-
3
-
-
84862276328
-
Structure function and diversity of the healthy human microbiome
-
Human Microbiome Project Consortium
-
Human Microbiome Project Consortium. Structure, function and diversity of the healthy human microbiome. Nature 486, 207-214 (2012).
-
(2012)
Nature
, vol.486
, pp. 207-214
-
-
-
5
-
-
77951109198
-
Medically important bacterial-fungal interactions
-
Peleg, A. Y., Hogan, D. A. & Mylonakis, E. Medically important bacterial-fungal interactions. Nature Rev. Microbiol. 8, 340-349 (2010).
-
(2010)
Nature Rev. Microbiol
, vol.8
, pp. 340-349
-
-
Peleg, A.Y.1
Hogan, D.A.2
Mylonakis, E.3
-
6
-
-
84863227435
-
A tool kit for quantifying eukaryotic rRNA gene sequences from human microbiome samples
-
Dollive, S. et al. A tool kit for quantifying eukaryotic rRNA gene sequences from human microbiome samples. Genome Biol. 13, R60 (2012).
-
(2012)
Genome Biol
, vol.13
-
-
Dollive, S.1
-
7
-
-
33750329972
-
Reconstructing the early evolution of Fungi using a six-gene phylogeny
-
James, T. Y. et al. Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature 443, 818-822 (2006).
-
(2006)
Nature
, vol.443
, pp. 818-822
-
-
James, T.Y.1
-
8
-
-
77649230349
-
Characterization of the oral fungal microbiome (mycobiome) in healthy individuals
-
Ghannoum, M. A. et al. Characterization of the oral fungal microbiome (mycobiome) in healthy individuals. PLoS Pathog. 6, e1000713 (2010).
-
(2010)
PLoS Pathog
, vol.6
-
-
Ghannoum, M.A.1
-
9
-
-
33747175722
-
Molecular analysis of fungal microbiota in samples from healthy human skin and psoriatic lesions
-
Paulino, L. C., Tseng, C. H., Strober, B. E. & Blaser, M. J. Molecular analysis of fungal microbiota in samples from healthy human skin and psoriatic lesions. J. Clin. Microbiol. 44, 2933-2941 (2006).
-
(2006)
J. Clin. Microbiol
, vol.44
, pp. 2933-2941
-
-
Paulino, L.C.1
Tseng, C.H.2
Strober, B.E.3
Blaser, M.J.4
-
10
-
-
0024154772
-
Microbial ecology of the skin
-
Roth, R. R. & James, W. D. Microbial ecology of the skin. Annu. Rev. Microbiol. 42, 441-464 (1988).
-
(1988)
Annu. Rev. Microbiol
, vol.42
, pp. 441-464
-
-
Roth, R.R.1
James, W.D.2
-
11
-
-
33747032013
-
The burden of skin diseases: 2004 a joint project of the American Academy of dermatology association and the society for investigative dermatology
-
Bickers, D. R. et al. The burden of skin diseases: 2004 a joint project of the American Academy of Dermatology Association and the Society for Investigative Dermatology. J. Am. Acad. Dermatol. 55, 490-500 (2006).
-
(2006)
J. Am. Acad. Dermatol
, vol.55
, pp. 490-500
-
-
Bickers, D.R.1
-
12
-
-
84855679770
-
The Malassezia genus in skin and systemic diseases
-
Gaitanis,G.,Magiatis,P.,Hantschke,M.,Bassukas, I. D.& Velegraki, A. The Malassezia genus in skin and systemic diseases. Clin. Microbiol. Rev. 25, 106-141 (2012).
-
(2012)
Clin. Microbiol. Rev
, vol.25
, pp. 106-141
-
-
Gaitanis, G.1
Magiatis, P.2
Hantschke, M.3
Bassukas, I.D.4
Velegraki, A.5
-
13
-
-
84864053621
-
Malassezia fungi are specialized to live on skin and associated with dandruff, eczema, and other skin diseases
-
Saunders, C. W., Scheynius, A.& Heitman, J. Malassezia fungi are specialized to live on skin and associated with dandruff, eczema, and other skin diseases. PLoS Pathog. 8, e1002701 (2012).
-
(2012)
PLoS Pathog
, vol.8
-
-
Saunders, C.W.1
Scheynius, A.2
Heitman, J.3
-
16
-
-
84979830712
-
Genomic insights into the atopic eczema-associated skin commensal yeast malassezia sympodialis
-
Gioti, A. et al. Genomic insights into the atopic eczema-associated skin commensal yeast Malassezia sympodialis. mBio 4, e00572-12 (2013).
-
(2013)
MBio
, vol.4
-
-
Gioti, A.1
-
17
-
-
0026911326
-
Evolutionary relationships within the fungi: Analyses of nuclear small subunit rRNA sequences
-
Bruns, T. D. et al. Evolutionary relationships within the fungi: analyses of nuclear small subunit rRNA sequences. Mol. Phylogenet. Evol. 1, 231-241 (1992).
