-
1
-
-
2942576225
-
Sources of variability and effect of experimental approach on expression profiling data interpretation
-
Bakay M, Chen YW, Borup R, Zhao P, Nagaraju K, and Hoffman EP. Sources of variability and effect of experimental approach on expression profiling data interpretation. BMC Bioinformatics 3: 4, 2002.
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 4
-
-
Bakay, M.1
Chen, Y.W.2
Borup, R.3
Zhao, P.4
Nagaraju, K.5
Hoffman, E.P.6
-
2
-
-
18244389201
-
Standardizing global gene expression analysis between laboratories and across platforms
-
Bammler T, Beyer RP, Bhattacharya S, Boorman GA, Boyles A, Bradford BU, Bumgarner RE, Bushel PR, Chaturvedi K, Choi D, Cunningham ML, Deng S, Dressman HK, Fannin RD, Farin FM, Freedman JH, Fry RC, Harper A, Humble MC, Hurban P, Kavanagh TJ, Kaufmann WK, Kerr KF, Jing L, Lapidus JA, Lasarev MR, Li J, Li YJ, Lobenhofer EK, Lu X, Malek RL, Milton S, Nagalla SR, O'Malley JP, Palmer VS, Pattee P, Paules RS, Perou CM, Phillips K, Qin LX, Qiu Y, Quigley SD, Rodland M, Rusyn I, Samson LD, Schwartz DA, Shi Y, Shin JL, Sieber SO, Slifer S, Speer MC, Spencer PS, Sproles DI, Swenberg JA, Suk WA, Sullivan RC, Tian R, Tennant RW, Todd SA, Tucker CJ, Van Houten B, Weis BK, Xuan S, and Zarbl H; Members of the Toxicogenomics Research Consortium. Standardizing global gene expression analysis between laboratories and across platforms. Nat Methods 2: 351-356, 2005.
-
(2005)
Nat Methods
, vol.2
, pp. 351-356
-
-
Bammler, T.1
Beyer, R.P.2
Bhattacharya, S.3
Boorman, G.A.4
Boyles, A.5
Bradford, B.U.6
Bumgarner, R.E.7
Bushel, P.R.8
Chaturvedi, K.9
Choi, D.10
Cunningham, M.L.11
Deng, S.12
Dressman, H.K.13
Fannin, R.D.14
Farin, F.M.15
Freedman, J.H.16
Fry, R.C.17
Harper, A.18
Humble, M.C.19
Hurban, P.20
Kavanagh, T.J.21
Kaufmann, W.K.22
Kerr, K.F.23
Jing, L.24
Lapidus, J.A.25
Lasarev, M.R.26
Li, J.27
Li, Y.J.28
Lobenhofer, E.K.29
Lu, X.30
Malek, R.L.31
Milton, S.32
Nagalla, S.R.33
O'Malley, J.P.34
Palmer, V.S.35
Pattee, P.36
Paules, R.S.37
Perou, C.M.38
Phillips, K.39
Qin, L.X.40
Qiu, Y.41
Quigley, S.D.42
Rodland, M.43
Rusyn, I.44
Samson, L.D.45
Schwartz, D.A.46
Shi, Y.47
Shin, J.L.48
Sieber, S.O.49
Slifer, S.50
Speer, M.C.51
Spencer, P.S.52
Sproles, D.I.53
Swenberg, J.A.54
Suk, W.A.55
Sullivan, R.C.56
Tian, R.57
Tennant, R.W.58
Todd, S.A.59
Tucker, C.J.60
Van Houten, B.61
Weis, B.K.62
Xuan, S.63
Zarbl, H.64
more..
-
3
-
-
0038486795
-
Spotted long oligonucleotide arrays for human gene expression analysis
-
Barczak A, Rodriguez MW, Hanspers K, Koth LL, Tai YC, Bolstad BM, Speed TP, and Erle DJ. Spotted long oligonucleotide arrays for human gene expression analysis. Genome Res 13: 1775-1785, 2003.
