-
1
-
-
84864037467
-
Metabolic reconstruction for metagenomic data and its application to the human microbiome
-
Abubucker S, Segata N, Goll J, Schubert AM, Izard J, Cantarel BL, Rodriguez-Mueller B, Zucker J, Thiagarajan M, Henrissat B, White O, Kelley ST, Methe B, Schloss PD, Gevers D, Mitreva M, Huttenhower C, (2012) Metabolic reconstruction for metagenomic data and its application to the human microbiome. PLoS Comp Biol 8: e1002358
-
(2012)
PLoS Comp Biol
, vol.8
, pp. e1002358
-
-
Abubucker, S.1
Segata, N.2
Goll, J.3
Schubert, A.M.4
Izard, J.5
Cantarel, B.L.6
Rodriguez-Mueller, B.7
Zucker, J.8
Thiagarajan, M.9
Henrissat, B.10
White, O.11
Kelley, S.T.12
Methe, B.13
Schloss, P.D.14
Gevers, D.15
Mitreva, M.16
Huttenhower, C.17
-
2
-
-
0030049351
-
A comparison of fecal occult-blood tests for colorectal-cancer screening
-
Allison JE, Tekawa IS, Ransom LJ, Adrain AL, (1996) A comparison of fecal occult-blood tests for colorectal-cancer screening. New Engl J Med 334: 155-159
-
(1996)
New Engl J Med
, vol.334
, pp. 155-159
-
-
Allison, J.E.1
Tekawa, I.S.2
Ransom, L.J.3
Adrain, A.L.4
-
3
-
-
35148854443
-
Screening for colorectal neoplasms with new fecal occult blood tests: Update on performance characteristics
-
Allison JE, Sakoda LC, Levin TR, Tucker JP, Tekawa IS, Cuff T, Pauly MP, Shlager L, Palitz AM, Zhao WK, Schwartz JS, Ransohoff DF, Selby JV, (2007) Screening for colorectal neoplasms with new fecal occult blood tests: update on performance characteristics. J Natl Cancer Inst 99: 1462-1470
-
(2007)
J Natl Cancer Inst
, vol.99
, pp. 1462-1470
-
-
Allison, J.E.1
Sakoda, L.C.2
Levin, T.R.3
Tucker, J.P.4
Tekawa, I.S.5
Cuff, T.6
Pauly, M.P.7
Shlager, L.8
Palitz, A.M.9
Zhao, W.K.10
Schwartz, J.S.11
Ransohoff, D.F.12
Selby, J.V.13
-
4
-
-
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
-
(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
-
5
-
-
84867192879
-
Intestinal inflammation targets cancer-inducing activity of the microbiota
-
Arthur JC, Perez-Chanona E, Muhlbauer M, Tomkovich S, Uronis JM, Fan TJ, Campbell BJ, Abujamel T, Dogan B, Rogers AB, Rhodes JM, Stintzi A, Simpson KW, Hansen JJ, Keku TO, Fodor AA, Jobin C, (2012) Intestinal inflammation targets cancer-inducing activity of the microbiota. Science 338: 120-123
-
(2012)
Science
, vol.338
, pp. 120-123
-
-
Arthur, J.C.1
Perez-Chanona, E.2
Muhlbauer, M.3
Tomkovich, S.4
Uronis, J.M.5
Fan, T.J.6
Campbell, B.J.7
Abujamel, T.8
Dogan, B.9
Rogers, A.B.10
Rhodes, J.M.11
Stintzi, A.12
Simpson, K.W.13
Hansen, J.J.14
Keku, T.O.15
Fodor, A.A.16
Jobin, C.17
-
6
-
-
78449297680
-
SmashCommunity: A metagenomic annotation and analysis tool
-
Arumugam M, Harrington ED, Foerstner KU, Raes J, Bork P, (2010) SmashCommunity: a metagenomic annotation and analysis tool. Bioinformatics 26: 2977-2978
-
(2010)
Bioinformatics
, vol.26
, pp. 2977-2978
-
-
Arumugam, M.1
Harrington, E.D.2
Foerstner, K.U.3
Raes, J.4
Bork, P.5
-
7
-
-
85027927719
-
Enterotypes of the human gut microbiome
-
Arumugam M, Raes J, Pelletier E, Le Paslier D, Yamada T, Mende DR, Fernandes GR, Tap J, Bruls T, Batto JM, Bertalan M, Borruel N, Casellas F, Fernandez L, Gautier L, Hansen T, Hattori M, Hayashi T, Kleerebezem M, Kurokawa K, et al, (2011) Enterotypes of the human gut microbiome. Nature 473: 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
Bertalan, M.11
Borruel, N.12
Casellas, F.13
Fernandez, L.14
Gautier, L.15
Hansen, T.16
Hattori, M.17
Hayashi, T.18
Kleerebezem, M.19
Kurokawa, K.20
more..
-
8
-
-
84900563153
-
Addendum: Enterotypes of the human gut microbiome
-
Arumugam M, Raes J, Pelletier E, Le Paslier D, Yamada T, Mende DR, Fernandes GR, Tap J, Bruls T, Batto JM, Bertalan M, Borruel N, Casellas F, Fernandez L, Gautier L, Hansen T, Hattori M, Hayashi T, Kleerebezem M, Kurokawa K, et al, (2014) Addendum: enterotypes of the human gut microbiome. Nature 506: 516
-
(2014)
Nature
, vol.506
, pp. 516
-
-
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
Bertalan, M.11
Borruel, N.12
Casellas, F.13
Fernandez, L.14
Gautier, L.15
Hansen, T.16
Hattori, M.17
Hayashi, T.18
Kleerebezem, M.19
Kurokawa, K.20
more..
-
9
-
-
84880962090
-
Mucin-type O-glycans and their roles in intestinal homeostasis
-
Bergstrom KS, Xia L, (2013) Mucin-type O-glycans and their roles in intestinal homeostasis. Glycobiology 23: 1026-1037
-
(2013)
Glycobiology
, vol.23
, pp. 1026-1037
-
-
Bergstrom, K.S.1
Xia, L.2
-
10
-
-
0035865012
-
Cancer risk in patients with inflammatory bowel disease: A population-based study
-
Bernstein CN, Blanchard JF, Kliewer E, Wajda A, (2001) Cancer risk in patients with inflammatory bowel disease: a population-based study. Cancer 91: 854-862
-
(2001)
Cancer
, vol.91
, pp. 854-862
-
-
Bernstein, C.N.1
Blanchard, J.F.2
Kliewer, E.3
Wajda, A.4
-
11
-
-
84862116034
-
Gut bacteria in health and disease: A survey on the interface between intestinal microbiology and colorectal cancer
-
Boleij A, Tjalsma H, (2012) Gut bacteria in health and disease: a survey on the interface between intestinal microbiology and colorectal cancer. Biol Rev Camb Philos Soc 87: 701-730
-
(2012)
Biol Rev Camb Philos Soc
, vol.87
, pp. 701-730
-
-
Boleij, A.1
Tjalsma, H.2
-
12
-
-
84863922124
-
Comprehensive molecular characterization of human colon and rectal cancer
-
Cancer Genome Atlas Network.
