-
1
-
-
65849520676
-
Current tools for the identification of miRNA genes and their targets
-
Mendes ND, Freitas AT, Sagot M-F (2009) Current tools for the identification of miRNA genes and their targets. Nucleic Acids Res 37:2419-2433
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 2419-2433
-
-
Mendes, N.D.1
Freitas, A.T.2
Sagot, M.-F.3
-
2
-
-
33749645474
-
MiTarget: MicroRNA target gene prediction using a support vector machine
-
Kim S-K, Nam J-W, Rhee J-K, Lee W-J, Zhang B-T (2006) miTarget: MicroRNA target gene prediction using a support vector machine. BMC Bioinformatics 7:411
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 411
-
-
Kim, S.-K.1
Nam, J.-W.2
Rhee, J.-K.3
Lee, W.-J.4
Zhang, B.-T.5
-
3
-
-
38849145861
-
Prediction of both conserved and nonconserved microRNA targets in animals
-
Wang X, El Naqa IM. (2008) Prediction of both conserved and nonconserved microRNA targets in animals. Bioinformatics 24:325-332
-
(2008)
Bioinformatics
, vol.24
, pp. 325-332
-
-
Wang, X.1
El Naqa, I.M.2
-
4
-
-
36448982458
-
Naïve Bayes for microRNA target predictions-machine learning for microRNA targets
-
Yousef M, Jung S, Kossenkov AV, Showe LC, Showe MK. (2007) Naïve Bayes for microRNA target predictions-machine learning for microRNA targets. Bioinformatics 23:2987-2992
-
(2007)
Bioinformatics
, vol.23
, pp. 2987-2992
-
-
Yousef, M.1
Jung, S.2
Kossenkov, A.V.3
Showe, L.C.4
Showe, M.K.5
-
5
-
-
79954549922
-
Prediction of microRNA targets in Caenorhabditis elegans using a self-organizing map
-
Heikkinen L, Kolehmainen M, Wong G. (2011) Prediction of microRNA targets in Caenorhabditis elegans using a self-organizing map. Bioinformatics 27(9):1247-1254
-
(2011)
Bioinformatics
, vol.27
, Issue.9
, pp. 1247-1254
-
-
Heikkinen, L.1
Kolehmainen, M.2
Wong, G.3
-
6
-
-
0020068152
-
Self-organized formation of topologically correct feature maps
-
Kohonen T. (1982) Self-organized formation of topologically correct feature maps. Biol Cybern 43:59-69
-
(1982)
Biol Cybern
, vol.43
, pp. 59-69
-
-
Kohonen, T.1
-
7
-
-
0033027794
-
Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation
-
Tamayo P, Slonim D, Mesirov J, Zhu Q, Kitareewan S, Dmitrovsky E, Lander ES, Golub TR. (1999) Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation. Proc Natl Acad Sci U S A 96:2907-2912
-
(1999)
Proc Natl Acad Sci U S A
, vol.96
, pp. 2907-2912
-
-
Tamayo, P.1
Slonim, D.2
Mesirov, J.3
Zhu, Q.4
Kitareewan, S.5
Dmitrovsky, E.6
Lander, E.S.7
Golub, T.R.8
-
8
-
-
0042863923
-
Analysis of gene expression data using self-organizing maps
-
Törönen P, Kolehmainen M, Wong G, Castrén E. (1999) Analysis of gene expression data using self-organizing maps. FEBS Lett 451: 142-146
-
(1999)
FEBS Lett
, vol.451
, pp. 142-146
-
-
Törönen, P.1
Kolehmainen, M.2
Wong, G.3
Castrén, E.4
-
9
-
-
0344464733
-
Gene expression dynamics inspector (GEDI): For integrative analysis of expression profiles
-
Eichler GS, Huang S, Ingber DE. (2003) Gene expression dynamics inspector (GEDI): For integrative analysis of expression profiles. Bioinformatics 19:2321-2322
-
(2003)
Bioinformatics
, vol.19
, pp. 2321-2322
-
-
Eichler, G.S.1
Huang, S.2
Ingber, D.E.3
-
11
-
-
20444460289
-
MicroRNA expression profiles classify human cancers
