol.9
, pp. 1002863
-
-
Koren, O.1
Knights, D.2
Gonzalez, A.3
Waldron, L.4
Segata, N.5
Knight, R.6
Huttenhower, C.7
Ley, R.E.8
-
36
-
-
0036285079
-
Sulfate-reducing bacteria in human feces and their association with inflammatory bowel diseases
-
J. Loubinoux, J.P. Bronowicki, I.A. Pereira, J.L. Mougenel, and A.E. Faou Sulfate-reducing bacteria in human feces and their association with inflammatory bowel diseases FEMS Microbiol. Ecol. 40 2002 107 112
-
(2002)
FEMS Microbiol. Ecol.
, vol.40
, pp. 107-112
-
-
Loubinoux, J.1
Bronowicki, J.P.2
Pereira, I.A.3
Mougenel, J.L.4
Faou, A.E.5
-
37
-
-
29144464937
-
UniFrac: A new phylogenetic method for comparing microbial communities
-
C. Lozupone, and R. Knight UniFrac: a new phylogenetic method for comparing microbial communities Appl. Environ. Microbiol. 71 2005 8228 8235
-
(2005)
Appl. Environ. Microbiol.
, vol.71
, pp. 8228-8235
-
-
Lozupone, C.1
Knight, R.2
-
38
-
-
33947269742
-
Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities
-
C.A. Lozupone, M. Hamady, S.T. Kelley, and R. Knight Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities Appl. Environ. Microbiol. 73 2007 1576 1585
-
(2007)
Appl. Environ. Microbiol.
, vol.73
, pp. 1576-1585
-
-
Lozupone, C.A.1
Hamady, M.2
Kelley, S.T.3
Knight, R.4
-
39
-
-
84866146940
-
Diversity, stability and resilience of the human gut microbiota
-
C.A. Lozupone, J.I. Stombaugh, J.I. Gordon, J.K. Jansson, and R. Knight Diversity, stability and resilience of the human gut microbiota Nature 489 2012 220 230
-
(2012)
Nature
, vol.489
, pp. 220-230
-
-
Lozupone, C.A.1
Stombaugh, J.I.2
Gordon, J.I.3
Jansson, J.K.4
Knight, R.5
-
40
-
-
84883864245
-
Meta-analyses of studies of the human microbiota
-
10.1101/gr.151803.112 Published online July 16, 2013
-
C.A. Lozupone, J. Stombaugh, A. Gonzalez, G. Ackermann, D. Wendel, Y. Vazquez-Baeza, J.K. Jansson, J.I. Gordon, and R. Knight Meta-analyses of studies of the human microbiota Genome Res. 2013 10.1101/gr.151803.112 Published online July 16, 2013
-
(2013)
Genome Res.
-
-
Lozupone, C.A.1
Stombaugh, J.2
Gonzalez, A.3
Ackermann, G.4
Wendel, D.5
Vazquez-Baeza, Y.6
Jansson, J.K.7
Gordon, J.I.8
Knight, R.9
-
41
-
-
2542523843
-
ARB: A software environment for sequence data
-
W. Ludwig, O. Strunk, R. Westram, L. Richter, H. Meier, Yadhukumar, A. Buchner, T. Lai, S. Steppi, and G. Jobb ARB: a software environment for sequence data Nucleic Acids Res. 32 2004 1363 1371
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1363-1371
-
-
Ludwig, W.1
Strunk, O.2
Westram, R.3
Richter, L.4
Meier, H.5
Yadhukumar6
Buchner, A.7
Lai, T.8
Steppi, S.9
Jobb, G.10
-
42
-
-
0033065070
-
Lipodystrophy in patients naive to HIV protease inhibitors
-
S. Madge, S. Kinloch-de-Loes, D. Mercey, M.A. Johnson, and I.V.D. Weller Lipodystrophy in patients naive to HIV protease inhibitors AIDS 13 1999 735 737
-
(1999)
AIDS
, vol.13
, pp. 735-737
-
-
Madge, S.1
Kinloch-De-Loes, S.2
Mercey, D.3
Johnson, M.A.4
Weller, I.V.D.5
-
43
-
-
22144490199
-
An immunomodulatory molecule of symbiotic bacteria directs maturation of the host immune system
-
S.K. Mazmanian, C.H. Liu, A.O. Tzianabos, and D.L. Kasper An immunomodulatory molecule of symbiotic bacteria directs maturation of the host immune system Cell 122 2005 107 118
-
(2005)
Cell
, vol.122
, pp. 107-118
-
-
Mazmanian, S.K.1
Liu, C.H.2
Tzianabos, A.O.3
Kasper, D.L.4
-
44
-
-
44449106055
-
A microbial symbiosis factor prevents intestinal inflammatory disease
-
S.K. Mazmanian, J.L. Round, and D.L. Kasper A microbial symbiosis factor prevents intestinal inflammatory disease Nature 453 2008 620 625
-
(2008)
Nature
, vol.453
, pp. 620-625
-
-
Mazmanian, S.K.1
Round, J.L.2
Kasper, D.L.3
-
45
-
-
84857122937
-
An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
-
D. McDonald, M.N. Price, J. Goodrich, E.P. Nawrocki, T.Z. DeSantis, A. Probst, G.L. Andersen, R. Knight, and P. Hugenholtz An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea ISME J. 6 2012 610 618
-
(2012)
ISME J.