-
Cancer Genome Atlas Network (2012) Comprehensive molecular characterization of human colon and rectal cancer. Nature 487: 330-337
-
(2012)
Nature
, vol.487
, pp. 330-337
-
-
-
13
-
-
58149200943
-
The Carbohydrate-Active EnZymes database (CAZy): An expert resource for Glycogenomics
-
Cantarel BL, Coutinho PM, Rancurel C, Bernard T, Lombard V, Henrissat B, (2009) The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics. Nucleic Acids Res 37: D233-D238
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D233-D238
-
-
Cantarel, B.L.1
Coutinho, P.M.2
Rancurel, C.3
Bernard, T.4
Lombard, V.5
Henrissat, B.6
-
14
-
-
84862200127
-
Complex carbohydrate utilization by the healthy human microbiome
-
Cantarel BL, Lombard V, Henrissat B, (2012) Complex carbohydrate utilization by the healthy human microbiome. PLoS One 7: e28742
-
(2012)
PLoS One
, vol.7
, pp. e28742
-
-
Cantarel, B.L.1
Lombard, V.2
Henrissat, B.3
-
15
-
-
79952005915
-
Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
-
Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Lozupone CA, Turnbaugh PJ, Fierer N, Knight R, (2011) Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc Natl Acad Sci USA 108 (Suppl 1): 4516-4522
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 4516-4522
-
-
Caporaso, J.G.1
Lauber, C.L.2
Walters, W.A.3
Berg-Lyons, D.4
Lozupone, C.A.5
Turnbaugh, P.J.6
Fierer, N.7
Knight, R.8
-
16
-
-
0034650930
-
Lipopolysaccharide activates distinct signaling pathways in intestinal epithelial cell lines expressing Toll-like receptors
-
Cario E, Rosenberg IM, Brandwein SL, Beck PL, Reinecker HC, Podolsky DK, (2000) Lipopolysaccharide activates distinct signaling pathways in intestinal epithelial cell lines expressing Toll-like receptors. J Immunol 164: 966-972
-
(2000)
J Immunol
, vol.164
, pp. 966-972
-
-
Cario, E.1
Rosenberg, I.M.2
Brandwein, S.L.3
Beck, P.L.4
Reinecker, H.C.5
Podolsky, D.K.6
-
17
-
-
84856534859
-
Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma
-
Castellarin M, Warren RL, Freeman JD, Dreolini L, Krzywinski M, Strauss J, Barnes R, Watson P, Allen-Vercoe E, Moore RA, Holt RA, (2012) Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma. Genome Res 22: 299-306
-
(2012)
Genome Res
, vol.22
, pp. 299-306
-
-
Castellarin, M.1
Warren, R.L.2
Freeman, J.D.3
Dreolini, L.4
Krzywinski, M.5
Strauss, J.6
Barnes, R.7
Watson, P.8
Allen-Vercoe, E.9
Moore, R.A.10
Holt, R.A.11
-
18
-
-
84864722033
-
Gut microbiota composition correlates with diet and health in the elderly
-
Claesson MJ, Jeffery IB, Conde S, Power SE, O'Connor EM, Cusack S, Harris HM, Coakley M, Lakshminarayanan B, O'Sullivan O, Fitzgerald GF, Deane J, O'Connor M, Harnedy N, O'Connor K, O'Mahony D, van Sinderen D, Wallace M, Brennan L, Stanton C, et al, (2012) Gut microbiota composition correlates with diet and health in the elderly. Nature 488: 178-184
-
(2012)
Nature
, vol.488
, pp. 178-184
-
-
Claesson, M.J.1
Jeffery, I.B.2
Conde, S.3
Power, S.E.4
O'Connor, E.M.5
Cusack, S.6
Harris, H.M.7
Coakley, M.8
Lakshminarayanan, B.9
O'Sullivan, O.10
Fitzgerald, G.F.11
Deane, J.12
O'Connor, M.13
Harnedy, N.14
O'Connor, K.15
O'Mahony, D.16
Van Sinderen, D.17
Wallace, M.18
Brennan, L.19
Stanton, C.20
more..
-
19
-
-
77954730486
-
Escherichia coli induces DNA damage in vivo and triggers genomic instability in mammalian cells
-
Cuevas-Ramos G, Petit CR, Marcq I, Boury M, Oswald E, Nougayrede JP, (2010) Escherichia coli induces DNA damage in vivo and triggers genomic instability in mammalian cells. Proc Natl Acad Sci USA 107: 11537-11542
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 11537-11542
-
-
Cuevas-Ramos, G.1
Petit, C.R.2
Marcq, I.3
Boury, M.4
Oswald, E.5
Nougayrede, J.P.6
-
20
-
-
84892828465
-
Diet rapidly and reproducibly alters the human gut microbiome
-
David LA, Maurice CF, Carmody RN, Gootenberg DB, Button JE, Wolfe BE, Ling AV, Devlin AS, Varma Y, Fischbach MA, Biddinger SB, Dutton RJ, Turnbaugh PJ, (2014) Diet rapidly and reproducibly alters the human gut microbiome. Nature 505: 559-563
-
(2014)
Nature
, vol.505
, pp. 559-563
-
-
David, L.A.1
Maurice, C.F.2
Carmody, R.N.3
Gootenberg, D.B.4
Button, J.E.5
Wolfe, B.E.6
Ling, A.V.7
Devlin, A.S.8
Varma, Y.9
Fischbach, M.A.10
Biddinger, S.B.11
Dutton, R.J.12
Turnbaugh, P.J.13
-
21
-
-
79959438740
-
Fusobacterium nucleatum infection of colonic cells stimulates MUC2 mucin and tumor necrosis factor alpha
-
Dharmani P, Strauss J, Ambrose C, Allen-Vercoe E, Chadee K, (2011) Fusobacterium nucleatum infection of colonic cells stimulates MUC2 mucin and tumor necrosis factor alpha. Infect Immun 79: 2597-2607
-
(2011)
Infect Immun
, vol.79
, pp. 2597-2607
-
-
Dharmani, P.1
Strauss, J.2
Ambrose, C.3
Allen-Vercoe, E.4
Chadee, K.5
-
22
-
-
33646175952
-
Peptostreptococcus stomatis sp. Nov., isolated from the human oral cavity
-
Downes J, Wade WG, (2006) Peptostreptococcus stomatis sp. nov., isolated from the human oral cavity. Int J Syst Evol Microbiol 56: 751-754
-
(2006)
Int J Syst Evol Microbiol
, vol.56
, pp. 751-754
-
-
Downes, J.1
Wade, W.G.2
-
23
-
-
84879093875
-
Screening metatranscriptomes for toxin genes as functional drivers of human colorectal cancer
-
Dutilh BE, Backus L, van Hijum SA, Tjalsma H, (2013) Screening metatranscriptomes for toxin genes as functional drivers of human colorectal cancer. Best Pract Res Clin Gastroenterol 27: 85-99
-
(2013)
Best Pract Res Clin Gastroenterol
, vol.27
, pp. 85-99
-
-
Dutilh, B.E.1
Backus, L.2
Van Hijum, S.A.3
Tjalsma, H.4
-
24
-
-
80055082271
-