-
Lu J, et al. (2005) MicroRNA expression profiles classify human cancers. Nature 435:834-838
-
(2005)
Nature
, vol.435
, pp. 834-838
-
-
Lu, J.1
-
15
-
-
77951190661
-
Systematic comparison of microarray profiling, real-Time PCR, and next-generation sequencing technologies for measuring differential microRNA expression
-
Git A, Dvinge H, Salmon-Divon M, Osborne M, Kutter C, Hadfield J, Bertone P, Caldas C. (2010) Systematic comparison of microarray profiling, real-Time PCR, and next-generation sequencing technologies for measuring differential microRNA expression. RNA 16: 991-1006
-
(2010)
RNA
, vol.16
, pp. 991-1006
-
-
Git, A.1
Dvinge, H.2
Salmon-Divon, M.3
Osborne, M.4
Kutter, C.5
Hadfield, J.6
Bertone, P.7
Caldas, C.8
-
16
-
-
65849488472
-
Intra-platform repeatability and inter-platform comparability of MicroRNA microarray technology
-
Sato F, Tsuchiya S, Terasawa K, Tsujimoto G. (2009) Intra-platform repeatability and inter-platform comparability of MicroRNA microarray technology. PLoS One 4:e5540
-
(2009)
PLoS One
, vol.4
-
-
Sato, F.1
Tsuchiya, S.2
Terasawa, K.3
Tsujimoto, G.4
-
17
-
-
79960019676
-
DARIO: A ncRNA detection and analysis tool for next-generation sequencing experiments
-
Fasold M, Langenberger D, Binder H, Stadler PF, Hoffmann S. (2011) DARIO: A ncRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res 39:W112-W117
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Fasold, M.1
Langenberger, D.2
Binder, H.3
Stadler, P.F.4
Hoffmann, S.5
-
18
-
-
67649595548
-
Limitations and possibilities of small RNA digital gene expression profiling
-
Linsen SEV, et al. (2009) Limitations and possibilities of small RNA digital gene expression profiling. Nat Methods 6:474-476
-
(2009)
Nat Methods
, vol.6
, pp. 474-476
-
-
Linsen, S.E.V.1
-
19
-
-
75449093509
-
Calibration of microarray gene-expression data
-
R.; Pilarski, C., Eds.; Humana Press: New York 2009
-
Binder, H.; Preibisch, S.; Berger, H. Calibration of microarray gene-expression data. In Methods in Molecular Biology; Grützmann, R.; Pilarski, C., Eds.; Humana Press: New York, 2009; Vol. 575, pp. 376-407
-
Methods in Molecular Biology; Grützmann
, vol.575
, pp. 376-407
-
-
Binder, H.1
.2
Preibisch, S.3
.4
Berger, H.5
-
20
-
-
55049129890
-
Technical variables in high-Throughput miRNA expression profiling: Much work remains to be done
-
Nelson PT, Wang W-X, Wilfred BR, Tang G. (2008) Technical variables in high-Throughput miRNA expression profiling: Much work remains to be done. Biochim Biophys Acta 1779:758-765
-
(2008)
Biochim Biophys Acta
, vol.1779
, pp. 758-765
-
-
Nelson, P.T.1
Wang, W.-X.2
Wilfred, B.R.3
Tang, G.4
-
22
-
-
81355147147
-
Identification and correction of systematic error in high-Throughput sequence data
-
Meacham F, Boffelli D, Dhahbi J, Martin D, Singer M, Pachter L. (2011) Identification and correction of systematic error in high-Throughput sequence data. BMC Bioinformatics 12:451
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 451
-
-
Meacham, F.1
Boffelli, D.2
Dhahbi, J.3
Martin, D.4
Singer, M.5
Pachter, L.6
-
23
-
-
78149407836
-
Normalization strategies for microrna profiling experiments: A 'normal' way to a hidden layer of complexity?
