-
1
-
-
0035072249
-
Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer
-
Hughes T.R., et al. Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Nat. Biotechnol. 19 (2001) 342-347
-
(2001)
Nat. Biotechnol.
, vol.19
, pp. 342-347
-
-
Hughes, T.R.1
-
2
-
-
0347691435
-
Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and alternative splicing
-
Castle J., et al. Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and alternative splicing. Genome Biol. 4 (2003) R66
-
(2003)
Genome Biol.
, vol.4
-
-
Castle, J.1
-
3
-
-
33747193154
-
Performance and bioinformat-ics evaluation of overlapping variable length oligonu-cleotide probes used in spotted microarrays
-
Jordan R., et al. Performance and bioinformat-ics evaluation of overlapping variable length oligonu-cleotide probes used in spotted microarrays. Trans. Integr. Biomed. Inform. Enabl. Technol. Symp. 1 (2004) 15-24
-
(2004)
Trans. Integr. Biomed. Inform. Enabl. Technol. Symp.
, vol.1
, pp. 15-24
-
-
Jordan, R.1
-
4
-
-
20344391689
-
Regulation of various genes in human leukocytes acutely exposed to morphine: expression microarray analysis
-
Stefano G.B., et al. Regulation of various genes in human leukocytes acutely exposed to morphine: expression microarray analysis. Med. Sci. Monit. 11 (2005) MS35-MS42
-
(2005)
Med. Sci. Monit.
, vol.11
-
-
Stefano, G.B.1
-
5
-
-
11144358198
-
A gene atlas of the mouse and human protein-encoding transcriptomes
-
Su A.I., et al. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc. Natl. Acad. Sci. USA 101 (2004) 6062-6067
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 6062-6067
-
-
Su, A.I.1
-
6
-
-
34248652240
-
-
Bilmes, J. A. 1998. A gentle tutorial of the EM algorithm and its appliaction to parameter estimation for Gaussian mixture and hidden Markov models. Technical report, ICSI TR-97-021, University of California at Berkley, USA.
-
-
-
-
7
-
-
34248683504
-
-
Shewchuk, J. R. 1994. An introduction to the conjugate gradient method without the agonizing pain. Technical report, CS-94-125, Carnegie Mellon University, Pittsburgh, USA.
-
-
-
-
8
-
-
2942542735
-
Three-parameter lognormal distribution ubiquitously found in cDNA microarray data and its application to parametric data treatment
-
Konishi T. Three-parameter lognormal distribution ubiquitously found in cDNA microarray data and its application to parametric data treatment. BMC Bioinformatics 5 (2004) 5
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 5
-
-
Konishi, T.1
-
9
-
-
0037025618
-
Ranking genes with respect to differential expression
-
preprint 0007.
-
Broberg P. Ranking genes with respect to differential expression. Genome Biol. 3 (2002) preprint 0007.
-
(2002)
Genome Biol.
, vol.3
-
-
Broberg, P.1
-
10
-
-
25444500666
-
Normal uniform mixture differential gene expression detection for cDNA microarrays
-
Dean N., and Raftery A.E. Normal uniform mixture differential gene expression detection for cDNA microarrays. BMC Bioinformatics 6 (2005) 173
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 173
-
-
Dean, N.1
Raftery, A.E.2
-
11
-
-
0038053153
-
Statistical adjustment of signal censoring in gene expression experiments
-
Wit E., and McClure J. Statistical adjustment of signal censoring in gene expression experiments. Bioinformatics 19 (2003) 1055-1060
-
(2003)
Bioinformatics
, vol.19
, pp. 1055-1060
-
-
Wit, E.1
McClure, J.2
-
12
-
-
23344438932
-
Scale-freeness and biologic networks
-
Arita M. Scale-freeness and biologic networks. J. Biochem. (Tokyo) 138 (2005) 1-4
-
(2005)
J. Biochem. (Tokyo)
, vol.138
, pp. 1-4
-
-
Arita, M.1
-
13
-
-
0038692119
-
Human housekeeping genes are compact
-
Eisenberg E., and Levanon E.Y. Human housekeeping genes are compact. Trends Genet. 19 (2003) 362-365
-
(2003)
Trends Genet.