Accelerated profile HMM searches
-
Eddy SR, (2011) Accelerated profile HMM searches. PLoS Comput Biol 7: e1002195
-
(2011)
PLoS Comput Biol
, vol.7
, pp. e1002195
-
-
Eddy, S.R.1
-
25
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
Edgar RC, (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461
-
(2010)
Bioinformatics
, vol.26
, pp. 2460-2461
-
-
Edgar, R.C.1
-
26
-
-
84879411201
-
The abundance and variety of carbohydrate-active enzymes in the human gut microbiota
-
El Kaoutari A, Armougom F, Gordon JI, Raoult D, Henrissat B, (2013) The abundance and variety of carbohydrate-active enzymes in the human gut microbiota. Nat Rev Microbiol 11: 497-504
-
(2013)
Nat Rev Microbiol
, vol.11
, pp. 497-504
-
-
El Kaoutari, A.1
Armougom, F.2
Gordon, J.I.3
Raoult, D.4
Henrissat, B.5
-
27
-
-
2942592573
-
Reduction in colorectal cancer mortality by fecal occult blood screening in a French controlled study
-
Faivre J, Dancourt V, Lejeune C, Tazi MA, Lamour J, Gerard D, Dassonville F, Bonithon-Kopp C, (2004) Reduction in colorectal cancer mortality by fecal occult blood screening in a French controlled study. Gastroenterology 126: 1674-1680
-
(2004)
Gastroenterology
, vol.126
, pp. 1674-1680
-
-
Faivre, J.1
Dancourt, V.2
Lejeune, C.3
Tazi, M.A.4
Lamour, J.5
Gerard, D.6
Dassonville, F.7
Bonithon-Kopp, C.8
-
28
-
-
50949133669
-
LIBLINEAR: A library for large linear classification
-
Fan RE, Chang KW, Hsieh CJ, Wang XR, Lin CJ, (2008) LIBLINEAR: a library for large linear classification. JMLR 9: 1871-1874
-
(2008)
JMLR
, vol.9
, pp. 1871-1874
-
-
Fan, R.E.1
Chang, K.W.2
Hsieh, C.J.3
Wang, X.R.4
Lin, C.J.5
-
29
-
-
0036109161
-
Toxins and the gut: Role in human disease
-
Fasano A, (2002) Toxins and the gut: role in human disease. Gut 50: III9-III14
-
(2002)
Gut
, vol.50
, pp. III9-III14
-
-
Fasano, A.1
-
30
-
-
78650762588
-
A scalable, fully automated process for construction of sequence-ready human exome targeted capture libraries
-
Fisher S, Barry A, Abreu J, Minie B, Nolan J, Delorey TM, Young G, Fennell TJ, Allen A, Ambrogio L, Berlin AM, Blumenstiel B, Cibulskis K, Friedrich D, Johnson R, Juhn F, Reilly B, Shammas R, Stalker J, Sykes SM, et al, (2011) A scalable, fully automated process for construction of sequence-ready human exome targeted capture libraries. Genome Biol 12: R1
-
(2011)
Genome Biol
, vol.12
, pp. R1
-
-
Fisher, S.1
Barry, A.2
Abreu, J.3
Minie, B.4
Nolan, J.5
Delorey, T.M.6
Young, G.7
Fennell, T.J.8
Allen, A.9
Ambrogio, L.10
Berlin, A.M.11
Blumenstiel, B.12
Cibulskis, K.13
Friedrich, D.14
Johnson, R.15
Juhn, F.16
Reilly, B.17
Shammas, R.18
Stalker, J.19
Sykes, S.M.20
more..
-
31
-
-
84903817580
-
Fusobacterium nucleatum associates with stages of colorectal neoplasia development, colorectal cancer and disease outcome
-
Flanagan L, Schmid J, Ebert M, Soucek P, Kunicka T, Liska V, Bruha J, Neary P, Dezeeuw N, Tommasino M, Jenab M, Prehn JH, Hughes DJ, (2014) Fusobacterium nucleatum associates with stages of colorectal neoplasia development, colorectal cancer and disease outcome. Eur J Clin Microbiol Infect Dis 33: 1381-1390
-
(2014)
Eur J Clin Microbiol Infect Dis
, vol.33
, pp. 1381-1390
-
-
Flanagan, L.1
Schmid, J.2
Ebert, M.3
Soucek, P.4
Kunicka, T.5
Liska, V.6
Bruha, J.7
Neary, P.8
Dezeeuw, N.9
Tommasino, M.10
Jenab, M.11
Prehn, J.H.12
Hughes, D.J.13
-
32
-
-
79953307656
-
Loss of intestinal core 1-derived O-glycans causes spontaneous colitis in mice
-
Fu J, Wei B, Wen T, Johansson ME, Liu X, Bradford E, Thomsson KA, McGee S, Mansour L, Tong M, McDaniel JM, Sferra TJ, Turner JR, Chen H, Hansson GC, Braun J, Xia L, (2011) Loss of intestinal core 1-derived O-glycans causes spontaneous colitis in mice. J Clin Invest 121: 1657-1666
-
(2011)
J Clin Invest
, vol.121
, pp. 1657-1666
-
-
Fu, J.1
Wei, B.2
Wen, T.3
Johansson, M.E.4
Liu, X.5
Bradford, E.6
Thomsson, K.A.7
McGee, S.8
Mansour, L.9
Tong, M.10
McDaniel, J.M.11
Sferra, T.J.12
Turner, J.R.13
Chen, H.14
Hansson, G.C.15
Braun, J.16
Xia, L.17
-
33
-
-
65549150087
-
Comparative assessment of human and farm animal faecal microbiota using real-time quantitative PCR
-
Furet JP, Firmesse O, Gourmelon M, Bridonneau C, Tap J, Mondot S, Dore J, Corthier G, (2009) Comparative assessment of human and farm animal faecal microbiota using real-time quantitative PCR. FEMS Microbiol Ecol 68: 351-362
-
(2009)
FEMS Microbiol Ecol
, vol.68
, pp. 351-362
-
-
Furet, J.P.1
Firmesse, O.2
Gourmelon, M.3
Bridonneau, C.4
Tap, J.5
Mondot, S.6
Dore, J.7
Corthier, G.8
-
34
-
-
4944242891
-
Polyamines and cancer: Old molecules, new understanding
-
Gerner EW, Meyskens FL Jr, (2004) Polyamines and cancer: old molecules, new understanding. Nat Rev Cancer 4: 781-792
-
(2004)
Nat Rev Cancer
, vol.4
, pp. 781-792
-
-
Gerner, E.W.1
Meyskens, Jr.F.L.2
-
35
-
-
84896092821
-
The treatment-naive microbiome in new-onset Crohn's disease
-
Gevers D, Kugathasan S, Denson LA, Vazquez-Baeza Y, Van Treuren W, Ren B, Schwager E, Knights D, Song SJ, Yassour M, Morgan XC, Kostic AD, Luo C, Gonzalez A, McDonald D, Haberman Y, Walters T, Baker S, Rosh J, Stephens M, et al, (2014) The treatment-naive microbiome in new-onset Crohn's disease. Cell Host Microbe 15: 382-392
-
(2014)
Cell Host Microbe
, vol.15
, pp. 382-392
-
-
Gevers, D.1
Kugathasan, S.2
Denson, L.A.3
Vazquez-Baeza, Y.4
Van Treuren, W.5
Ren, B.6
Schwager, E.7
Knights, D.8
Song, S.J.9
Yassour, M.10
Morgan, X.C.11
Kostic, A.D.12
Luo, C.13
Gonzalez, A.14
McDonald, D.15
Haberman, Y.16
Walters, T.17
Baker, S.18
Rosh, J.19
Stephens, M.20
more..
