-
1
-
-
33748503420
-
Evaluation of DNA microarray results with quantitative gene expression platforms
-
Canales,R.D., Luo,Y., Willey,J.C., Austermiller,B., Barbacioru,C.C., Boysen,C., Hunkapiller,K., Jensen,R.V., Knight,C.R., Lee,K.Y. et al (2006) Evaluation of DNA microarray results with quantitative gene expression platforms. Nat. Biotechnol., 24, 1115-1122.
-
(2006)
Nat. Biotechnol
, vol.24
, pp. 1115-1122
-
-
Canales, R.D.1
Luo, Y.2
Willey, J.C.3
Austermiller, B.4
Barbacioru, C.C.5
Boysen, C.6
Hunkapiller, K.7
Jensen, R.V.8
Knight, C.R.9
Lee, K.Y.10
-
2
-
-
33748495591
-
Rat toxicogenomic study reveals analytical consistency across microarray platforms
-
Guo,L., Lobenhofer,E.K., Wang,C., Shippy,R., Harris,S.C., Zhang,L., Mei,N., Chen,T., Herman,D., Goodsaid,F.M. et al. (2006) Rat toxicogenomic study reveals analytical consistency across microarray platforms. Nat. Biotechnol., 24, 1162-1169.
-
(2006)
Nat. Biotechnol
, vol.24
, pp. 1162-1169
-
-
Guo, L.1
Lobenhofer, E.K.2
Wang, C.3
Shippy, R.4
Harris, S.C.5
Zhang, L.6
Mei, N.7
Chen, T.8
Herman, D.9
Goodsaid, F.M.10
-
3
-
-
33748491718
-
Performance comparison of one-color and two-color platforms within the MicroArray Quality Control (MAQC) project
-
Patterson,T.A., Lobenhofer,E.K., Fulmer-Smentek,S.B., Collins,P.J., Chu,T.M., Bao,W., Fang,H., Kawasaki,E.S., Hager,J., Tikhonova,I.R., et al. (2006) Performance comparison of one-color and two-color platforms within the MicroArray Quality Control (MAQC) project. Nat. Biotechnol., 24, 1140-1150.
-
(2006)
Nat. Biotechnol
, vol.24
, pp. 1140-1150
-
-
Patterson, T.A.1
Lobenhofer, E.K.2
Fulmer-Smentek, S.B.3
Collins, P.J.4
Chu, T.M.5
Bao, W.6
Fang, H.7
Kawasaki, E.S.8
Hager, J.9
Tikhonova, I.R.10
-
4
-
-
33748491517
-
The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements
-
Shi,L., Reid,L.H., Jones,W.D., Shippy,R., Warrington,J.A., Baker,S.C., Colfins,P.J., de Longueville,F., Kawasaki,E.S., Lee,K.Y. et al. (2006) The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements. Nat. Biotechnol., 24, 1151-1161.
-
(2006)
Nat. Biotechnol
, vol.24
, pp. 1151-1161
-
-
Shi, L.1
Reid, L.H.2
Jones, W.D.3
Shippy, R.4
Warrington, J.A.5
Baker, S.C.6
Colfins, P.J.7
de Longueville, F.8
Kawasaki, E.S.9
Lee, K.Y.10
-
5
-
-
33748482861
-
Using RNA sample titrations to assess microarray platform performance and normalization techniques
-
Shippy,R., Fulmer-Smentek,S., Jensen,R.V., Jones,W.D., Wolber,P.K., Johnson,C.D., Pine,P.S., Boysen,C., Guo,X., Chudin,E. et al. (2006) Using RNA sample titrations to assess microarray platform performance and normalization techniques. Nat. Biotechnol., 24 1123-1131.
-
(2006)
Nat. Biotechnol
, vol.24
, pp. 1123-1131
-
-
Shippy, R.1
Fulmer-Smentek, S.2
Jensen, R.V.3
Jones, W.D.4
Wolber, P.K.5
Johnson, C.D.6
Pine, P.S.7
Boysen, C.8
Guo, X.9
Chudin, E.10
-
6
-
-
33748508012
-
Evaluation of external RNA controls for the assessment of microarray performance
-
Tong,W., Lucas,A.B., Shippy,R., Fan,X, Fang,H., Hong,H., Orr,M.S., Chu,T.M., Guo,X., Collins,P.J. et al. (2006) Evaluation of external RNA controls for the assessment of microarray performance. Nat. Biotechnol., 24, 1132-1139.