, vol.19
, pp. 362-365
-
-
Eisenberg, E.1
Levanon, E.Y.2
-
14
-
-
0037119587
-
Stochastic gene expression in a single cell
-
Elowitz M.B., et al. Stochastic gene expression in a single cell. Science 297 (2002) 1183-1186
-
(2002)
Science
, vol.297
, pp. 1183-1186
-
-
Elowitz, M.B.1
-
15
-
-
0242416539
-
Noise in eukaryotic gene expression
-
Blake W.J., et al. Noise in eukaryotic gene expression. Nature 422 (2003) 633-637
-
(2003)
Nature
, vol.422
, pp. 633-637
-
-
Blake, W.J.1
-
16
-
-
2942718723
-
Control of stochasticity in eukaryotic gene expression
-
Raser J.M., and O'Shea E.K. Control of stochasticity in eukaryotic gene expression. Science 304 (2004) 1811-1814
-
(2004)
Science
, vol.304
, pp. 1811-1814
-
-
Raser, J.M.1
O'Shea, E.K.2
-
17
-
-
12144261863
-
Self-organization vs Watchmaker: stochastic gene expression and cell differentiation
-
Kurakin A. Self-organization vs Watchmaker: stochastic gene expression and cell differentiation. Dev. Genes Evol. 215 (2005) 46-52
-
(2005)
Dev. Genes Evol.
, vol.215
, pp. 46-52
-
-
Kurakin, A.1
-
18
-
-
29244462834
-
Transcriptional stochastic-ity in gene expression
-
Lipniacki T., et al. Transcriptional stochastic-ity in gene expression. J. Theor. Biol. 238 (2006) 348-367
-
(2006)
J. Theor. Biol.
, vol.238
, pp. 348-367
-
-
Lipniacki, T.1
-
19
-
-
19544379881
-
Stochasticity in gene expression: from theories to phenotypes
-
Kaern M., et al. Stochasticity in gene expression: from theories to phenotypes. Nat. Rev. Genet. 6 (2005) 451-464
-
(2005)
Nat. Rev. Genet.
, vol.6
, pp. 451-464
-
-
Kaern, M.1
-
20
-
-
10044260032
-
Modeling and simulation of 228 Geno. Prot. Bioinfo. biological systems with stochasticity
-
Meng T.C., et al. Modeling and simulation of 228 Geno. Prot. Bioinfo. biological systems with stochasticity. In Silico Biol. 4 (2004) 293-309
-
(2004)
In Silico Biol.
, vol.4
, pp. 293-309
-
-
Meng, T.C.1
-
21
-
-
6344284947
-
DEMSIM: a discrete event based mechanistic simulation platform for gene expression and regulation dynamics
-
Dasika M.S., et al. DEMSIM: a discrete event based mechanistic simulation platform for gene expression and regulation dynamics. J. Theor. Biol. 232 (2005) 55-69
-
(2005)
J. Theor. Biol.
, vol.232
, pp. 55-69
-
-
Dasika, M.S.1
-
22
-
-
33645317935
-
Genomic plasticity and information processing by transcription coregulators
-
Benecke A. Genomic plasticity and information processing by transcription coregulators. Complexus 1 (2003) 65-76
-
(2003)
Complexus
, vol.1
, pp. 65-76
-
-
Benecke, A.1
-
23
-
-
33645285263
-
Chromatin code, local non-equilibrium dynamics, and the emergence of transcription regulatory programs
-
Benecke A. Chromatin code, local non-equilibrium dynamics, and the emergence of transcription regulatory programs. Eur. Phys. J. E (Soft Matter) 19 (2006) 353-366
-
(2006)
Eur. Phys. J. E (Soft Matter)
, vol.19
, pp. 353-366
-
-
Benecke, A.1
-
24
-
-
33747330684
-
Normalization using weighted negative second order exponential error functions (NeONORM) provides robustness against asymmetries in comparative transcriptome profiles and avoids false calls
-
Noth S., et al. Normalization using weighted negative second order exponential error functions (NeONORM) provides robustness against asymmetries in comparative transcriptome profiles and avoids false calls. Genomics Proteomics Bioinformatics 4 (2006) 90-109
-
(2006)
Genomics Proteomics Bioinformatics
, vol.4
, pp. 90-109
-
-
Noth, S.1
-
25
-
-
84936916896
-
Robust locally weighted regression and smoothing scatterplots
-
Cleveland W.S. Robust locally weighted regression and smoothing scatterplots. J. Amer. Statist. Assoc. 74 (1979) 829-836
-
(1979)
J. Amer. Statist. Assoc.
, vol.74
, pp. 829-836
-
-
Cleveland, W.S.1
-
26
-
-
84947318637
-
Locally weighted regression: an approach to regression analysis by local fitting
-
Cleveland W.S., and Devlin S. Locally weighted regression: an approach to regression analysis by local fitting. J. Amer. Statist. Assoc. 83 (1988) 596-610
-
(1988)
J. Amer. Statist. Assoc.
, vol.83
, pp. 596-610
-
-
Cleveland, W.S.1
Devlin, S.2
-
27
-
-
13244289933
-
Optimized LOWESS normalization parameter selection for DNA microarray data
-
Berger J.A., et al. Optimized LOWESS normalization parameter selection for DNA microarray data. BMC Bioinformatics 5 (2004) 194
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 194
-
-
Berger, J.A.1
-
28
-
-
0242317346
-
Fundamentals of cDNA microarray data analysis
-
Leung Y.F., and Cavalieri D. Fundamentals of cDNA microarray data analysis. Trends Genet. 19 (2003) 649-659
-
(2003)
Trends Genet.