-
36
-
-
80053079336
-
Polyamine catabolism contributes to enterotoxigenic Bacteroides fragilis-induced colon tumorigenesis
-
Goodwin AC, Destefano Shields CE, Wu S, Huso DL, Wu X, Murray-Stewart TR, Hacker-Prietz A, Rabizadeh S, Woster PM, Sears CL, Casero RA Jr, (2011) Polyamine catabolism contributes to enterotoxigenic Bacteroides fragilis-induced colon tumorigenesis. Proc Natl Acad Sci USA 108: 15354-15359
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 15354-15359
-
-
Goodwin, A.C.1
Destefano Shields, C.E.2
Wu, S.3
Huso, D.L.4
Wu, X.5
Murray-Stewart, T.R.6
Hacker-Prietz, A.7
Rabizadeh, S.8
Woster, P.M.9
Sears, C.L.10
Casero, Jr.R.A.11
-
37
-
-
73449097516
-
Screening for colorectal cancer: Randomised trial comparing guaiac-based and immunochemical faecal occult blood testing and flexible sigmoidoscopy
-
Hol L, van Leerdam ME, van Ballegooijen M, van Vuuren AJ, van Dekken H, Reijerink JC, van der Togt AC, Habbema JD, Kuipers EJ, (2010) Screening for colorectal cancer: randomised trial comparing guaiac-based and immunochemical faecal occult blood testing and flexible sigmoidoscopy. Gut 59: 62-68
-
(2010)
Gut
, vol.59
, pp. 62-68
-
-
Hol, L.1
Van Leerdam, M.E.2
Van Ballegooijen, M.3
Van Vuuren, A.J.4
Van Dekken, H.5
Reijerink, J.C.6
Van Der Togt, A.C.7
Habbema, J.D.8
Kuipers, E.J.9
-
38
-
-
79952236601
-
LPS-induced TLR4 signaling in human colorectal cancer cells increases beta1 integrin-mediated cell adhesion and liver metastasis
-
Hsu RY, Chan CH, Spicer JD, Rousseau MC, Giannias B, Rousseau S, Ferri LE, (2011) LPS-induced TLR4 signaling in human colorectal cancer cells increases beta1 integrin-mediated cell adhesion and liver metastasis. Cancer Res 71: 1989-1998
-
(2011)
Cancer Res
, vol.71
, pp. 1989-1998
-
-
Hsu, R.Y.1
Chan, C.H.2
Spicer, J.D.3
Rousseau, M.C.4
Giannias, B.5
Rousseau, S.6
Ferri, L.E.7
-
39
-
-
84862276328
-
Structure, function and diversity of the healthy human microbiome
-
Human Microbiome Project Consortium.
-
Human Microbiome Project Consortium (2012) Structure, function and diversity of the healthy human microbiome. Nature 486: 207-214
-
(2012)
Nature
, vol.486
, pp. 207-214
-
-
-
40
-
-
84897509377
-
Multitarget stool DNA testing for colorectal-cancer screening
-
Imperiale TF, Ransohoff DF, Itzkowitz SH, Levin TR, Lavin P, Lidgard GP, Ahlquist DA, Berger BM, (2014) Multitarget stool DNA testing for colorectal-cancer screening. New Engl J Med 370: 1287-1297
-
(2014)
New Engl J Med
, vol.370
, pp. 1287-1297
-
-
Imperiale, T.F.1
Ransohoff, D.F.2
Itzkowitz, S.H.3
Levin, T.R.4
Lavin, P.5
Lidgard, G.P.6
Ahlquist, D.A.7
Berger, B.M.8
-
41
-
-
79952232216
-
Global cancer statistics
-
Jemal A, Bray F, Center MM, Ferlay J, Ward E, Forman D, (2011) Global cancer statistics. CA Cancer J Clin 61: 69-90
-
(2011)
CA Cancer J Clin
, vol.61
, pp. 69-90
-
-
Jemal, A.1
Bray, F.2
Center, M.M.3
Ferlay, J.4
Ward, E.5
Forman, D.6
-
42
-
-
38549126643
-
KEGG for linking genomes to life and the environment
-
Kanehisa M, Araki M, Goto S, Hattori M, Hirakawa M, Itoh M, Katayama T, Kawashima S, Okuda S, Tokimatsu T, Yamanishi Y, (2008) KEGG for linking genomes to life and the environment. Nucleic Acids Res 36: D480-D484
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D480-D484
-
-
Kanehisa, M.1
Araki, M.2
Goto, S.3
Hattori, M.4
Hirakawa, M.5
Itoh, M.6
Katayama, T.7
Kawashima, S.8
Okuda, S.9
Tokimatsu, T.10
Yamanishi, Y.11
-
43
-
-
84878709716
-
Gut metagenome in European women with normal, impaired and diabetic glucose control
-
Karlsson FH, Tremaroli V, Nookaew I, Bergstrom G, Behre CJ, Fagerberg B, Nielsen J, Backhed F, (2013) Gut metagenome in European women with normal, impaired and diabetic glucose control. Nature 498: 99-103
-
(2013)
Nature
, vol.498
, pp. 99-103
-
-
Karlsson, F.H.1
Tremaroli, V.2
Nookaew, I.3
Bergstrom, G.4
Behre, C.J.5
Fagerberg, B.6
Nielsen, J.7
Backhed, F.8
-
44
-
-
80054931117
-
Human-associated microbial signatures: Examining their predictive value
-
Knights D, Parfrey LW, Zaneveld J, Lozupone C, Knight R, (2011) Human-associated microbial signatures: examining their predictive value. Cell Host Microbe 10: 292-296
-
(2011)
Cell Host Microbe
, vol.10
, pp. 292-296
-
-
Knights, D.1
Parfrey, L.W.2
Zaneveld, J.3
Lozupone, C.4
Knight, R.5
-
45
-
-
84877331372
-
Intestinal microbiota metabolism of l-carnitine, a nutrient in red meat, promotes atherosclerosis
-
Koeth RA, Wang Z, Levison BS, Buffa JA, Org E, Sheehy BT, Britt EB, Fu X, Wu Y, Li L, Smith JD, Didonato JA, Chen J, Li H, Wu GD, Lewis JD, Warrier M, Brown JM, Krauss RM, Tang WH, et al, (2013) Intestinal microbiota metabolism of l-carnitine, a nutrient in red meat, promotes atherosclerosis. Nat Med 19: 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
Smith, J.D.11
Didonato, J.A.12
Chen, J.13
Li, H.14
Wu, G.D.15
Lewis, J.D.16
Warrier, M.17
Brown, J.M.18
Krauss, R.M.19
Tang, W.H.20
more..