, vol.6
, pp. 610-618
-
-
McDonald, D.1
Price, M.N.2
Goodrich, J.3
Nawrocki, E.P.4
Desantis, T.Z.5
Probst, A.6
Andersen, G.L.7
Knight, R.8
Hugenholtz, P.9
-
46
-
-
40349113425
-
The macaque gut microbiome in health, lentiviral infection, and chronic enterocolitis
-
10.1371/journal.ppat.0040020
-
P. McKenna, C. Hoffmann, N. Minkah, P.P. Aye, A. Lackner, Z. Liu, C.A. Lozupone, M. Hamady, R. Knight, and F.D. Bushman The macaque gut microbiome in health, lentiviral infection, and chronic enterocolitis PLoS Pathog. 4 2008 e20 10.1371/journal.ppat.0040020
-
(2008)
PLoS Pathog.
, vol.4
, pp. 20
-
-
McKenna, P.1
Hoffmann, C.2
Minkah, N.3
Aye, P.P.4
Lackner, A.5
Liu, Z.6
Lozupone, C.A.7
Hamady, M.8
Knight, R.9
Bushman, F.D.10
-
47
-
-
72949117233
-
The immune response during acute HIV-1 infection: Clues for vaccine development
-
A.J. McMichael, P. Borrow, G.D. Tomaras, N. Goonetilleke, and B.F. Haynes The immune response during acute HIV-1 infection: clues for vaccine development Nat. Rev. Immunol. 10 2010 11 23
-
(2010)
Nat. Rev. Immunol.
, vol.10
, pp. 11-23
-
-
McMichael, A.J.1
Borrow, P.2
Tomaras, G.D.3
Goonetilleke, N.4
Haynes, B.F.5
-
48
-
-
84883860231
-
SIV-induced instability of the chimpanzee gut microbiome
-
this issue
-
A.H. Moeller, M. Shilts, Y. Li, R.S. Rudicell, E.V. Lonsdorf, A.E. Pusey, M.L. Wilson, B.H. Hahn, and H. Ochman SIV-induced instability of the chimpanzee gut microbiome Cell Host Microbe 14 2013 340 345 this issue
-
(2013)
Cell Host Microbe
, vol.14
, pp. 340-345
-
-
Moeller, A.H.1
Shilts, M.2
Li, Y.3
Rudicell, R.S.4
Lonsdorf, E.V.5
Pusey, A.E.6
Wilson, M.L.7
Hahn, B.H.8
Ochman, H.9
-
49
-
-
77953679372
-
Innate immune recognition and activation during HIV infection
-
10.1186/1742-4690-7-54
-
T.H. Mogensen, J. Melchjorsen, C.S. Larsen, and S.R. Paludan Innate immune recognition and activation during HIV infection Retrovirology 7 2010 54 10.1186/1742-4690-7-54
-
(2010)
Retrovirology
, vol.7
, pp. 54
-
-
Mogensen, T.H.1
Melchjorsen, J.2
Larsen, C.S.3
Paludan, S.R.4
-
51
-
-
84877860208
-
HAART-associated dyslipidemia varies by biogeographical ancestry in the multicenter AIDS cohort study
-
M.J. Nicholaou, J.J. Martinson, A.G. Abraham, T.T. Brown, S.K. Hussain, S.M. Wolinsky, and L.A. Kingsley HAART-associated dyslipidemia varies by biogeographical ancestry in the multicenter AIDS cohort study AIDS Res. Hum. Retroviruses 29 2013 871 879
-
(2013)
AIDS Res. Hum. Retroviruses
, vol.29
, pp. 871-879
-
-
Nicholaou, M.J.1
Martinson, J.J.2
Abraham, A.G.3
Brown, T.T.4
Hussain, S.K.5
Wolinsky, S.M.6
Kingsley, L.A.7
-
52
-
-
79957601426
-
Microbial community and metabolomic comparison of irritable bowel syndrome faeces
-
K. Ponnusamy, J.N. Choi, J. Kim, S.Y. Lee, and C.H. Lee Microbial community and metabolomic comparison of irritable bowel syndrome faeces J. Med. Microbiol. 60 2011 817 827
-
(2011)