-
(2006)
Nat. Biotechnol
, vol.24
, pp. 1132-1139
-
-
Tong, W.1
Lucas, A.B.2
Shippy, R.3
Fan, X.4
Fang, H.5
Hong, H.6
Orr, M.S.7
Chu, T.M.8
Guo, X.9
Collins, P.J.10
-
7
-
-
35748949257
-
A comparison of background correction methods for two-colour microarrays
-
Ritchie,M.E., Silver,J., Oshlack,A., Holmes,M., Diyagama,D., Holloway,A. and Smyth,G.K. (2007) A comparison of background correction methods for two-colour microarrays. Bioinformatics., 23, 2700-2707.
-
(2007)
Bioinformatics
, vol.23
, pp. 2700-2707
-
-
Ritchie, M.E.1
Silver, J.2
Oshlack, A.3
Holmes, M.4
Diyagama, D.5
Holloway, A.6
Smyth, G.K.7
-
8
-
-
0142121516
-
Exploration, normalization and summaries of high density oligonucleotide array probe level data
-
Irizarry,R.A., Hobbs,B., Cofin,F., Beazer-Barclay,Y.D., Antonellis,K., Scherf,U. and Speed,T.P. (2003) Exploration, normalization and summaries of high density oligonucleotide array probe level data. Biostatistics 4, 249-264.
-
(2003)
Biostatistics
, vol.4
, pp. 249-264
-
-
Irizarry, R.A.1
Hobbs, B.2
Cofin, F.3
Beazer-Barclay, Y.D.4
Antonellis, K.5
Scherf, U.6
Speed, T.P.7
-
9
-
-
33749027459
-
Parameter estimation for the exponential-normal convolution model for background correction of Affymetrix GeneChip data
-
Article
-
McGee,M. and Chen,Z. (2006) Parameter estimation for the exponential-normal convolution model for background correction of Affymetrix GeneChip data. Stat. Appl. Genet. Mal. Biol., 5, Article 24.
-
(2006)
Stat. Appl. Genet. Mal. Biol
, vol.5
, pp. 24
-
-
McGee, M.1
Chen, Z.2
-
10
-
-
8744290969
-
A novel, high-performance random array platform for quantitative gene expression profiling
-
Kuhn,K., Baker,S.C., Chudin,E., Lieu,M.H., Oeser,S., Bennett,H., Rigault,P., Barker,D., McDaniel,T.K. and Chec,M.S. (2004) A novel, high-performance random array platform for quantitative gene expression profiling. Genome Res., 14, 2347-2356.
-
(2004)
Genome Res
, vol.14
, pp. 2347-2356
-
-
Kuhn, K.1
Baker, S.C.2
Chudin, E.3
Lieu, M.H.4
Oeser, S.5
Bennett, H.6
Rigault, P.7
Barker, D.8
McDaniel, T.K.9
Chec, M.S.10
-
11
-
-
2442674039
-
Decoding randomly ordered DNA arrays
-
Gunderson,K.L., Kruglyak,S., Graige,M.S., Garcia,F., Kermani,B,G., Zhao,C., Che,D., Dickinson,T., Wickham,E., Bierle,J. et al. (2004) Decoding randomly ordered DNA arrays. Genome Res., 14, 870-877.
-
(2004)
Genome Res
, vol.14
, pp. 870-877
-
-
Gunderson, K.L.1
Kruglyak, S.2
Graige, M.S.3
Garcia, F.4
Kermani, B.G.5
Zhao, C.6
Che, D.7
Dickinson, T.8
Wickham, E.9
Bierle, J.10
-
12
-
-
27144486151
-
(20O) Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression Analysis platforms
-
Barnes,M., Freudenberg,J., Thompson,S., Aronow,B. and Pavlidis,P. (20O) Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression Analysis platforms. Nucleic Acids Res., 33, 5914-5923.
-
Nucleic Acids Res
, vol.33
, pp. 5914-5923
-
-
Barnes, M.1
Freudenberg, J.2
Thompson, S.3
Aronow, B.4
Pavlidis, P.5
-
13
-
-
17744413236
-
Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application
-
RESEARCH0032
-
Li,C. and Hung Wong,W. (2001) Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application. Genome Biol., 2, RESEARCH0032.
