-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., and Lipman, D. J. (1990). Basic local alignment search tool. JMB 215, 403-310.
-
(1990)
JMB
, vol.215
, pp. 403-1310
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
3
-
-
0141515695
-
CGH-Plotter: MATLAB toolbox for CGH-data analysis
-
Autio, R., Hautaniemi, S., Kauraniemi, P., Yli-Harja, O., Astola, J., Wolf, M., and Kallioniemi, A. (2003). CGH-Plotter: MATLAB toolbox for CGH-data analysis. Bioinformatics 19, 1714-1715.
-
(2003)
Bioinformatics
, vol.19
, pp. 1714-1715
-
-
Autio, R.1
Hautaniemi, S.2
Kauraniemi, P.3
Yli-Harja, O.4
Astola, J.5
Wolf, M.6
Kallioniemi, A.7
-
4
-
-
0042023306
-
Differences in gene content among salmonella enterica serovar typhi isolates
-
Boyd, E. F., Porwollik, S., Blackmer, F., and McClelland, M. (2003). Differences in gene content among salmonella enterica serovar typhi isolates. Journal of Clinical Microbiology 41, 3823- 3828.
-
(2003)
Journal of Clinical Microbiology
, vol.41
, pp. 3823-3828
-
-
Boyd, E.F.1
Porwollik, S.2
Blackmer, F.3
McClelland, M.4
-
5
-
-
0742324206
-
Data transformations for cDNA microarray data
-
Article 4
-
Cui, X., Kerr, M. K., and Churchill, G. A. (2003). Data transformations for cDNA microarray data. Statistical applications in genetics and molecular biology 2, Article 4. http://www.bepress.com/sagmb/vol2/iss1/art4.
-
(2003)
Statistical Applications in Genetics and Molecular Biology
, vol.2
-
-
Cui, X.1
Kerr, M.K.2
Churchill, G.A.3
-
6
-
-
0037195379
-
Competitive hybridization on spotted microarrays as a tool to conduct comparative genome analyses of Xylella fastidiosa strains
-
de Oliveira, R. C., Yanai, G. M., Muto, N. H., Leite, D. B., de Souza, A. A., Filho, H. D. C., Machado, M. A., and Nunes, L. R. (2002). Competitive hybridization on spotted microarrays as a tool to conduct comparative genome analyses of Xylella fastidiosa strains. FEMS microbiology letters 216, 15-21.
-
(2002)
FEMS Microbiology Letters
, vol.216
, pp. 15-21
-
-
De Oliveira, R.C.1
Yanai, G.M.2
Muto, N.H.3
Leite, D.B.4
De Souza, A.A.5
Filho, H.D.C.6
Machado, M.A.7
Nunes, L.R.8
-
7
-
-
0035318378
-
Genomic interspecies microarray hybridization: Rapid discovery of three thousand genes in the maize endophyte klebsiella pneumoniae 342, bay microarray hybridization with escherichia coli k-12 open reading frames
-
Dong, Y., Glasner, J. D., Blattner, F. R., and Triplett, E. W. (2001). Genomic interspecies microarray hybridization: Rapid discovery of three thousand genes in the maize endophyte klebsiella pneumoniae 342, bay microarray hybridization with escherichia coli k-12 open reading frames. Microbiology 67, 1911-1921.
-
(2001)
Microbiology
, vol.67
, pp. 1911-1921
-
-
Dong, Y.1
Glasner, J.D.2
Blattner, F.R.3
Triplett, E.W.4
-
8
-
-
21144448741
-
Application of DNA microarrays for comparative and evolutionary genomics
-
Dorrell, N., Champion, O. L., and Wren, B. W. (2002). Application of DNA microarrays for comparative and evolutionary genomics. Methods in Microbiology 33, 121-136.
-
(2002)
Methods in Microbiology
, vol.33
, pp. 121-136
-
-
Dorrell, N.1
Champion, O.L.2
Wren, B.W.3
-
9
-
-
0034756445
-
Whole genome comparison of campylobacter jejuni human isolates using a low-cost microarray reveals extensive genetic diversity
-
Dorrell, N., Mangan, J. A., Laing, K. G., Hinds, J., Linton, D., Al-Ghusein, H., Barell, B. G., Parkhill, J., Stoker, N. G., Karlyshev, A. V., Butcher, P. D., and Wren, B. W. (2001). Whole genome comparison of campylobacter jejuni human isolates using a low-cost microarray reveals extensive genetic diversity. Genome Research 11, 1706-1715.