J. Med. Microbiol.
, vol.60
, pp. 817-827
-
-
Ponnusamy, K.1
Choi, J.N.2
Kim, J.3
Lee, S.Y.4
Lee, C.H.5
-
53
-
-
77954738601
-
Inducible Foxp3+ regulatory T-cell development by a commensal bacterium of the intestinal microbiota
-
J.L. Round, and S.K. Mazmanian Inducible Foxp3+ regulatory T-cell development by a commensal bacterium of the intestinal microbiota Proc. Natl. Acad. Sci. USA 107 2010 12204 12209
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 12204-12209
-
-
Round, J.L.1
Mazmanian, S.K.2
-
54
-
-
77950525439
-
Programmed death-1-induced interleukin-10 production by monocytes impairs CD4+ T cell activation during HIV infection
-
E.A. Said, F.P. Dupuy, L. Trautmann, Y. Zhang, Y. Shi, M. El-Far, B.J. Hill, A. Noto, P. Ancuta, and Y. Peretz Programmed death-1-induced interleukin-10 production by monocytes impairs CD4+ T cell activation during HIV infection Nat. Med. 16 2010 452 459
-
(2010)
Nat. Med.
, vol.16
, pp. 452-459
-
-
Said, E.A.1
Dupuy, F.P.2
Trautmann, L.3
Zhang, Y.4
Shi, Y.5
El-Far, M.6
Hill, B.J.7
Noto, A.8
Ancuta, P.9
Peretz, Y.10
-
55
-
-
84856043672
-
A mathematical theory of communication
-
C.E. Shannon A mathematical theory of communication Bell Syst. Tech. J. 27 1948 379 423
-
(1948)
Bell Syst. Tech. J.
, vol.27
, pp. 379-423
-
-
Shannon, C.E.1
-
56
-
-
84873875156
-
Gut microbiomes of Malawian twin pairs discordant for kwashiorkor
-
M.I. Smith, T. Yatsunenko, M.J. Manary, I. Trehan, R. Mkakosya, J. Cheng, A.L. Kau, S.S. Rich, P. Concannon, and J.C. Mychaleckyj Gut microbiomes of Malawian twin pairs discordant for kwashiorkor Science 339 2013 548 554
-
(2013)
Science
, vol.339
, pp. 548-554
-
-
Smith, M.I.1
Yatsunenko, T.2
Manary, M.J.3
Trehan, I.4
Mkakosya, R.5
Cheng, J.6
Kau, A.L.7
Rich, S.S.8
Concannon, P.9
Mychaleckyj, J.C.10
-
57
-
-
0028028182
-
Taxonomic note: A place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology
-
E. Stackebrandt, and B.M. Goebal Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology Int. Syst. Bacteriol. 44 1994 846 849
-
(1994)
Int. Syst. Bacteriol.