-
(1992)
Mol. Phylogenet. Evol
, vol.1
, pp. 231-241
-
-
Bruns, T.D.1
-
18
-
-
84859972408
-
Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi
-
Schoch, C. L. et al. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proc. Natl Acad. Sci. USA 109, 6241-6246 (2012).
-
(2012)
Proc. Natl Acad. Sci. USA
, vol.109
, pp. 6241-6246
-
-
Schoch, C.L.1
-
19
-
-
84873739311
-
The SILVA ribosomal RNA gene database project: Improved data processing and web-based tools
-
Quast, C. et al. The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res. 41, D590-D596 (2013).
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Quast, C.1
-
20
-
-
77958610660
-
Pplacer: Linear time maximumlikelihood and bayesian phylogenetic placement of sequences onto a fixed reference tree
-
Matsen, F. A., Kodner, R. B. & Armbrust, E. V. pplacer: linear time maximumlikelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree. BMC Bioinformatics 11, 538 (2010).
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 538
-
-
Matsen, F.A.1
Kodner, R.B.2
Armbrust, E.V.3
-
21
-
-
72949107142
-
Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
-
Schloss, P. D. et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75, 7537-7541 (2009).
-
(2009)
Appl. Environ. Microbiol
, vol.75
, pp. 7537-7541
-
-
Schloss, P.D.1
-
22
-
-
72949091232
-
Bacterial community variation in human body habitats across space and time
-
Costello, E. K. et al. Bacterial community variation in human body habitats across space and time. Science 326, 1694-1697 (2009).
-
(2009)
Science
, vol.326
, pp. 1694-1697
-
-
Costello, E.K.1
-
23
-
-
66349083859
-
Topographical and temporal diversity of the human skin microbiome
-
Grice, E. A. et al. Topographical and temporal diversity of the human skin microbiome. Science 324, 1190-1192 (2009).
-
(2009)
Science
, vol.324
, pp. 1190-1192
-
-
Grice, E.A.1
-
24
-
-
30044441767
-
Prevalence and risk factors for tinea pedis in israeli soldiers
-
Cohen, A. D., Wolak, A., Alkan, M., Shalev, R. & Vardy, D. A. Prevalence and risk factors for tinea pedis in Israeli soldiers. Int. J. Dermatol. 44, 1002-1005 (2005).
-
(2005)
Int. J. Dermatol
, vol.44
, pp. 1002-1005
-
-
Cohen, A.D.1
Wolak, A.2
Alkan, M.3
Shalev, R.4
Vardy, D.A.5
-
25
-
-
0033823728
-
Prevalence and risk factors of tinea unguiumand tinea pedis in the general population in Spain
-
Perea, S. et al. Prevalence and risk factors of tinea unguiumand tinea pedis in the general population in Spain. J. Clin. Microbiol. 38, 3226-3230 (2000).
-
(2000)
J. Clin. Microbiol
, vol.38
, pp. 3226-3230
-
-
Perea, S.1
-
26
-
-
84861964286
-
Interactions between commensal fungi and the C-type lectin receptor Dectin-1 influence colitis
-
Iliev, I. D. et al. Interactions between commensal fungi and the C-type lectin receptor Dectin-1 influence colitis. Science 336, 1314-1317 (2012).
-
(2012)
Science
, vol.336
, pp. 1314-1317
-
-
Iliev, I.D.1
-
27
-
-
0026784415
-
Adverse drug reactions to systemic antifungals
-
Drug Saf
-
Perfect, J. R., Lindsay, M. H. & Drew, R. H. Adverse drug reactions to systemic antifungals. Prevention and management. Drug Saf. 7, 323-363 (1992).
-
(1992)
Prevention and Management
, vol.7
, pp. 323-363
-
-
Perfect, J.R.1
Lindsay, M.H.2
Drew, R.H.3
-
28
-
-
79961181125
-
UCHIME improves sensitivity and speed of chimera detection
-
Edgar, R. C., Haas, B. J., Clemente, J. C., Quince, C. & Knight, R. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27, 2194-2200 (2011).
-
(2011)
Bioinformatics
, vol.27
, pp. 2194-2200
-
-
Edgar, R.C.1
Haas, B.J.2
Clemente, J.C.3
Quince, C.4
Knight, R.5
-
29
-
-
34548293679
-
Naive bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
Wang, Q., Garrity, G. M., Tiedje, J. M. & Cole, J. R. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 73, 5261-5267 (2007).
-
(2007)
Appl. Environ. Microbiol
, vol.73
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
30
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E. W.& Lipman, D. J. Basic local alignment search tool. J. Mol. Biol. 215, 403-410 (1990).
-
(1990)
J. Mol. Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.4
Lipman, D.J.5
-
31
-
-
66349083859
-
Topographical and temporal diversity of the human skin microbiome
-
Grice, E. A. et al. Topographical and temporal diversity of the human skin microbiome. Science 324, 1190-1192 (2009).