-
(2003)
Genome Res
, vol.13
, pp. 1775-1785
-
-
Barczak, A.1
Rodriguez, M.W.2
Hanspers, K.3
Koth, L.L.4
Tai, Y.C.5
Bolstad, B.M.6
Speed, T.P.7
Erle, D.J.8
-
4
-
-
0032053456
-
Genetic isolation of iddm 1 on chromosome 4 in the biobreeding (BB) rat
-
Bieg S, Koike G, Jiang J, Klaff L, Pettersson A, MacMurray AJ, Jacob HJ, Lander ES, and Lernmark A. Genetic isolation of iddm 1 on chromosome 4 in the biobreeding (BB) rat. Mamm Genome 9: 324-326, 1998.
-
(1998)
Mamm Genome
, vol.9
, pp. 324-326
-
-
Bieg, S.1
Koike, G.2
Jiang, J.3
Klaff, L.4
Pettersson, A.5
MacMurray, A.J.6
Jacob, H.J.7
Lander, E.S.8
Lernmark, A.9
-
5
-
-
0036187914
-
DRAGON View: Information visualization for annotated microarray data
-
Bouton CM and Pevsner J. DRAGON View: information visualization for annotated microarray data. Bioinformatics 18: 323-324, 2002.
-
(2002)
Bioinformatics
, vol.18
, pp. 323-324
-
-
Bouton, C.M.1
Pevsner, J.2
-
6
-
-
0034525814
-
DRAGON: Database Referencing of Array Genes Online
-
Bouton CM and Pevsner J. DRAGON: Database Referencing of Array Genes Online. Bioinformatics 16: 1038-1039, 2000.
-
(2000)
Bioinformatics
, vol.16
, pp. 1038-1039
-
-
Bouton, C.M.1
Pevsner, J.2
-
7
-
-
0034638834
-
Expression profiling in the muscular dystrophies: Identification of novel aspects of molecular pathophysiology
-
Chen YW, Zhao P, Borup R, and Hoffman EP. Expression profiling in the muscular dystrophies: identification of novel aspects of molecular pathophysiology. J Cell Biol 151: 1321-1336, 2000.
-
(2000)
J Cell Biol
, vol.151
, pp. 1321-1336
-
-
Chen, Y.W.1
Zhao, P.2
Borup, R.3
Hoffman, E.P.4
-
8
-
-
3042855581
-
Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression
-
Chou CC, Chen CH, Lee TT, and Peck K. Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression. Nucleic Acids Res 32: e99, 2004.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Chou, C.C.1
Chen, C.H.2
Lee, T.T.3
Peck, K.4
-
9
-
-
0035315846
-
Manufacturing DNA microarrays of high spot homogeneity and reduced background signal
-
Diehl F, Grahlmann S, Beier M, and Hoheisel J. Manufacturing DNA microarrays of high spot homogeneity and reduced background signal. Nucleic Acids Res 29: e38, 2001.
-
(2001)
Nucleic Acids Res
, vol.29
-
-
Diehl, F.1
Grahlmann, S.2
Beier, M.3
Hoheisel, J.4
-
10
-
-
0042121055
-
Onto-Tools, the toolkit of the modern biologist: Onto-Express, Onto-Compare, Onto-Design and Onto-Translate
-
Draghici S, Khatri P, Bhavsar P, Shah A, Krawetz SA, and Tainsky MA. Onto-Tools, the toolkit of the modern biologist: Onto-Express, Onto-Compare, Onto-Design and Onto-Translate. Nucleic Acids Res 31: 3775-3781, 2003.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3775-3781
-
-
Draghici, S.1
Khatri, P.2
Bhavsar, P.3
Shah, A.4
Krawetz, S.A.5
Tainsky, M.A.6
-
11
-
-
0033031437
-
DNA arrays for analysis of gene expression
-
Eisen M and Brown P. DNA arrays for analysis of gene expression. Methods Enzymol 303: 179-205, 1999.
-
(1999)
Methods Enzymol
, vol.303
, pp. 179-205
-
-
Eisen, M.1
Brown, P.2
-
12
-
-
0027909781
-
Multiplexed biochemical assays with biological chips
-
Fodor SP, Rava RP, Huang XC, Pease AC, Holmes CP, and Adams CL. Multiplexed biochemical assays with biological chips. Nature 364: 555-556, 1993.
-
(1993)
Nature
, vol.364
, pp. 555-556
-
-
Fodor, S.P.1
Rava, R.P.2
Huang, X.C.3
Pease, A.C.4
Holmes, C.P.5
Adams, C.L.6
-
13
-
-
0026108692
-
Light-directed, spatially addressable parallel chemical synthesis
-
Fodor SP, Read JL, Pirrung MC, Stryer L, Lu AT, and Solas D. Light-directed, spatially addressable parallel chemical synthesis. Science 251: 767-773, 1991.