-
(2001)
Genome Research
, vol.11
, pp. 1706-1715
-
-
Dorrell, N.1
Mangan, J.A.2
Laing, K.G.3
Hinds, J.4
Linton, D.5
Al-Ghusein, H.6
Barell, B.G.7
Parkhill, J.8
Stoker, N.G.9
Karlyshev, A.V.10
Butcher, P.D.11
Wren, B.W.12
-
10
-
-
0035902534
-
Evolutionary genomics of Staphylococcus aureus: Insights into the origin of methicillin-resistant strains and the toxic shock syndrome epidemic
-
Fitzgerald, J. R., Sturdevant, D. E., Mackie, S. M., Gill, S. R., and Musser, J. M. (2001). Evolutionary genomics of Staphylococcus aureus: Insights into the origin of methicillin-resistant strains and the toxic shock syndrome epidemic. Proceedings of the National Academy of Sciences of the United States of America 98, 8821-8826.
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, pp. 8821-8826
-
-
Fitzgerald, J.R.1
Sturdevant, D.E.2
Mackie, S.M.3
Gill, S.R.4
Musser, J.M.5
-
11
-
-
0033818954
-
A concise guide to cDNA microarray analysis
-
Hegde, P., Qi, R., Abernathy, K., Gay, C., Dharap, S., Gaspard, R., Earle-Hughes, J., Snesrud, E., Lee, N., and Quackenbush, J. (2000). A concise guide to cDNA microarray analysis. Biotechniques 29, 548-562.
-
(2000)
Biotechniques
, vol.29
, pp. 548-562
-
-
Hegde, P.1
Qi, R.2
Abernathy, K.3
Gay, C.4
Dharap, S.5
Gaspard, R.6
Earle-Hughes, J.7
Snesrud, E.8
Lee, N.9
Quackenbush, J.10
-
12
-
-
0141742352
-
Application of DNA microarrays to study the evolutionary genomics of Yersinia pestis and Yersinia pseudotuberculosis
-
Hinchliffe, S. J., Isherwood, K. E., Stabler, R. A., Prentice, M. B., Rakin, A., amd PC Oyston, R. A. N., Hinds, J., Titball, R. W., and Wren, B. W. (2003). Application of DNA microarrays to study the evolutionary genomics of Yersinia pestis and Yersinia pseudotuberculosis. Genome Research 13, 2018-2029.
-
(2003)
Genome Research
, vol.13
, pp. 2018-2029
-
-
Hinchliffe, S.J.1
Isherwood, K.E.2
Stabler, R.A.3
Prentice, M.B.4
Rakin, A.5
Pc Oyston, R.A.N.6
Hinds, J.7
Titball, R.W.8
Wren, B.W.9
-
14
-
-
0036274888
-
Redefining bacterial populations: A post-genomic reformation
-
Joyce, E. A., Chan, K., Salama, N. R., and Falkow, S. (2002). Redefining bacterial populations: A post-genomic reformation. Nature Reviews Genetics 3, 462-473.
-
(2002)
Nature Reviews Genetics
, vol.3
, pp. 462-473
-
-
Joyce, E.A.1
Chan, K.2
Salama, N.R.3
Falkow, S.4
-
15
-
-
0037195198
-
Improved analytical methods for microarray-based genome-composition analysis
-
Kim, C. C., Joyce, E. A., Chan, K., and Falkow, S. (2002). Improved analytical methods for microarray-based genome-composition analysis. Genome Biology 3, 1-17.
-
(2002)
Genome Biology
, vol.3
, pp. 1-17
-
-
Kim, C.C.1
Joyce, E.A.2
Chan, K.3
Falkow, S.4
-
16
-
-
85153191609
-
-
Manuscript under preparation
-
Lindroos, H., Mira, A., Repsilber, D., Vinnere, O., Dehio, M., Näslund, K., Dehio, C., and Andersson, S. G. E. (2005). Characterization of the genome composition of bartonella koehlerae by microarray cgh profiling. Manuscript under preparation.