-
(2009)
Science
, vol.324
, pp. 1190-1192
-
-
Grice, E.A.1
-
32
-
-
46449124442
-
A diversity profile of the human skin microbiota
-
Grice, E. A. et al. A diversity profile of the human skin microbiota. Genome Res. 18, 1043-1050 (2008).
-
(2008)
Genome Res
, vol.18
, pp. 1043-1050
-
-
Grice, E.A.1
-
33
-
-
77953218382
-
A scalable fully automated process for construction of sequence-ready barcoded libraries for 454
-
Lennon, N. J. et al. A scalable, fully automated process for construction of sequence-ready barcoded libraries for 454. Genome Biol. 11, R15 (2010).
-
(2010)
Genome Biol
, vol.11
-
-
Lennon, N.J.1
-
34
-
-
33745634395
-
Cd-hit: A fast programfor clustering and comparing large sets of protein or nucleotide sequences
-
Li, W. & Godzik, A. Cd-hit: a fast programfor clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 22, 1658-1659 (2006).
-
(2006)
Bioinformatics
, vol.22
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
-
35
-
-
79961181125
-
UCHIME improves sensitivity and speed of chimera detection
-
Edgar, R. C., Haas, B. J., Clemente, J. C., Quince, C. & Knight, R. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27, 2194-2200 (2011).
-
(2011)
Bioinformatics
, vol.27
, pp. 2194-2200
-
-
Edgar, R.C.1
Haas, B.J.2
Clemente, J.C.3
Quince, C.4
Knight, R.5
-
36
-
-
72949107142
-
Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
-
Schloss, P. D. et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75, 7537-7541 (2009).
-
(2009)
Appl. Environ. Microbiol
, vol.75
, pp. 7537-7541
-
-
Schloss, P.D.1
-
37
-
-
84867391206
-
Species-level analysis of DNA sequence data from the NIH human microbiome project
-
Conlan, S., Kong, H. H. & Segre, J. A. Species-level analysis of DNA sequence data from the NIH Human Microbiome Project. PLoS ONE 7, e47075 (2012).
-
(2012)
PLoS ONE
, vol.7
-
-
Conlan, S.1
Kong, H.H.2
Segre, J.A.3
-
38
-
-
84860560056
-
Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis
-
Kong, H. H. et al. Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis. Genome Res. 22, 850-859 (2012).
-
(2012)
Genome Res
, vol.22
, pp. 850-859
-
-
Kong, H.H.1
-
39
-
-
27744480824
-
A similarity measure based on species proportions
-
Yue, J. C. & Clayton, M. K. A similarity measure based on species proportions. Comm. Statist. Theory Methods 34, 2123-2131 (2005).
-
(2005)
Comm. Statist. Theory Methods
, vol.34
, pp. 2123-2131
-
-
Yue, J.C.1
Clayton, M.K.2
-
40
-
-
0031978181
-
Base-calling of automated sequencer traces using phred. II. Error probabilities
-
Ewing, B. & Green, P. Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res. 8, 186-194 (1998).
-
(1998)
Genome Res
, vol.8
, pp. 186-194
-
-
Ewing, B.1
Green, P.2
-
41
-
-
0031955518
-
Base-calling of automated sequencer traces using phred. I. accuracy assessment
-
Ewing, B., Hillier, L., Wendl, M. C. & Green, P. Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res. 8, 175-185 (1998).
-
(1998)
Genome Res
, vol.8
, pp. 175-185
-
-
Ewing, B.1
Hillier, L.2
Wendl, M.C.3
Green, P.4
-
42
-
-
37549027613
-
SILVA: A comprehensive online resource for quality checked and aligned ribosomalRNAsequence data compatible withARB
-
Pruesse, E. et al. SILVA: a comprehensive online resource for quality checked and aligned ribosomalRNAsequence data compatible withARB.Nucleic AcidsRes.35, 7188-7196 (2007).
-
(2007)
Nucleic AcidsRes
, vol.35
, pp. 7188-7196
-
-
Pruesse, E.1
-
43
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar, R. C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792-1797 (2004).
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
44
-
-
77958610660
-
Pplacer: Linear time maximumlikelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
-
Matsen, F. A., Kodner, R. B. & Armbrust, E. V. pplacer: linear time maximumlikelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree. BMC Bioinformatics 11, 538 (2010).
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 538
-
-
Matsen, F.A.1
Kodner, R.B.2
Armbrust, E.V.3
-
45
-
-
71749099862
-
PhyloXML: XML for evolutionary biology and comparative genomics
-
Han, M. V. & Zmasek, C. M. phyloXML: XML for evolutionary biology and comparative genomics. BMC Bioinformatics 10, 356 (2009).
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 356
-
-
Han, M.V.1
Zmasek, C.M.2
|