-
(2001)
Genome Biol
, vol.2
-
-
Li, C.1
Hung Wong, W.2
-
14
-
-
0035793042
-
Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection
-
Li,C. and Wong,W.H. (2001) Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection. Proc. Natl Acad. Sci USA, 98, 31-36.
-
(2001)
Proc. Natl Acad. Sci USA
, vol.98
, pp. 31-36
-
-
Li, C.1
Wong, W.H.2
-
15
-
-
0034518156
-
Processing and quality control of DNA array hybridization data
-
Beissbarth,T., Fellenberg,K., Brors,B., Arribas-Prat,R., Boer,J., Hauser,N.C., Scheideler,M., Hoheisel, J.D., Schutz,G., Poustka,A. et al. (2000) Processing and quality control of DNA array hybridization data. Bioinformatics, 16, 1014-1021.
-
(2000)
Bioinformatics
, vol.16
, pp. 1014-1021
-
-
Beissbarth, T.1
Fellenberg, K.2
Brors, B.3
Arribas-Prat, R.4
Boer, J.5
Hauser, N.C.6
Scheideler, M.7
Hoheisel, J.D.8
Schutz, G.9
Poustka, A.10
-
16
-
-
0036208346
-
Improved background correction for spotted DNA microarrays
-
Kooperberg,C., Fazzio,T.G., Detrow,J.J. and Tsukiyama,T. (2002) Improved background correction for spotted DNA microarrays. J. Comput. Biol. 9, 55-66.
-
(2002)
J. Comput. Biol
, vol.9
, pp. 55-66
-
-
Kooperberg, C.1
Fazzio, T.G.2
Detrow, J.J.3
Tsukiyama, T.4
-
17
-
-
9144268360
-
Empirical evaluation of data transformations and ranking statistics for microarray analysis
-
Qin,L.X. and Kerr,K.F. (2004) Empirical evaluation of data transformations and ranking statistics for microarray analysis. Nucleic Acids Res., 32, 5471-5479.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 5471-5479
-
-
Qin, L.X.1
Kerr, K.F.2
-
18
-
-
18744422885
-
-
Tran,P.H., Peiffer,D.A., Shin.Y., Meek,L.M., Brody,J.P. and Cho,K.W. (2002) Microarray optimizations: Increasing spot accuracy and automated identification of true microarray signals. Nucleic Acids Res., 30, e54.
-
Tran,P.H., Peiffer,D.A., Shin.Y., Meek,L.M., Brody,J.P. and Cho,K.W. (2002) Microarray optimizations: Increasing spot accuracy and automated identification of true microarray signals. Nucleic Acids Res., 30, e54.
-
-
-
-
19
-
-
0037095769
-
Accuracy and calibration of commercial oligonucleotide and custom cDNA microarrays
-
Yuen,T., Wurmbach,E., Pfeffer,R.L., Ebersole,B.J. and Sealfon,S.C. (2002) Accuracy and calibration of commercial oligonucleotide and custom cDNA microarrays. Nucleic Acids Res., 30, e48.
-
(2002)
Nucleic Acids Res
, vol.30
-
-
Yuen, T.1
Wurmbach, E.2
Pfeffer, R.L.3
Ebersole, B.J.4
Sealfon, S.C.5
-
20
-
-
21844450491
-
Functional genomic analysis of midgut epithelial responses in Anopheles during Plasmodium invasion
-
Vlachou,D., Schlegelmilch,T., Christophides,G.K. and Kafatos,F.C. (2005) Functional genomic analysis of midgut epithelial responses in Anopheles during Plasmodium invasion. Curr. Biol., 15, 1185-1195.
-
(2005)
Curr. Biol
, vol.15
, pp. 1185-1195
-
-
Vlachou, D.1
Schlegelmilch, T.2
Christophides, G.K.3
Kafatos, F.C.4
-
21
-
-
2942716700
-
(2O04) A cluster of differentially expressed signal transduction genes identified by microarray analysis in a rat genetic model of alcoholism
-
Arlinde,C., Sommer,W., Bjork,K., Reimers,M., Hyytia,P., Kiianmaa,K. and Heilig,M. (2O04) A cluster of differentially expressed signal transduction genes identified by microarray analysis in a rat genetic model of alcoholism. Pharmacogenomics J., 4, 208-218.