-
(2005)
Characterization of the Genome Composition of Bartonella Koehlerae by Microarray Cgh Profiling
-
-
Lindroos, H.1
Mira, A.2
Repsilber, D.3
Vinnere, O.4
Dehio, M.5
Näslund, K.6
Dehio, C.7
Andersson, S.G.E.8
-
17
-
-
0018079655
-
Basic principles of roc analysis
-
Metz, C. (1978). Basic principles of roc analysis. Seminars in Nuclear Medicine 8, 283-298.
-
(1978)
Seminars in Nuclear Medicine
, vol.8
, pp. 283-298
-
-
Metz, C.1
-
18
-
-
85153275907
-
-
NCBI (2003). Blast. Ftp://ftp.ncbi.nlm.nih.gov/blast/executables/LATEST- BLAST/blast-2.2.6-ia32-linux.tar.gz.
-
(2003)
Blast
-
-
-
19
-
-
0141871186
-
The analysis of gene expression data: An overview of methods and software
-
eds. G. Parmigiani, E. S. Garrett, R. A. Irizarry, and S. L. Zeger, Springer Verlag, Berlin, chap. 1
-
Parmigiani, G., Garrett, E. S., Irizarry, R. A., and Zeger, S. L. (2003). The analysis of gene expression data: An overview of methods and software. In The Analysis of Gene Expression Data, eds. G. Parmigiani, E. S. Garrett, R. A. Irizarry, and S. L. Zeger, Springer Verlag, Berlin, chap. 1, 1-45.
-
(2003)
The Analysis of Gene Expression Data
, pp. 1-45
-
-
Parmigiani, G.1
Garrett, E.S.2
Irizarry, R.A.3
Zeger, S.L.4
-
20
-
-
0032823523
-
Genome-wide analysis of DNA copy-number changes using cDNA microarrays
-
Pollack, J. R., Perou, C. M., Alizadeh, A. A., Eisen, M. B., Pergamenschikov, A., Williams, F., Jeffrey, S. S., and Brown, D. B. P. O. (1999). Genome-wide analysis of DNA copy-number changes using cDNA microarrays. Nature Genetics 23, 41-46.
-
(1999)
Nature Genetics
, vol.23
, pp. 41-46
-
-
Pollack, J.R.1
Perou, C.M.2
Alizadeh, A.A.3
Eisen, M.B.4
Pergamenschikov, A.5
Williams, F.6
Jeffrey, S.S.7
Brown, D.B.P.O.8
-
21
-
-
0035375137
-
Computational analysis of microarray data
-
Quackenbush, J. (2001). Computational analysis of microarray data. Nature Reviews Genetics 2, 418-426.
-
(2001)
Nature Reviews Genetics
, vol.2
, pp. 418-426
-
-
Quackenbush, J.1
-
22
-
-
0038752613
-
The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria
-
Read, T., Peterson, S., Tourasse, N., Baillie, L., Paulsen, I., Nelson, K., Tettelin, H., Fouts, D., Eisen, J., Gill, S., Holtzapple, E., Okstad, O., Helgason, E., Rilstone, J., Wu, M., Kolonay, J., Beanan, M., Dodson, R., Brinkac, L., Gwinn, M., DeBoy, R., Madpu, R., Daugherty, S., Durkin, A., Haft, D., Nelson, W., Peterson, J., Pop, M., Khouri, H., Radune, D., Benton, J., Mahamoud, Y., Jiang, L., Hance, L., Weidman, J., Berry, K., Plaut, R., Wolf, A., Watkins, K., Nierman, Hazen, A., Cline, R., Redmond, C., Thwaite, J., White, O., Salzberg, S., Thomason, B., Friedlander, A., Koehler, T., Hanna, P., Kolsto, A., and Fraser, C. (2003). The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria. Nature 423, 81-86.
-
(2003)
Nature
, vol.423
, pp. 81-86
-
-
Read, T.1
Peterson, S.2
Tourasse, N.3
Baillie, L.4
Paulsen, I.5
Nelson, K.6
Tettelin, H.7
Fouts, D.8
Eisen, J.9
Gill, S.10
Holtzapple, E.11
Okstad, O.12
Helgason, E.13
Rilstone, J.14
Wu, M.15
Kolonay, J.16
Beanan, M.17
Dodson, R.18
Brinkac, L.19
Gwinn, M.20
DeBoy, R.21
Madpu, R.22
Daugherty, S.23
Durkin, A.24
Haft, D.25
Nelson, W.26
Peterson, J.27
Pop, M.28
Khouri, H.29
Radune, D.30
Benton, J.31
Mahamoud, Y.32
Jiang, L.33
Hance, L.34
Weidman, J.35
Berry, K.36
Plaut, R.37
Wolf, A.38
Watkins, K.39
Nierman40
Hazen, A.41
Cline, R.42
Redmond, C.43
Thwaite, J.44
White, O.45
Salzberg, S.46
Thomason, B.47
Friedlander, A.48
Koehler, T.49
Hanna, P.50
Kolsto, A.51
Fraser, C.52
more..