-
47
-
-
84882354326
-
Fusobacterium nucleatum potentiates intestinal tumorigenesis and modulates the tumor-immune microenvironment
-
Kostic AD, Chun E, Robertson L, Glickman JN, Gallini CA, Michaud M, Clancy TE, Chung DC, Lochhead P, Hold GL, El-Omar EM, Brenner D, Fuchs CS, Meyerson M, Garrett WS, (2013) Fusobacterium nucleatum potentiates intestinal tumorigenesis and modulates the tumor-immune microenvironment. Cell Host Microbe 14: 207-215
-
(2013)
Cell Host Microbe
, vol.14
, pp. 207-215
-
-
Kostic, A.D.1
Chun, E.2
Robertson, L.3
Glickman, J.N.4
Gallini, C.A.5
Michaud, M.6
Clancy, T.E.7
Chung, D.C.8
Lochhead, P.9
Hold, G.L.10
El-Omar, E.M.11
Brenner, D.12
Fuchs, C.S.13
Meyerson, M.14
Garrett, W.S.15
-
48
-
-
84863022950
-
Genomic analysis identifies association of Fusobacterium with colorectal carcinoma
-
Kostic AD, Gevers D, Pedamallu CS, Michaud M, Duke F, Earl AM, Ojesina AI, Jung J, Bass AJ, Tabernero J, Baselga J, Liu C, Shivdasani RA, Ogino S, Birren BW, Huttenhower C, Garrett WS, Meyerson M, (2012) Genomic analysis identifies association of Fusobacterium with colorectal carcinoma. Genome Res 22: 292-298
-
(2012)
Genome Res
, vol.22
, pp. 292-298
-
-
Kostic, A.D.1
Gevers, D.2
Pedamallu, C.S.3
Michaud, M.4
Duke, F.5
Earl, A.M.6
Ojesina, A.I.7
Jung, J.8
Bass, A.J.9
Tabernero, J.10
Baselga, J.11
Liu, C.12
Shivdasani, R.A.13
Ogino, S.14
Birren, B.W.15
Huttenhower, C.16
Garrett, W.S.17
Meyerson, M.18
-
49
-
-
84867634981
-
MOCAT: A metagenomics assembly and gene prediction toolkit
-
Kultima JR, Sunagawa S, Li J, Chen W, Chen H, Mende DR, Arumugam M, Pan Q, Liu B, Qin J, Wang J, Bork P, (2012) MOCAT: a metagenomics assembly and gene prediction toolkit. PLoS One 7: e47656
-
(2012)
PLoS One
, vol.7
, pp. e47656
-
-
Kultima, J.R.1
Sunagawa, S.2
Li, J.3
Chen, W.4
Chen, H.5
Mende, D.R.6
Arumugam, M.7
Pan, Q.8
Liu, B.9
Qin, J.10
Wang, J.11
Bork, P.12
-
50
-
-
84883110880
-
Richness of human gut microbiome correlates with metabolic markers
-
Le Chatelier E, Nielsen T, Qin J, Prifti E, Hildebrand F, Falony G, Almeida M, Arumugam M, Batto JM, Kennedy S, Leonard P, Li J, Burgdorf K, Grarup N, Jorgensen T, Brandslund I, Nielsen HB, Juncker AS, Bertalan M, Levenez F, et al, (2013) Richness of human gut microbiome correlates with metabolic markers. Nature 500: 541-546
-
(2013)
Nature
, vol.500
, pp. 541-546
-
-
Le Chatelier, E.1
Nielsen, T.2
Qin, J.3
Prifti, E.4
Hildebrand, F.5
Falony, G.6
Almeida, M.7
Arumugam, M.8
Batto, J.M.9
Kennedy, S.10
Leonard, P.11
Li, J.12
Burgdorf, K.13
Grarup, N.14
Jorgensen, T.15
Brandslund, I.16
Nielsen, H.B.17
Juncker, A.S.18
Bertalan, M.19
Levenez, F.20
more..
-
51
-
-
70349656779
-
Aberrant methylation of APC, MGMT, RASSF2A, and Wif-1 genes in plasma as a biomarker for early detection of colorectal cancer
-
Lee BB, Lee EJ, Jung EH, Chun HK, Chang DK, Song SY, Park J, Kim DH, (2009) Aberrant methylation of APC, MGMT, RASSF2A, and Wif-1 genes in plasma as a biomarker for early detection of colorectal cancer. Clin Cancer Res 15: 6185-6191
-
(2009)
Clin Cancer Res
, vol.15
, pp. 6185-6191
-
-
Lee, B.B.1
Lee, E.J.2
Jung, E.H.3
Chun, H.K.4
Chang, D.K.5
Song, S.Y.6
Park, J.7
Kim, D.H.8
-
52
-
-
42949177399
-
Screening and surveillance for the early detection of colorectal cancer and adenomatous polyps, 2008: A joint guideline from the American Cancer Society, the US Multi-Society Task Force on Colorectal Cancer, and the American College of Radiology
-
American Cancer Society Colorectal Cancer Advisory G, Force USM-ST, American College of Radiology Colon Cancer C.
-
Levin B, Lieberman DA, McFarland B, Smith RA, Brooks D, Andrews KS, Dash C, Giardiello FM, Glick S, Levin TR, Pickhardt P, Rex DK, Thorson A, Winawer SJ, American Cancer Society Colorectal Cancer Advisory G, Force USM-ST, American College of Radiology Colon Cancer C (2008) Screening and surveillance for the early detection of colorectal cancer and adenomatous polyps, 2008: a joint guideline from the American Cancer Society, the US Multi-Society Task Force on Colorectal Cancer, and the American College of Radiology. CA Cancer J Clin 58: 130-160
-
(2008)
CA Cancer J Clin
, vol.58
, pp. 130-160
-
-
Levin, B.1
Lieberman, D.A.2
McFarland, B.3
Smith, R.A.4
Brooks, D.5
Andrews, K.S.6
Dash, C.7
Giardiello, F.M.8
Glick, S.9
Levin, T.R.10
Pickhardt, P.11
Rex, D.K.12
Thorson, A.13
Winawer, S.J.14
-
53
-
-
40049104732
-
SOAP: Short oligonucleotide alignment program
-
Li R, Li Y, Kristiansen K, Wang J, (2008) SOAP: short oligonucleotide alignment program. Bioinformatics 24: 713-714
-
(2008)
Bioinformatics
, vol.24
, pp. 713-714
-
-
Li, R.1
Li, Y.2
Kristiansen, K.3
Wang, J.4
-
54
-
-
33745634395
-
Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences
-
Li W, Godzik A, (2006) Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 22: 1658-1659
-
(2006)
Bioinformatics
, vol.22
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
-
55
-
-
0034644185
-
Environmental and heritable factors in the causation of cancer-analyses of cohorts of twins from Sweden, Denmark, and Finland
-
Lichtenstein P, Holm NV, Verkasalo PK, Iliadou A, Kaprio J, Koskenvuo M, Pukkala E, Skytthe A, Hemminki K, (2000) Environmental and heritable factors in the causation of cancer-analyses of cohorts of twins from Sweden, Denmark, and Finland. N Engl J Med 343: 78-85
-
(2000)
N Engl J Med
, vol.343
, pp. 78-85
-
-
Lichtenstein, P.1
Holm, N.V.2
Verkasalo, P.K.3
Iliadou, A.4
Kaprio, J.5
Koskenvuo, M.6
Pukkala, E.7
Skytthe, A.8
Hemminki, K.9
-
56
-
-
84904265815
-
-
A2. Paris, France
-