-
(1991)
Science
, vol.251
, pp. 767-773
-
-
Fodor, S.P.1
Read, J.L.2
Pirrung, M.C.3
Stryer, L.4
Lu, A.T.5
Solas, D.6
-
14
-
-
0032894224
-
Quantitative RT-PCR: Pitfalls and potential
-
Freeman WM, Walker SJ, and Vrana KE. Quantitative RT-PCR: pitfalls and potential. Biotechniques 26: 112-122, 124-115, 1999.
-
(1999)
Biotechniques
, vol.26
, pp. 112-122
-
-
Freeman, W.M.1
Walker, S.J.2
Vrana, K.E.3
-
15
-
-
0035863927
-
Assessment of clone identity and sequence fidelity for 1189 IMAGE cDNA clones
-
Halgren RG, Fielden MR, Fong CJ, and Zacharewski TR. Assessment of clone identity and sequence fidelity for 1189 IMAGE cDNA clones. Nucleic Acids Res 29: 582-588, 2001.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 582-588
-
-
Halgren, R.G.1
Fielden, M.R.2
Fong, C.J.3
Zacharewski, T.R.4
-
16
-
-
0029957181
-
Real time quantitative PCR
-
Heid CA, Stevens J, Livak KJ, and Williams PM. Real time quantitative PCR. Genome Res 6: 986-994, 1996.
-
(1996)
Genome Res
, vol.6
, pp. 986-994
-
-
Heid, C.A.1
Stevens, J.2
Livak, K.J.3
Williams, P.M.4
-
17
-
-
0030992159
-
Discovery and analysis of inflammatory disease-related genes using cDNA microarrays
-
Heller R, Schena M, Chai A, Shalon D, Bedilion T, Gilmore J, Woolley D, and Davis R. Discovery and analysis of inflammatory disease-related genes using cDNA microarrays. Proc Natl Acad Sci USA 94: 2150-2155, 1997.
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 2150-2155
-
-
Heller, R.1
Schena, M.2
Chai, A.3
Shalon, D.4
Bedilion, T.5
Gilmore, J.6
Woolley, D.7
Davis, R.8
-
18
-
-
9144261230
-
Immobilized probe and glass surface chemistry as variables in microarray fabrication
-
Hessner MJ, Meyer L, Tackes J, Muheisen S, and Wang X. Immobilized probe and glass surface chemistry as variables in microarray fabrication. BMC Genomics 5: 53, 2004.
-
(2004)
BMC Genomics
, vol.5
, pp. 53
-
-
Hessner, M.J.1
Meyer, L.2
Tackes, J.3
Muheisen, S.4
Wang, X.5
-
19
-
-
2442669076
-
Utilization of a labeled tracking oligonucleotide for visualization and quality control of spotted 70-mer arrays
-
Hessner MJ, Singh VK, Wang X, Khan S, Tschannen MR, and Zahrt TC. Utilization of a labeled tracking oligonucleotide for visualization and quality control of spotted 70-mer arrays. BMC Genomics 5: 12, 2004.
-
(2004)
BMC Genomics
, vol.5
, pp. 12
-
-
Hessner, M.J.1
Singh, V.K.2
Wang, X.3
Khan, S.4
Tschannen, M.R.5
Zahrt, T.C.6
-
20
-
-
18144448930
-
Three color cDNA microarrays: Quantitative assessment through the use of fluorescein-labeled probes
-
Hessner MJ, Wang X, Hulse K, Meyer L, Wu Y, Nye S, Guo SW, and Ghosh S. Three color cDNA microarrays: quantitative assessment through the use of fluorescein-labeled probes. Nucleic Acids Res 31: e14, 2003.
-
(2003)
Nucleic Acids Res
, vol.31
-
-
Hessner, M.J.1
Wang, X.2
Hulse, K.3
Meyer, L.4
Wu, Y.5
Nye, S.6
Guo, S.W.7
Ghosh, S.8
-
21
-
-
0038268051
-
Use of a three-color cDNA microarray platform to measure and control support-bound probe for improved data quality and reproducibility
-
Hessner MJ, Wang X, Khan S, Meyer L, Schlicht M, Tackes J, Datta MW, Jacob HJ, and Ghosh S. Use of a three-color cDNA microarray platform to measure and control support-bound probe for improved data quality and reproducibility. Nucleic Acids Res 31: e60, 2003.