-
23
-
-
85153213436
-
Reducing false positives rates by rotating microarray-based genomotyping data
-
Repsilber, D., Lindroos, H., Mira, A., Ziegler, A., and Andersson, S. G. E. (2004). Reducing false positives rates by rotating microarray-based genomotyping data. Biometrical Journal 46, 57.
-
(2004)
Biometrical Journal
, vol.46
, pp. 57
-
-
Repsilber, D.1
Lindroos, H.2
Mira, A.3
Ziegler, A.4
Andersson, S.G.E.5
-
24
-
-
0003560841
-
-
Churchhill Livingstone, Toronto
-
Sackett, D. L., Strauss, S. E., Richardson, W. S., Rosenberg, W., and Haynes, R. B. (1997). Evidence-Based Medicine - how to Practice and Teach EBM. Churchhill Livingstone, Toronto.
-
(1997)
Evidence-based Medicine - How to Practice and Teach EBM
-
-
Sackett, D.L.1
Strauss, S.E.2
Richardson, W.S.3
Rosenberg, W.4
Haynes, R.B.5
-
25
-
-
0023890867
-
Measuring the accuracy of diagnostic systems
-
Swets, J. (1988). Measuring the accuracy of diagnostic systems. Science 240, 1285- 1293.
-
(1988)
Science
, vol.240
, pp. 1285-1293
-
-
Swets, J.1
-
26
-
-
0035964214
-
Significance analysis of microarrays applied to the ionizing radia-tion response
-
Tusher, V., Tibshirani, R., and Chu, G. (2001). Significance analysis of microarrays applied to the ionizing radia-tion response. Proceedings of the National Academy of Sciences of the United States of America 98, 10515.
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, pp. 10515
-
-
Tusher, V.1
Tibshirani, R.2
Chu, G.3
-
27
-
-
0035656126
-
Development and evaluation of functional gene arrays for detection of selected genes in the environment
-
Wu, L., Thompson, D. K., Li, G., Hurt, R. A., Tiedje, J. M., and Zhou, J. (2001). Development and evaluation of functional gene arrays for detection of selected genes in the environment. Applied and Environmental Microbiology 67, 5780-5790.
-
(2001)
Applied and Environmental Microbiology
, vol.67
, pp. 5780-5790
-
-
Wu, L.1
Thompson, D.K.2
Li, G.3
Hurt, R.A.4
Tiedje, J.M.5
Zhou, J.6
-
28
-
-
0041335360
-
Genome diversification in phylogenetic lineages i and II of Listeria monocytogenes: Identification of segments unique to lineage II populations
-
Zhang, C., Zhang, M., Ju, J., Nietfeldt, J., Wise, J., Terry, P. M., Olson, M., Kachman, S. D., Wiedmanna, M., Samadpour, M., and Benson, A. K. (2003). Genome diversification in phylogenetic lineages I and II of Listeria monocytogenes: Identification of segments unique to lineage II populations. Journal of Bacteriology 185, 5573-5584.
-
(2003)
Journal of Bacteriology
, vol.185
, pp. 5573-5584
-
-
Zhang, C.1
Zhang, M.2
Ju, J.3
Nietfeldt, J.4
Wise, J.5
Terry, P.M.6
Olson, M.7
Kachman, S.D.8
Wiedmanna, M.9
Samadpour, M.10
Benson, A.K.11
-
29
-
-
0027457620
-
Receiver-operating characteristic (roc) plots: A fundamental evaluation tool in clinical medicine
-
Zweig, M. and Campbell, G. (1993). Receiver-operating characteristic (roc) plots: a fundamental evaluation tool in clinical medicine. Clinical Chemistry 39, 561-577.
-
(1993)
Clinical Chemistry
, vol.39
, pp. 561-577
-
-
Zweig, M.1
Campbell, G.2
|