Mansour H, Sobhani I, (2009) Method, process, and kit for diagnosis or prognosis of colorectal cancer. WO 2009095596 A2. Paris, France
-
(2009)
Method, Process, and Kit for Diagnosis or Prognosis of Colorectal Cancer
-
-
Mansour, H.1
Sobhani, I.2
-
57
-
-
79956359184
-
Towards the human colorectal cancer microbiome
-
Marchesi JR, Dutilh BE, Hall N, Peters WH, Roelofs R, Boleij A, Tjalsma H, (2011) Towards the human colorectal cancer microbiome. PLoS One 6: e20447
-
(2011)
PLoS One
, vol.6
, pp. e20447
-
-
Marchesi, J.R.1
Dutilh, B.E.2
Hall, N.3
Peters, W.H.4
Roelofs, R.5
Boleij, A.6
Tjalsma, H.7
-
58
-
-
84861648384
-
Global burden of cancers attributable to infections in 2008: A review and synthetic analysis
-
de Martel C, Ferlay J, Franceschi S, Vignat J, Bray F, Forman D, Plummer M, (2012) Global burden of cancers attributable to infections in 2008: a review and synthetic analysis. Lancet Oncol 13: 607-615
-
(2012)
Lancet Oncol
, vol.13
, pp. 607-615
-
-
De Martel, C.1
Ferlay, J.2
Franceschi, S.3
Vignat, J.4
Bray, F.5
Forman, D.6
Plummer, M.7
-
59
-
-
84872387623
-
Fusobacterium is associated with colorectal adenomas
-
McCoy AN, Araujo-Perez F, Azcarate-Peril A, Yeh JJ, Sandler RS, Keku TO, (2013) Fusobacterium is associated with colorectal adenomas. PLoS One 8: e53653
-
(2013)
PLoS One
, vol.8
, pp. e53653
-
-
McCoy, A.N.1
Araujo-Perez, F.2
Azcarate-Peril, A.3
Yeh, J.J.4
Sandler, R.S.5
Keku, T.O.6
-
60
-
-
79952756170
-
Mucin dynamics and enteric pathogens
-
McGuckin MA, Linden SK, Sutton P, Florin TH, (2011) Mucin dynamics and enteric pathogens. Nat Rev Microbiol 9: 265-278
-
(2011)
Nat Rev Microbiol
, vol.9
, pp. 265-278
-
-
McGuckin, M.A.1
Linden, S.K.2
Sutton, P.3
Florin, T.H.4
-
61
-
-
84883464181
-
Accurate and universal delineation of prokaryotic species
-
Mende DR, Sunagawa S, Zeller G, Bork P, (2013) Accurate and universal delineation of prokaryotic species. Nat Methods 10: 881-884
-
(2013)
Nat Methods
, vol.10
, pp. 881-884
-
-
Mende, D.R.1
Sunagawa, S.2
Zeller, G.3
Bork, P.4
-
62
-
-
6944230093
-
Colon cancer survival rates with the new American Joint Committee on Cancer sixth edition staging
-
O'Connell JB, Maggard MA, Ko CY, (2004) Colon cancer survival rates with the new American Joint Committee on Cancer sixth edition staging. J Natl Cancer Inst 96: 1420-1425
-
(2004)
J Natl Cancer Inst
, vol.96
, pp. 1420-1425
-
-
O'Connell, J.B.1
Maggard, M.A.2
Ko, C.Y.3
-
63
-
-
84863105536
-
Non-invasive mapping of the gastrointestinal microbiota identifies children with inflammatory bowel disease
-
Papa E, Docktor M, Smillie C, Weber S, Preheim SP, Gevers D, Giannoukos G, Ciulla D, Tabbaa D, Ingram J, Schauer DB, Ward DV, Korzenik JR, Xavier RJ, Bousvaros A, Alm EJ, (2012) Non-invasive mapping of the gastrointestinal microbiota identifies children with inflammatory bowel disease. PLoS One 7: e39242
-
(2012)
PLoS One
, vol.7
, pp. e39242
-
-
Papa, E.1
Docktor, M.2
Smillie, C.3
Weber, S.4
Preheim, S.P.5
Gevers, D.6
Giannoukos, G.7
Ciulla, D.8
Tabbaa, D.9
Ingram, J.10
Schauer, D.B.11
Ward, D.V.12
Korzenik, J.R.13
Xavier, R.J.14
Bousvaros, A.15
Alm, E.J.16
-
64
-
-
84879406251
-
Development of quantitative real-time PCR primers for detecting 42 oral bacterial species
-
Park SN, Lim YK, Kook JK, (2013) Development of quantitative real-time PCR primers for detecting 42 oral bacterial species. Arch Microbiol 195: 473-482
-
(2013)
Arch Microbiol
, vol.195
, pp. 473-482
-
-
Park, S.N.1
Lim, Y.K.2
Kook, J.K.3
-
65
-
-
78149283854
-
Mucolytic bacteria with increased prevalence in IBD mucosa augment in vitro utilization of mucin by other bacteria
-
Png CW, Linden SK, Gilshenan KS, Zoetendal EG, McSweeney CS, Sly LI, McGuckin MA, Florin TH, (2010) Mucolytic bacteria with increased prevalence in IBD mucosa augment in vitro utilization of mucin by other bacteria. Am J Gastroenterol 105: 2420-2428
-
(2010)
Am J Gastroenterol
, vol.105
, pp. 2420-2428
-
-
Png, C.W.1
Linden, S.K.2
Gilshenan, K.S.3
Zoetendal, E.G.4
McSweeney, C.S.5
Sly, L.I.6
McGuckin, M.A.7
Florin, T.H.8
-
66
-
-
37549027613
-
SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
-
Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J, Glockner FO, (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 35: 7188-7196
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 7188-7196
-
-
Pruesse, E.1
Quast, C.2
Knittel, K.3
Fuchs, B.M.4
Ludwig, W.5
Peplies, J.6
Glockner, F.O.7
-
67
-
-
77950251400
-
A human gut microbial gene catalogue established by metagenomic sequencing
-
Qin J, Li R, Raes J, Arumugam M, Burgdorf KS, Manichanh C, Nielsen T, Pons N, Levenez F, Yamada T, Mende DR, Li J, Xu J, Li S, Li D, Cao J, Wang B, Liang H, Zheng H, Xie Y, et al, (2010) A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464: 59-65
-
(2010)
Nature
, vol.464
, pp. 59-65
-
-
Qin, J.1
Li, R.2
Raes, J.3
Arumugam, M.4
Burgdorf, K.S.5
Manichanh, C.6
Nielsen, T.7
Pons, N.8
Levenez, F.9
Yamada, T.10
Mende, D.R.11
Li, J.12
Xu, J.13
Li, S.14
Li, D.15
Cao, J.16
Wang, B.17
Liang, H.18
Zheng, H.19
Xie, Y.20
more..
-
68
-
-
84867074831
-
A metagenome-wide association study of gut microbiota in type 2 diabetes
-
Qin J, Li Y, Cai Z, Li S, Zhu J, Zhang F, Liang S, Zhang W, Guan Y, Shen D, Peng Y, Zhang D, Jie Z, Wu W, Qin Y, Xue W, Li J, Han L, Lu D, Wu P, et al, (2012) A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature 490: 55-60
-
(2012)
Nature
, vol.490
, pp. 55-60
-
-
Qin, J.1
Li, Y.2
Cai, Z.3
Li, S.4
Zhu, J.5
Zhang, F.6
Liang, S.7
Zhang, W.8
Guan, Y.9
Shen, D.10
Peng, Y.11
Zhang, D.12
Jie, Z.13
Wu, W.14
Qin, Y.15
Xue, W.16
Li, J.17
Han, L.18
Lu, D.19
Wu, P.20
more..