-
(2003)
Nucleic Acids Res
, vol.31
-
-
Hessner, M.J.1
Wang, X.2
Khan, S.3
Meyer, L.4
Schlicht, M.5
Tackes, J.6
Datta, M.W.7
Jacob, H.J.8
Ghosh, S.9
-
22
-
-
9144238154
-
Involvement of eotaxin, eosinophils, and pancreatic predisposition in development of type 1 diabetes mellitus in the BioBreeding rat
-
Hessner MJ, Wang X, Meyer L, Geoffrey R, Jia S, Fuller J, Lernmark A, and Ghosh S. Involvement of eotaxin, eosinophils, and pancreatic predisposition in development of type 1 diabetes mellitus in the BioBreeding rat. J Immunol 173: 6993-7002, 2004.
-
(2004)
J Immunol
, vol.173
, pp. 6993-7002
-
-
Hessner, M.J.1
Wang, X.2
Meyer, L.3
Geoffrey, R.4
Jia, S.5
Fuller, J.6
Lernmark, A.7
Ghosh, S.8
-
23
-
-
0035072249
-
Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer
-
Hughes TR, Mao M, Jones AR, Burchard J, Marton MJ, Shannon KW, Lefkowitz SM, Ziman M, Schelter JM, Meyer MR, Kobayashi S, Davis C, Dai H, He YD, Stephaniants SB, Cavet G, Walker WL, West A, Coffey E, Shoemaker DD, Stoughton R, Blanchard AP, Friend SH, and Linsley PS. Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Nat Biotechnol 19: 342-347, 2001.
-
(2001)
Nat Biotechnol
, vol.19
, pp. 342-347
-
-
Hughes, T.R.1
Mao, M.2
Jones, A.R.3
Burchard, J.4
Marton, M.J.5
Shannon, K.W.6
Lefkowitz, S.M.7
Ziman, M.8
Schelter, J.M.9
Meyer, M.R.10
Kobayashi, S.11
Davis, C.12
Dai, H.13
He, Y.D.14
Stephaniants, S.B.15
Cavet, G.16
Walker, W.L.17
West, A.18
Coffey, E.19
Shoemaker, D.D.20
Stoughton, R.21
Blanchard, A.P.22
Friend, S.H.23
Linsley, P.S.24
more..
-
24
-
-
18244384210
-
Multiple-laboratory comparison of microarray platforms
-
Irizarry RA, Warren D, Spencer F, Kim IF, Biswal S, Frank BC, Gabrielson E, Garcia JG, Geoghegan J, Germino G, Griffin C, Hilmer SC, Hoffman E, Jedlicka AE, Kawasaki E, Martinez-Murillo F, Morsberger L, Lee H, Petersen D, Quackenbush J, Scott A, Wilson M, Yang Y, Ye SQ, and Yu W. Multiple-laboratory comparison of microarray platforms. Nat Methods 2: 345-350, 2005.
-
(2005)
Nat Methods
, vol.2
, pp. 345-350
-
-
Irizarry, R.A.1
Warren, D.2
Spencer, F.3
Kim, I.F.4
Biswal, S.5
Frank, B.C.6
Gabrielson, E.7
Garcia, J.G.8
Geoghegan, J.9
Germino, G.10
Griffin, C.11
Hilmer, S.C.12
Hoffman, E.13
Jedlicka, A.E.14
Kawasaki, E.15
Martinez-Murillo, F.16
Morsberger, L.17
Lee, H.18
Petersen, D.19
Quackenbush, J.20
Scott, A.21
Wilson, M.22
Yang, Y.23
Ye, S.Q.24
Yu, W.25
more..
-
25
-
-
0026922594
-
Genetic dissection of autoimmune type I diabetes in the BB rat
-
Jacob HJ, Pettersson A, Wilson D, Mao Y, Lernmark A, and Lander ES. Genetic dissection of autoimmune type I diabetes in the BB rat. Nat Genet 2: 56-60, 1992.
-
(1992)
Nat Genet
, vol.2
, pp. 56-60
-
-
Jacob, H.J.1
Pettersson, A.2
Wilson, D.3
Mao, Y.4
Lernmark, A.5
Lander, E.S.6
-
26
-
-
2642561079
-
Are data from different gene expression microarray platforms comparable?