, vol.44
, pp. 846-849
-
-
Stackebrandt, E.1
Goebal, B.M.2
-
58
-
-
0032540418
-
Gastrointestinal tract as a major site of CD4+ T cell depletion and viral replication in SIV infection
-
R.S. Veazey, M. DeMaria, L.V. Chalifoux, D.E. Shvetz, D.R. Pauley, H.L. Knight, M. Rosenzweig, R.P. Johnson, R.C. Desrosiers, and A.A. Lackner Gastrointestinal tract as a major site of CD4+ T cell depletion and viral replication in SIV infection Science 280 1998 427 431
-
(1998)
Science
, vol.280
, pp. 427-431
-
-
Veazey, R.S.1
Demaria, M.2
Chalifoux, L.V.3
Shvetz, D.E.4
Pauley, D.R.5
Knight, H.L.6
Rosenzweig, M.7
Johnson, R.P.8
Desrosiers, R.C.9
Lackner, A.A.10
-
59
-
-
77950250064
-
Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5
-
M. Vijay-Kumar, J.D. Aitken, F.A. Carvalho, T.C. Cullender, S. Mwangi, S. Srinivasan, S.V. Sitaraman, R. Knight, R.E. Ley, and A.T. Gewirtz Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5 Science 328 2010 228 231
-
(2010)
Science
, vol.328
, pp. 228-231
-
-
Vijay-Kumar, M.1
Aitken, J.D.2
Carvalho, F.A.3
Cullender, T.C.4
Mwangi, S.5
Srinivasan, S.6
Sitaraman, S.V.7
Knight, R.8
Ley, R.E.9
Gewirtz, A.T.10
-
60
-
-
0032867258
-
Epidemiological and clinical aspects of the metabolic complications of HIV infection the fat redistribution syndrome
-
C.A. Wanke Epidemiological and clinical aspects of the metabolic complications of HIV infection the fat redistribution syndrome AIDS 13 1999 1287 1293
-
(1999)
AIDS
, vol.13
, pp. 1287-1293
-
-
Wanke, C.A.1
-
61
-
-
0034457083
-
Weight loss and wasting remain common complications in individuals infected with human immunodeficiency virus in the era of highly active antiretroviral therapy
-
C.A. Wanke, M. Silva, T.A. Knox, J. Forrester, D. Speigelman, and S.L. Gorbach Weight loss and wasting remain common complications in individuals infected with human immunodeficiency virus in the era of highly active antiretroviral therapy Clin. Infect. Dis. 31 2000 803 805
-
(2000)
Clin. Infect. Dis.
, vol.31
, pp. 803-805
-
-
Wanke, C.A.1
Silva, M.2
Knox, T.A.3
Forrester, J.4
Speigelman, D.5
Gorbach, S.L.6
-
62
-
-
78649686679
-
A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes
-
B.P. Willing, J. Dicksved, J. Halfvarson, A.F. Andersson, M. Lucio, Z. Zheng, G. Jarnerot, C. Tysk, J.K. Jansson, and L. Engstrand A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes Gastroenterology 139 2010 1844 1854
-
(2010)
Gastroenterology
, vol.139
, pp. 1844-1854
-
-
Willing, B.P.1
Dicksved, J.2
Halfvarson, J.3
Andersson, A.F.4
Lucio, M.5
Zheng, Z.6
Jarnerot, G.7
Tysk, C.8
Jansson, J.K.9
Engstrand, L.10
-
63
-
-
80053618114
-
Linking long-term dietary patterns with gut microbial enterotypes
-
G.D. Wu, J. Chen, C. Hoffmann, K. Bittinger, Y.Y. Chen, S.A. Keilbaugh, M. Bewtra, D. Knights, W.A. Walters, and R. Knight Linking long-term dietary patterns with gut microbial enterotypes Science 334 2011 105 108
-
(2011)
Science
, vol.334
, pp. 105-108
-
-
Wu, G.D.1
Chen, J.2
Hoffmann, C.3
Bittinger, K.4
Chen, Y.Y.5
Keilbaugh, S.A.6
Bewtra, M.7
Knights, D.8
Walters, W.A.9
Knight, R.10
-
64
-
-
84862141704
-
Human gut microbiome viewed across age and geography
-
T. Yatsunenko, F.E. Rey, M.J. Manary, I. Trehan, M.G. Dominguez-Bello, M. Contreras, M. Magris, G. Hidalgo, R.N. Baldassano, and A.P. Anokhin Human gut microbiome viewed across age and geography Nature 486 2012 222 227
-
(2012)
Nature
, vol.486
, pp. 222-227
-
-
Yatsunenko, T.1
Rey, F.E.2
Manary, M.J.3
Trehan, I.4
Dominguez-Bello, M.G.5
Contreras, M.6
Magris, M.7
Hidalgo, G.8
Baldassano, R.N.9
Anokhin, A.P.10
-
65
-
-
84877839153
-
IL-22 deficiency alters colonic microbiota to be transmissible and colitogenic
-
L.A. Zenewicz, X. Yin, G. Wang, E. Elinav, L. Hao, L. Zhao, and R.A. Flavell IL-22 deficiency alters colonic microbiota to be transmissible and colitogenic J. Immunol. 190 2013 5306 5312
-
(2013)
J. Immunol.
, vol.190
, pp. 5306-5312
-
-
Zenewicz, L.A.1
Yin, X.2
Wang, G.3
Elinav, E.4
Hao, L.5
Zhao, L.6
Flavell, R.A.7
|