-
Meyer S, Pfaffl M, Ulbrich S. (2010) Normalization strategies for microRNA profiling experiments: A 'normal' way to a hidden layer of complexity? Biotechnol Lett 32:1777-1788
-
(2010)
Biotechnol Lett
, vol.32
, pp. 1777-1788
-
-
Meyer, S.1
Pfaffl, M.2
Ulbrich, S.3
-
24
-
-
77951587943
-
MicroRNA expression profiling to identify and validate reference genes for relative quantification in colorectal cancer
-
Chang K, Mestdagh P, Vandesompele J, Kerin M, Miller N. (2010) MicroRNA expression profiling to identify and validate reference genes for relative quantification in colorectal cancer. BMC Cancer 10:173
-
(2010)
BMC Cancer
, vol.10
, pp. 173
-
-
Chang, K.1
Mestdagh, P.2
Vandesompele, J.3
Kerin, M.4
Miller, N.5
-
25
-
-
0037316303
-
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias
-
Bolstad BM, Irizarry RA, Astrand M, Speed TP. (2003) A Comparison of Normalization Methods for High Density Oligonucleotide Array Data Based on Variance and Bias. Bioinformatics 19:9
-
(2003)
Bioinformatics
, vol.19
, pp. 9
-
-
Bolstad, B.M.1
Irizarry, R.A.2
Astrand, M.3
Speed, T.P.4
-
26
-
-
0036376993
-
Statistical methods for identifying genes with differential expression in replicated cDNA microarray experiments
-
Dudoit S, Yang YH, Callow MJ, Speed TP. (2002) Statistical methods for identifying genes with differential expression in replicated cDNA microarray experiments. Stat Sin 12:111-139
-
(2002)
Stat Sin
, vol.12
, pp. 111-139
-
-
Dudoit, S.1
Yang, Y.H.2
Callow, M.J.3
Speed, T.P.4
-
27
-
-
0242333835
-
Normalization of cDNA microarray data
-
Smyth G, Speed T. (2003) Normalization of cDNA microarray data. Methods 31:265-273
-
(2003)
Methods
, vol.31
, pp. 265-273
-
-
Smyth, G.1
Speed, T.2
-
28
-
-
84867095369
-
Mining SOM expression portraits: Feature selection and integrating concepts of molecular function
-
Wirth H, von Bergen M, Binder H. (2012) Mining SOM expression portraits: Feature selection and integrating concepts of molecular function. BioData Min 5:18
-
(2012)
BioData Min
, vol.5
, pp. 18
-
-
Wirth, H.1
Von Bergen, M.2
Binder, H.3
-
30
-
-
34247482586
-
Towards a holistic, yet gene-centered analysis of gene expression profiles: A case study of human lung cancers
-
Article ID
-
Guo Y, Eichler GS, Feng Y, Ingber DE, Huang S. (2006) Towards a holistic, yet gene-centered analysis of gene expression profiles: A case study of human lung cancers. J Biomed Biotechnol 2006, Article ID 69141
-
(2006)
J Biomed Biotechnol
, vol.2006
, pp. 69141
-
-
Guo, Y.1
Eichler, G.S.2
Feng, Y.3
Ingber, D.E.4
Huang, S.5
-
31
-
-
0023375195
-
The neighbor-joining method: A new method for reconstructing phylogenetic trees
-
Saitou N, Nei M. (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425
-
(1987)
Mol Biol Evol
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
32
-
-
33847302479
-
Accurate ranking of differentially expressed genes by a distribution-free shrinkage approach statist
-
Opgen-Rhein R, Strimmer K. (2007) Accurate Ranking of Differentially Expressed Genes by a Distribution-Free Shrinkage Approach. Statist. Appl Genet Mol Biol 6
-
(2007)
Appl Genet Mol Biol
, vol.6
-
-
Opgen-Rhein, R.1
Strimmer, K.2
-
33
-
-
47749156020
-
A unified approach to false discovery rate estimation
-
Strimmer K. (2008) A unified approach to false discovery rate estimation. BMC Bioinformatics 9:303
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 303
-
-
Strimmer, K.1
-
34
-
-
67749132423
-
Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps
-
Chi SW, Zang JB, Mele A, Darnell RB. (2009) Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps. Nature 460: 479-486
-
(2009)
Nature
, vol.460
, pp. 479-486
-
-
Chi, S.W.1
Zang, J.B.2
Mele, A.3
Darnell, R.B.4
|