-
Järvinen AK, Hautaniemi S, Edgren H, Auvinen P, Saarela J, Kallioniemi OP, and Monni O. Are data from different gene expression microarray platforms comparable? Genomics 83: 1164-1168, 2004.
-
(2004)
Genomics
, vol.83
, pp. 1164-1168
-
-
Järvinen, A.K.1
Hautaniemi, S.2
Edgren, H.3
Auvinen, P.4
Saarela, J.5
Kallioniemi, O.P.6
Monni, O.7
-
27
-
-
0034669668
-
Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays
-
Kane MD, Jatkoe TA, Stumpf CR, Lu J, Thomas JD, and Madore SJ. Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays. Nucleic Acids Res 28: 4552-4557, 2000.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 4552-4557
-
-
Kane, M.D.1
Jatkoe, T.A.2
Stumpf, C.R.3
Lu, J.4
Thomas, J.D.5
Madore, S.J.6
-
28
-
-
3242887152
-
Onto-Tools: An ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments
-
Khatri P, Bhavsar P, Bawa G, and Draghici S. Onto-Tools: an ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments. Nucleic Acids Res 32: W449-W456, 2004.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Khatri, P.1
Bhavsar, P.2
Bawa, G.3
Draghici, S.4
-
29
-
-
0035704901
-
Profiling gene expression using onto-express
-
Khatri P, Draghici S, Ostermeier GC, and Krawetz SA. Profiling gene expression using onto-express. Genomics 79: 266-270, 2002.
-
(2002)
Genomics
, vol.79
, pp. 266-270
-
-
Khatri, P.1
Draghici, S.2
Ostermeier, G.C.3
Krawetz, S.A.4
-
30
-
-
0002922661
-
Microarray results: How accurate are they?
-
Kothapalli R, Yoder SJ, Mane S, and Loughran TP Jr. Microarray results: how accurate are they? BMC Bioinformatics 3: 22, 2002.
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 22
-
-
Kothapalli, R.1
Yoder, S.J.2
Mane, S.3
Loughran Jr., T.P.4
-
31
-
-
0036211063
-
Analysis of matched mRNA measurements from two different microarray technologies
-
Kuo WP, Jenssen TK, Butte AJ, Ohno-Machado L, and Kohane IS. Analysis of matched mRNA measurements from two different microarray technologies. Bioinformatics 18: 405-412, 2002.
-
(2002)
Bioinformatics
, vol.18
, pp. 405-412
-
-
Kuo, W.P.1
Jenssen, T.K.2
Butte, A.J.3
Ohno-Machado, L.4
Kohane, I.S.5
-
32
-
-
0035184932
-
Automated construction of high-density comparative maps between rat, human, and mouse
-
Kwitek AE, Tonellato PJ, Chen D, Gullings-Handley J, Cheng YS, Twigger S, Scheetz TE, Casavant TL, Stoll M, Nobrega MA, Shiozawa M, Soares MB, Sheffield VC, and Jacob HJ. Automated construction of high-density comparative maps between rat, human, and mouse. Genome Res 11: 1935-1943, 2001.
-
(2001)
Genome Res
, vol.11
, pp. 1935-1943
-
-
Kwitek, A.E.1
Tonellato, P.J.2
Chen, D.3
Gullings-Handley, J.4
Cheng, Y.S.5
Twigger, S.6
Scheetz, T.E.7
Casavant, T.L.8
Stoll, M.9
Nobrega, M.A.10
Shiozawa, M.11
Soares, M.B.12
Sheffield, V.C.13
Jacob, H.J.14
-
33
-
-
18244378238
-
Independence and reproducibility across microarray platforms
-
Larkin JE, Frank BC, Gavras H, Sultana R, and Quackenbush J. Independence and reproducibility across microarray platforms. Nat Methods 2: 337-344, 2005.
-
(2005)
Nat Methods
, vol.2
, pp. 337-344
-
-
Larkin, J.E.1
Frank, B.C.2
Gavras, H.3
Sultana, R.4
Quackenbush, J.5
-
34
-
-
84984933234
-
High density synthetic oligonucleotide arrays
-
Lipshutz RJ, Fodor SP, Gingeras TR, and Lockhart DJ. High density synthetic oligonucleotide arrays. Nat Genet 21: 20-24, 1999.