-
Pharmacogenomics J
, vol.4
, pp. 208-218
-
-
Arlinde, C.1
Sommer, W.2
Bjork, K.3
Reimers, M.4
Hyytia, P.5
Kiianmaa, K.6
Heilig, M.7
-
22
-
-
45549095485
-
Model based background correction for Illumina beadarray data
-
American Statistical Association
-
Xie,Y., Ding,L., Xiao,G., Allen,J. and Story,M.D. (2007) Model based background correction for Illumina beadarray data. 2007 Proceedings of the Biometrics Section, American Statistical Association, 338-342.
-
(2007)
2007 Proceedings of the Biometrics Section
, pp. 338-342
-
-
Xie, Y.1
Ding, L.2
Xiao, G.3
Allen, J.4
Story, M.D.5
-
23
-
-
0004012196
-
-
2nd edn. London, CRC Press
-
Gelman,A., Carlin, J., Stern,H. and Rubin,D. (2003) Bayesian Data Analysis, 2nd edn. London, CRC Press.
-
(2003)
Bayesian Data Analysis
-
-
Gelman, A.1
Carlin, J.2
Stern, H.3
Rubin, D.4
-
24
-
-
33646356971
-
Normal and transforming functions of RUNX1: A perspective
-
Mikhail,F.M., Sinha,K.K., Saunthararajah,Y. and Nucifora,G. (2006) Normal and transforming functions of RUNX1: A perspective. J. Cell. Physiol., 207, 582-593.
-
(2006)
J. Cell. Physiol
, vol.207
, pp. 582-593
-
-
Mikhail, F.M.1
Sinha, K.K.2
Saunthararajah, Y.3
Nucifora, G.4
-
25
-
-
18344372018
-
The RUNX genes: Gain or loss of function in cancer
-
Blyth,K., Cameron,E.R. and Neil,J.C. (2005) The RUNX genes: Gain or loss of function in cancer. Nat. Rev. Cancer, 5, 376-387.
-
(2005)
Nat. Rev. Cancer
, vol.5
, pp. 376-387
-
-
Blyth, K.1
Cameron, E.R.2
Neil, J.C.3
-
26
-
-
33750214824
-
Reduced BRCA1 expression due to promoter hypermethylation in therapy-related acute myeloid leukaemia
-
Scardocci,A., Guidi,F., D'Alo,F., Gumiero,D., Fabiani,E., Diruscio,A., Martini,M., Larocca,L.M., Zollino,M., Rohaus,S. et al. (2006) Reduced BRCA1 expression due to promoter hypermethylation in therapy-related acute myeloid leukaemia. Br. J. Cancer, 95, 1108-1113.
-
(2006)
Br. J. Cancer
, vol.95
, pp. 1108-1113
-
-
Scardocci, A.1
Guidi, F.2
D'Alo, F.3
Gumiero, D.4
Fabiani, E.5
Diruscio, A.6
Martini, M.7
Larocca, L.M.8
Zollino, M.9
Rohaus, S.10
-
27
-
-
24744470483
-
Absence of p21(CIP 1), p27(KIP 1) and p 57(KIP 2) methylation in MDS and AML
-
Brakensiek,K., Langer,F., Kreipe,H. and Lehmann,U. (2005) Absence of p21(CIP 1), p27(KIP 1) and p 57(KIP 2) methylation in MDS and AML. Leuk. Res., 29, 1357-1360.
-
(2005)
Leuk. Res
, vol.29
, pp. 1357-1360
-
-
Brakensiek, K.1
Langer, F.2
Kreipe, H.3
Lehmann, U.4
-
28
-
-
24044548990
-
Enhanced proliferative potential of hematopoietic cells expressing degradation-resistant c-Myb mutants
-
Corradini,F., Cesi,V., Bartella,V., Pani,E., Bussolari,R., Candini,O. and Calabretta,B. (2005) Enhanced proliferative potential of hematopoietic cells expressing degradation-resistant c-Myb mutants. J. Biol. Chem., 280, 30254-30262.
-
(2005)
J. Biol. Chem
, vol.280
, pp. 30254-30262
-
-
Corradini, F.1
Cesi, V.2
Bartella, V.3
Pani, E.4
Bussolari, R.5
Candini, O.6
Calabretta, B.7
-
29
-
-
0036605993
-
-
Long,D.J. II, Gaikwad,A., Multani,A., Pathak,S., Montgomery.C.A. Gonzalez,F.J. and Jaiswal,A.K. (2002) Disruption of the NAD(P)H:qUinone oxidoreductase 1 (NQO1) gene in mice causes myelogenous hyperplasia. Cancer Res., 62, 3030-3036.