-
69
-
-
79952709519
-
PROC: An open-source package for R and S+ to analyze and compare ROC curves
-
Robin X, Turck N, Hainard A, Tiberti N, Lisacek F, Sanchez JC, Muller M, (2011) pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinformatics 12: 77
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 77
-
-
Robin, X.1
Turck, N.2
Hainard, A.3
Tiberti, N.4
Lisacek, F.5
Sanchez, J.C.6
Muller, M.7
-
70
-
-
84882334105
-
Fusobacterium nucleatum promotes colorectal carcinogenesis by modulating E-cadherin/beta-catenin signaling via its FadA adhesin
-
Rubinstein MR, Wang X, Liu W, Hao Y, Cai G, Han YW, (2013) Fusobacterium nucleatum promotes colorectal carcinogenesis by modulating E-cadherin/beta-catenin signaling via its FadA adhesin. Cell Host Microbe 14: 195-206
-
(2013)
Cell Host Microbe
, vol.14
, pp. 195-206
-
-
Rubinstein, M.R.1
Wang, X.2
Liu, W.3
Hao, Y.4
Cai, G.5
Han, Y.W.6
-
71
-
-
84871732071
-
Genomic variation landscape of the human gut microbiome
-
Schloissnig S, Arumugam M, Sunagawa S, Mitreva M, Tap J, Zhu A, Waller A, Mende DR, Kultima JR, Martin J, Kota K, Sunyaev SR, Weinstock GM, Bork P, (2013) Genomic variation landscape of the human gut microbiome. Nature 493: 45-50
-
(2013)
Nature
, vol.493
, pp. 45-50
-
-
Schloissnig, S.1
Arumugam, M.2
Sunagawa, S.3
Mitreva, M.4
Tap, J.5
Zhu, A.6
Waller, A.7
Mende, D.R.8
Kultima, J.R.9
Martin, J.10
Kota, K.11
Sunyaev, S.R.12
Weinstock, G.M.13
Bork, P.14
-
72
-
-
72949107142
-
Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
-
Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF, (2009) Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75: 7537-7541
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 7537-7541
-
-
Schloss, P.D.1
Westcott, S.L.2
Ryabin, T.3
Hall, J.R.4
Hartmann, M.5
Hollister, E.B.6
Lesniewski, R.A.7
Oakley, B.B.8
Parks, D.H.9
Robinson, C.J.10
Sahl, J.W.11
Stres, B.12
Thallinger, G.G.13
Van Horn, D.J.14
Weber, C.F.15
-
73
-
-
84899957349
-
Functional and phylogenetic assembly of microbial communities in the human microbiome
-
Shafquat A, Joice R, Simmons SL, Huttenhower C, (2014) Functional and phylogenetic assembly of microbial communities in the human microbiome. Trends Microbiol 22: 261-266
-
(2014)
Trends Microbiol
, vol.22
, pp. 261-266
-
-
Shafquat, A.1
Joice, R.2
Simmons, S.L.3
Huttenhower, C.4
-
74
-
-
80054078476
-
Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega
-
Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, Li W, Lopez R, McWilliam H, Remmert M, Soding J, Thompson JD, Higgins DG, (2011) Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol Syst Biol 7: 539
-
(2011)
Mol Syst Biol
, vol.7
, pp. 539
-
-
Sievers, F.1
Wilm, A.2
Dineen, D.3
Gibson, T.J.4
Karplus, K.5
Li, W.6
Lopez, R.7
McWilliam, H.8
Remmert, M.9
Soding, J.10
Thompson, J.D.11
Higgins, D.G.12
-
76
-
-
79551571717
-
Microbial dysbiosis in colorectal cancer (CRC) patients
-
Sobhani I, Tap J, Roudot-Thoraval F, Roperch JP, Letulle S, Langella P, Corthier G, Tran Van Nhieu J, Furet JP, (2011) Microbial dysbiosis in colorectal cancer (CRC) patients. PLoS One 6: e16393
-
(2011)
PLoS One
, vol.6
, pp. e16393
-
-
Sobhani, I.1
Tap, J.2
Roudot-Thoraval, F.3
Roperch, J.P.4
Letulle, S.5
Langella, P.6
Corthier, G.7
Tran Van Nhieu, J.8
Furet, J.P.9
-
77
-
-
15544376418
-
Glycan foraging in vivo by an intestine-adapted bacterial symbiont
-
Sonnenburg JL, Xu J, Leip DD, Chen CH, Westover BP, Weatherford J, Buhler JD, Gordon JI, (2005) Glycan foraging in vivo by an intestine-adapted bacterial symbiont. Science 307: 1955-1959
-
(2005)
Science
, vol.307
, pp. 1955-1959
-
-
Sonnenburg, J.L.1
Xu, J.2
Leip, D.D.3
Chen, C.H.4
Westover, B.P.5
Weatherford, J.6
Buhler, J.D.7
Gordon, J.I.8
-
78
-
-
79959474060
-
Invasive potential of gut mucosa-derived Fusobacterium nucleatum positively correlates with IBD status of the host
-
Strauss J, Kaplan GG, Beck PL, Rioux K, Panaccione R, Devinney R, Lynch T, Allen-Vercoe E, (2011) Invasive potential of gut mucosa-derived Fusobacterium nucleatum positively correlates with IBD status of the host. Inflamm Bowel Dis 17: 1971-1978
-
(2011)
Inflamm Bowel Dis
, vol.17
, pp. 1971-1978
-
-
Strauss, J.1
Kaplan, G.G.2
Beck, P.L.3
Rioux, K.4
Panaccione, R.5
Devinney, R.6
Lynch, T.7
Allen-Vercoe, E.8
-
79
-
-
84888884475
-
Metagenomic species profiling using universal phylogenetic marker genes
-
Sunagawa S, Mende DR, Zeller G, Izquierdo-Carrasco F, Berger SA, Kultima JR, Coelho LP, Arumugam M, Tap J, Nielsen HB, Rasmussen S, Brunak S, Pedersen O, Guarner F, de Vos WM, Wang J, Li J, Dore J, Ehrlich SD, Stamatakis A, et al, (2013) Metagenomic species profiling using universal phylogenetic marker genes. Nat Methods 10: 1196-1199
-
(2013)
Nat Methods
, vol.10
, pp. 1196-1199
-
-
Sunagawa, S.1
Mende, D.R.2
Zeller, G.3
Izquierdo-Carrasco, F.4
Berger, S.A.5
Kultima, J.R.6
Coelho, L.P.7
Arumugam, M.8
Tap, J.9
Nielsen, H.B.10
Rasmussen, S.11
Brunak, S.12
Pedersen, O.13
Guarner, F.14
De Vos, W.M.15
Wang, J.16
Li, J.17
Dore, J.18
Ehrlich, S.D.19
Stamatakis, A.20
more..