-
(1999)
Nat Genet
, vol.21
, pp. 20-24
-
-
Lipshutz, R.J.1
Fodor, S.P.2
Gingeras, T.R.3
Lockhart, D.J.4
-
35
-
-
0028834086
-
Oligonucleotides with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization
-
Livak KJ, Flood SJ, Marmaro J, Giusti W, and Deetz K. Oligonucleotides with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization. PCR Methods Appl 4: 357-362, 1995.
-
(1995)
PCR Methods Appl
, vol.4
, pp. 357-362
-
-
Livak, K.J.1
Flood, S.J.2
Marmaro, J.3
Giusti, W.4
Deetz, K.5
-
36
-
-
12144286757
-
A comparison of oligonucleotide and cDNA-based microarray systems
-
Mah N, Thelin A, Lu T, Nikolaus S, Kuhbacher T, Gurbuz Y, Eickhoff H, Kloppel G, Lehrach H, Mellgard B, Costello CM, and Schreiber S. A comparison of oligonucleotide and cDNA-based microarray systems. Physiol Genomics 16: 361-370, 2004.
-
(2004)
Physiol Genomics
, vol.16
, pp. 361-370
-
-
Mah, N.1
Thelin, A.2
Lu, T.3
Nikolaus, S.4
Kuhbacher, T.5
Gurbuz, Y.6
Eickhoff, H.7
Kloppel, G.8
Lehrach, H.9
Mellgard, B.10
Costello, C.M.11
Schreiber, S.12
-
37
-
-
4844222268
-
Increased measurement accuracy for sequence-verified microarray probes
-
Mecham BH, Wetmore DZ, Szallasi Z, Sadovsky Y, Kohane I, and Mariani TJ. Increased measurement accuracy for sequence-verified microarray probes. Physiol Genomics 18: 308-315, 2004.
-
(2004)
Physiol Genomics
, vol.18
, pp. 308-315
-
-
Mecham, B.H.1
Wetmore, D.Z.2
Szallasi, Z.3
Sadovsky, Y.4
Kohane, I.5
Mariani, T.J.6
-
38
-
-
4143151607
-
Current issues for DNA microarrays: Platform comparison, double linear amplification, and universal RNA reference
-
Park PJ, Cao YA, Lee SY, Kim JW, Chang MS, Hart R, and Choi S. Current issues for DNA microarrays: platform comparison, double linear amplification, and universal RNA reference. J Biotechnol 112: 225-245, 2004.
-
(2004)
J Biotechnol
, vol.112
, pp. 225-245
-
-
Park, P.J.1
Cao, Y.A.2
Lee, S.Y.3
Kim, J.W.4
Chang, M.S.5
Hart, R.6
Choi, S.7
-
39
-
-
17344392308
-
A new mathematical model for relative quantification in real-time RT-PCR
-
Pfaffl MW. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 29: e45, 2001.
-
(2001)
Nucleic Acids Res
, vol.29
-
-
Pfaffl, M.W.1
-
40
-
-
0035818559
-
Project normal: Defining normal variance in mouse gene expression
-
Pritchard CC, Hsu L, Delrow J, and Nelson PS. Project normal: defining normal variance in mouse gene expression. Proc Natl Acad Sci USA 98: 13266-13271, 2001.
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 13266-13271
-
-
Pritchard, C.C.1
Hsu, L.2
Delrow, J.3
Nelson, P.S.4
-
41
-
-
0035714069
-
Use of real-time quantitative PCR to validate the results of cDNA array and differential display PCR technologies
-
Rajeevan MS, Ranamukhaarachchi DG, Vernon SD, and Unger ER. Use of real-time quantitative PCR to validate the results of cDNA array and differential display PCR technologies. Methods 25: 443- 451, 2001.
-
(2001)
Methods
, vol.25
, pp. 443-451
-
-
Rajeevan, M.S.1
Ranamukhaarachchi, D.G.2
Vernon, S.D.3
Unger, E.R.4
-
42
-
-
0035057561
-
Validation of array-based gene expression profiles by real-time (kinetic) RT-PCR
-
Rajeevan MS, Vernon SD, Taysavang N, and Unger ER. Validation of array-based gene expression profiles by real-time (kinetic) RT-PCR. J Mol Diagn 3: 26-31, 2001.