-
Long,D.J. II, Gaikwad,A., Multani,A., Pathak,S., Montgomery.C.A. Gonzalez,F.J. and Jaiswal,A.K. (2002) Disruption of the NAD(P)H:qUinone oxidoreductase 1 (NQO1) gene in mice causes myelogenous hyperplasia. Cancer Res., 62, 3030-3036.
-
-
-
-
30
-
-
33745298519
-
Nuclear factor-kappaB in cancer development and progression
-
Karin,M. (2006) Nuclear factor-kappaB in cancer development and progression. Nature, 441, 431-436.
-
(2006)
Nature
, vol.441
, pp. 431-436
-
-
Karin, M.1
-
31
-
-
24944487318
-
In vivo antitumor activity of the NF-kappaB inhibitor dehydroxymethylepoxyquinomicin in a mouse model of adult T-cell leukemia
-
Ohsugi,T., Horie,R., Kumasaka,T., Ishida,A., Ishida,T., Yamaguchi,K., Watanabe,T., Umezawa,K. and Urano,T. (2005) In vivo antitumor activity of the NF-kappaB inhibitor dehydroxymethylepoxyquinomicin in a mouse model of adult T-cell leukemia. Carcinogenesis, 26, 1382-1388.
-
(2005)
Carcinogenesis
, vol.26
, pp. 1382-1388
-
-
Ohsugi, T.1
Horie, R.2
Kumasaka, T.3
Ishida, A.4
Ishida, T.5
Yamaguchi, K.6
Watanabe, T.7
Umezawa, K.8
Urano, T.9
-
32
-
-
34247609952
-
AS602868, a dual inhibitor of IKK2 and FLT3 to target AML cells
-
Griessinger,E., Imbert,V., Lagadec,P., Gonthier,N., Dubreuil,P., Romanelli,A., Dreano,M. and Peyron,J.F. (2007) AS602868, a dual inhibitor of IKK2 and FLT3 to target AML cells. Leukemia, 21 877-885.
-
(2007)
Leukemia
, vol.21
, pp. 877-885
-
-
Griessinger, E.1
Imbert, V.2
Lagadec, P.3
Gonthier, N.4
Dubreuil, P.5
Romanelli, A.6
Dreano, M.7
Peyron, J.F.8
-
33
-
-
34250333058
-
NF-kappaB inhibition sensitizes to starvation-induced cell death in high-risk myelodysplastic syndrome and acute myeloid leukemia
-
Fabre,C., Carvalho,G., Tasdemir,E., Braun,T., Ades,L., Grosjean,J., Boehrer,S., Metivier,D., Souquere,S., Pierron,G. et al. (2007) NF-kappaB inhibition sensitizes to starvation-induced cell death in high-risk myelodysplastic syndrome and acute myeloid leukemia. Oncogene, 26, 4071-4083.
-
(2007)
Oncogene
, vol.26
, pp. 4071-4083
-
-
Fabre, C.1
Carvalho, G.2
Tasdemir, E.3
Braun, T.4
Ades, L.5
Grosjean, J.6
Boehrer, S.7
Metivier, D.8
Souquere, S.9
Pierron, G.10
-
34
-
-
4444236952
-
Switching leukemia cell phenotype between life and death
-
Tucker,S.J., Rae,C., Littlejohn,A.F., Paul,A. and MacEwan,D.J. (2004) Switching leukemia cell phenotype between life and death. Proc. Natl Acad. Sci. USA, 101, 12940-12945.
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 12940-12945
-
-
Tucker, S.J.1
Rae, C.2
Littlejohn, A.F.3
Paul, A.4
MacEwan, D.J.5
-
35
-
-
34249899143
-
Balance of NF-kappaB and p38 MAPK is a determinant of radiosensitivity of the AML-2 and its doxorubicin-resistant cell lines
-
Choi,C.H., Xu,H., Bark,H., Lee,T.B., Yun,J., Kang,S.I. and Oh,Y.K. (2007) Balance of NF-kappaB and p38 MAPK is a determinant of radiosensitivity of the AML-2 and its doxorubicin-resistant cell lines. Leuk. Res., 31, 1267-1276.
-
(2007)
Leuk. Res
, vol.31
, pp. 1267-1276
-
-
Choi, C.H.1
Xu, H.2
Bark, H.3
Lee, T.B.4
Yun, J.5
Kang, S.I.6
Oh, Y.K.7
|