-
80
-
-
84896527392
-
Fusobacterium in colonic flora and molecular features of colorectal carcinoma
-
Tahara T, Yamamoto E, Suzuki H, Maruyama R, Chung W, Garriga J, Jelinek J, Yamano HO, Sugai T, An B, Shureiqi I, Toyota M, Kondo Y, Estecio MR, Issa JP, (2014) Fusobacterium in colonic flora and molecular features of colorectal carcinoma. Cancer Res 74: 1311-1318
-
(2014)
Cancer Res
, vol.74
, pp. 1311-1318
-
-
Tahara, T.1
Yamamoto, E.2
Suzuki, H.3
Maruyama, R.4
Chung, W.5
Garriga, J.6
Jelinek, J.7
Yamano, H.O.8
Sugai, T.9
An, B.10
Shureiqi, I.11
Toyota, M.12
Kondo, Y.13
Estecio, M.R.14
Issa, J.P.15
-
81
-
-
77950930729
-
Expression and functional research of TLR4 in human colon carcinoma
-
Tang XY, Zhu YQ, Wei B, Wang H, (2010) Expression and functional research of TLR4 in human colon carcinoma. Am J Med Sci 339: 319-326
-
(2010)
Am J Med Sci
, vol.339
, pp. 319-326
-
-
Tang, X.Y.1
Zhu, Y.Q.2
Wei, B.3
Wang, H.4
-
82
-
-
85015512843
-
Regression shinkage and selection via the Lasso
-
Tibshirani R, (1996) Regression shinkage and selection via the Lasso. J R Statist Soc B 58: 267-288
-
(1996)
J R Statist Soc B
, vol.58
, pp. 267-288
-
-
Tibshirani, R.1
-
83
-
-
44349104257
-
The out-of-sample problem for classical multidimensional scaling
-
Trosset MW, Priebe CE, (2006) The out-of-sample problem for classical multidimensional scaling. Comput Stat Data Anal 52: 4635-4642
-
(2006)
Comput Stat Data Anal
, vol.52
, pp. 4635-4642
-
-
Trosset, M.W.1
Priebe, C.E.2
-
84
-
-
58749112734
-
A core gut microbiome in obese and lean twins
-
Turnbaugh PJ, Hamady M, Yatsunenko T, Cantarel BL, Duncan A, Ley RE, Sogin ML, Jones WJ, Roe BA, Affourtit JP, Egholm M, Henrissat B, Heath AC, Knight R, Gordon JI, (2009) A core gut microbiome in obese and lean twins. Nature 457: 480-484
-
(2009)
Nature
, vol.457
, pp. 480-484
-
-
Turnbaugh, P.J.1
Hamady, M.2
Yatsunenko, T.3
Cantarel, B.L.4
Duncan, A.5
Ley, R.E.6
Sogin, M.L.7
Jones, W.J.8
Roe, B.A.9
Affourtit, J.P.10
Egholm, M.11
Henrissat, B.12
Heath, A.C.13
Knight, R.14
Gordon, J.I.15
-
85
-
-
33845874101
-
An obesity-associated gut microbiome with increased capacity for energy harvest
-
Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER, Gordon JI, (2006) An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444: 1027-1031
-
(2006)
Nature
, vol.444
, pp. 1027-1031
-
-
Turnbaugh, P.J.1
Ley, R.E.2
Mahowald, M.A.3
Magrini, V.4
Mardis, E.R.5
Gordon, J.I.6
-
86
-
-
0036500996
-
Colorectal cancer in mice genetically deficient in the mucin Muc2
-
Velcich A, Yang W, Heyer J, Fragale A, Nicholas C, Viani S, Kucherlapati R, Lipkin M, Yang K, Augenlicht L, (2002) Colorectal cancer in mice genetically deficient in the mucin Muc2. Science 295: 1726-1729
-
(2002)
Science
, vol.295
, pp. 1726-1729
-
-
Velcich, A.1
Yang, W.2
Heyer, J.3
Fragale, A.4
Nicholas, C.5
Viani, S.6
Kucherlapati, R.7
Lipkin, M.8
Yang, K.9
Augenlicht, L.10
-
87
-
-
84875490185
-
Cancer genome landscapes
-
Vogelstein B, Papadopoulos N, Velculescu VE, Zhou S, Diaz LA Jr, Kinzler KW, (2013) Cancer genome landscapes. Science 339: 1546-1558
-
(2013)
Science
, vol.339
, pp. 1546-1558
-
-
Vogelstein, B.1
Papadopoulos, N.2
Velculescu, V.E.3
Zhou, S.4
Diaz, Jr.L.A.5
Kinzler, K.W.6
-
88
-
-
84878698171
-
Genomics: A gut prediction
-
de Vos WM, Nieuwdorp M, (2013) Genomics: a gut prediction. Nature 498: 48-49
-
(2013)
Nature
, vol.498
, pp. 48-49
-
-
De Vos, W.M.1
Nieuwdorp, M.2
-
89
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
Wang Q, Garrity GM, Tiedje JM, Cole JR, (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73: 5261-5267
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
90
-
-
84896066661
-
Co-occurrence of anaerobic bacteria in colorectal carcinomas
-
Warren RL, Freeman DJ, Pleasance S, Watson P, Moore RA, Cochrane K, Allen-Vercoe E, Holt RA, (2013) Co-occurrence of anaerobic bacteria in colorectal carcinomas. Microbiome 1: 16
-
(2013)
Microbiome
, vol.1
, pp. 16
-
-
Warren, R.L.1
Freeman, D.J.2
Pleasance, S.3
Watson, P.4
Moore, R.A.5
Cochrane, K.6
Allen-Vercoe, E.7
Holt, R.A.8
-
91
-
-
84881148921
-
Stool microbiome and metabolome differences between colorectal cancer patients and healthy adults
-
Weir TL, Manter DK, Sheflin AM, Barnett BA, Heuberger AL, Ryan EP, (2013) Stool microbiome and metabolome differences between colorectal cancer patients and healthy adults. PLoS One 8: e70803
-
(2013)
PLoS One
, vol.8
, pp. e70803
-
-
Weir, T.L.1
Manter, D.K.2
Sheflin, A.M.3
Barnett, B.A.4
Heuberger, A.L.5
Ryan, E.P.6
-
92
-
-
69949120571
-
A human colonic commensal promotes colon tumorigenesis via activation of T helper type 17 T cell responses
-
Wu S, Rhee KJ, Albesiano E, Rabizadeh S, Wu X, Yen HR, Huso DL, Brancati FL, Wick E, McAllister F, Housseau F, Pardoll DM, Sears CL, (2009) A human colonic commensal promotes colon tumorigenesis via activation of T helper type 17 T cell responses. Nat Med 15: 1016-1022
-
(2009)
Nat Med
, vol.15
, pp. 1016-1022
-
-
Wu, S.1
Rhee, K.J.2
Albesiano, E.3
Rabizadeh, S.4
Wu, X.5
Yen, H.R.6
Huso, D.L.7
Brancati, F.L.8
Wick, E.9
McAllister, F.10
Housseau, F.11
Pardoll, D.M.12
Sears, C.L.13
-
93
-
-
84864442502
-
DbCAN: A web resource for automated carbohydrate-active enzyme annotation
-
Yin Y, Mao X, Yang J, Chen X, Mao F, Xu Y, (2012) dbCAN: a web resource for automated carbohydrate-active enzyme annotation. Nucleic Acids Res 40: W445-W451
-
(2012)
Nucleic Acids Res
, vol.40
, pp. W445-W451
-
-
Yin, Y.1
Mao, X.2
Yang, J.3
Chen, X.4
Mao, F.5
Xu, Y.6
-
94
-
-
84910116215
-
The human gut microbiome as a screening tool for colorectal cancer
-
Zackular JP, Rogers MA, Ruffin M, Schloss PD, (2014) The human gut microbiome as a screening tool for colorectal cancer. Cancer Prev Res (Phila) 7: 1112-1121
-
(2014)
Cancer Prev Res (Phila)
, vol.7
, pp. 1112-1121
-
-
Zackular, J.P.1
Rogers, M.A.2
Ruffin, M.3
Schloss, P.D.4
-
95
-
-
75449102004
-
Colorectal cancer screening in Europe
-
Zavoral M, Suchanek S, Zavada F, Dusek L, Muzik J, Seifert B, Fric P, (2009) Colorectal cancer screening in Europe. World J Gastroenterol 15: 5907-5915
-
(2009)
World J Gastroenterol
, vol.15
, pp. 5907-5915
-
-
Zavoral, M.1
Suchanek, S.2
Zavada, F.3
Dusek, L.4
Muzik, J.5
Seifert, B.6
Fric, P.7
-
96
-
-
77955902981
-
Ab initio gene identification in metagenomic sequences
-
Zhu W, Lomsadze A, Borodovsky M, (2010) Ab initio gene identification in metagenomic sequences. Nucleic Acids Res 38: e132
-
(2010)
Nucleic Acids Res
, vol.38
, pp. e132
-
-
Zhu, W.1
Lomsadze, A.2
Borodovsky, M.3
|