, vol.19
, pp. 649-659
-
-
Leung, Y.F.1
Cavalieri, D.2
-
29
-
-
12244284624
-
DNA microarray experiments: biological and technological aspects
-
Nguyen D.V., et al. DNA microarray experiments: biological and technological aspects. Biometrics 58 (2002) 701-717
-
(2002)
Biometrics
, vol.58
, pp. 701-717
-
-
Nguyen, D.V.1
-
30
-
-
84984933234
-
High density synthetic oligonucleotide arrays
-
Lipschutz R.J., et al. High density synthetic oligonucleotide arrays. Nat. Genet. 21 (1999) 20-24
-
(1999)
Nat. Genet.
, vol.21
, pp. 20-24
-
-
Lipschutz, R.J.1
-
31
-
-
0034927555
-
Analysis of variance for gene expression microarray data
-
Kerr M.K., et al. Analysis of variance for gene expression microarray data. J. Comput. Biol. 7 (2000) 819-837
-
(2000)
J. Comput. Biol.
, vol.7
, pp. 819-837
-
-
Kerr, M.K.1
-
32
-
-
13244284649
-
Rank Difference Analysis of Microarrays (RDAM), a novel approach to statistical analysis of microarray expression profiling data
-
Martin D.E., et al. Rank Difference Analysis of Microarrays (RDAM), a novel approach to statistical analysis of microarray expression profiling data. BMC Bioinformatics 5 (2004) 148
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 148
-
-
Martin, D.E.1
-
33
-
-
0035999977
-
A comparative review of statistical methods for discovering differentially expressed genes in replicated microarray experiments
-
Pan W. A comparative review of statistical methods for discovering differentially expressed genes in replicated microarray experiments. Bioinformatics 18 (2002) 546-554
-
(2002)
Bioinformatics
, vol.18
, pp. 546-554
-
-
Pan, W.1
-
34
-
-
0034954414
-
Classification and diagnostic prediction of cancers using gene expression profiling and artificial neural networks
-
Khan J., et al. Classification and diagnostic prediction of cancers using gene expression profiling and artificial neural networks. Nat. Med. 7 (2001) 673-679
-
(2001)
Nat. Med.
, vol.7
, pp. 673-679
-
-
Khan, J.1
-
35
-
-
13444282534
-
Outcome signature genes in breast cancer: is there a unique set?
-
Ein-Dor L., et al. Outcome signature genes in breast cancer: is there a unique set?. Bioinformatics 21 (2005) 171-178
-
(2005)
Bioinformatics
, vol.21
, pp. 171-178
-
-
Ein-Dor, L.1
-
36
-
-
32544449970
-
Thermodynamics of RNA/DNA hybridization in high density oligonu-cleotide microarrays
-
Carlon E., and Heim T. Thermodynamics of RNA/DNA hybridization in high density oligonu-cleotide microarrays. Physica A 362 (2006) 433-449
-
(2006)
Physica A
, vol.362
, pp. 433-449
-
-
Carlon, E.1
Heim, T.2
-
37
-
-
18244384210
-
Multiple-laboratory comparison of microarray platforms
-
Irizarry R.A., et al. Multiple-laboratory comparison of microarray platforms. Nat. Methods. 2 (2005) 345-350
-
(2005)
Nat. Methods.
, vol.2
, pp. 345-350
-
-
Irizarry, R.A.1
-
38
-
-
13444304325
-
NCBI GEO: mining millions of expression profiles-database and tools
-
Barrett T., et al. NCBI GEO: mining millions of expression profiles-database and tools. Nucleic Acids Res. 33 (2005) D562-D566
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Barrett, T.1
-
39
-
-
30044442305
-
Avoiding inconsistencies over time and tracking difficulties in Applied Biosystems AB1700™/Panther™ probe-to-gene annotations
-
Noth S., and Benecke A. Avoiding inconsistencies over time and tracking difficulties in Applied Biosystems AB1700™/Panther™ probe-to-gene annotations. BMC Bioinformatics 6 (2005) 307
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 307
-
-
Noth, S.1
Benecke, A.2
|