-
(2001)
J Mol Diagn
, vol.3
, pp. 26-31
-
-
Rajeevan, M.S.1
Vernon, S.D.2
Taysavang, N.3
Unger, E.R.4
-
43
-
-
0346670079
-
Comparing the use of Affymetrix to spotted oligonucleotide microarrays using two retinal pigment epithelium cell lines
-
Rogojina AT, Orr WE, Song BK, and Geisert EE Jr. Comparing the use of Affymetrix to spotted oligonucleotide microarrays using two retinal pigment epithelium cell lines. Mol Vis 9: 482-496, 2003.
-
(2003)
Mol Vis
, vol.9
, pp. 482-496
-
-
Rogojina, A.T.1
Orr, W.E.2
Song, B.K.3
Geisert Jr., E.E.4
-
44
-
-
0034050902
-
Systematic variation in gene expression patterns in human cancer cell lines
-
Ross DT, Scherf U, Eisen MB, Perou CM, Rees C, Spellman P, Iyer V, Jeffrey SS, Van de Rijn M, Waltham M, Pergamenschikov A, Lee JC, Lashkari D, Shalon D, Myers TG, Weinstein JN, Botstein D, and Brown PO. Systematic variation in gene expression patterns in human cancer cell lines. Nat Genet 24: 227-235, 2000.
-
(2000)
Nat Genet
, vol.24
, pp. 227-235
-
-
Ross, D.T.1
Scherf, U.2
Eisen, M.B.3
Perou, C.M.4
Rees, C.5
Spellman, P.6
Iyer, V.7
Jeffrey, S.S.8
Van De Rijn, M.9
Waltham, M.10
Pergamenschikov, A.11
Lee, J.C.12
Lashkari, D.13
Shalon, D.14
Myers, T.G.15
Weinstein, J.N.16
Botstein, D.17
Brown, P.O.18
-
46
-
-
0028806048
-
Quantitative monitoring of gene expression patterns with complementary DNA microarray
-
Schena M, Shalon D, Davis R, and Brown P. Quantitative monitoring of gene expression patterns with complementary DNA microarray. Science 270: 467-470, 1995.
-
(1995)
Science
, vol.270
, pp. 467-470
-
-
Schena, M.1
Shalon, D.2
Davis, R.3
Brown, P.4
-
47
-
-
18244387702
-
Of fish and chips
-
Sherlock G. Of fish and chips. Nat Methods 2: 329-330, 2005.
-
(2005)
Nat Methods
, vol.2
, pp. 329-330
-
-
Sherlock, G.1
-
48
-
-
9144256854
-
Performance evaluation of commercial short-oligonucleotide microarrays and the impact of noise in making cross-platform correlations
-
Shippy R, Sendera TJ, Lockner R, Palaniappan C, Kaysser-Kranich T, Watts G, and Alsobrook J. Performance evaluation of commercial short-oligonucleotide microarrays and the impact of noise in making cross-platform correlations. BMC Genomics 5: 61, 2004.
-
(2004)
BMC Genomics
, vol.5
, pp. 61
-
-
Shippy, R.1
Sendera, T.J.2
Lockner, R.3
Palaniappan, C.4
Kaysser-Kranich, T.5
Watts, G.6
Alsobrook, J.7
-
50
-
-
0141905890
-
Evaluation of gene expression measurements from commercial microarray platforms
-
Tan PK, Downey TJ, Spitznagel EL Jr, Xu P, Fu D, Dimitrov DS, Lempicki RA, Raaka BM, and Cam MC. Evaluation of gene expression measurements from commercial microarray platforms. Nucleic Acids Res 31: 5676-5684, 2003.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 5676-5684
-
-
Tan, P.K.1
Downey, T.J.2
Spitznagel Jr., E.L.3
Xu, P.4
Fu, D.5
Dimitrov, D.S.6
Lempicki, R.A.7
Raaka, B.M.8
Cam, M.C.9
-
51
-
-
0034947878
-
Sequence verification as quality-control step for production of cDNA microarrays
-
Taylor E, Cogdell D, Coombes K, Hu L, Ramdas L, Tabor A, Hamilton S, and Zhang W. Sequence verification as quality-control step for production of cDNA microarrays. Biotechniques 31: 62-65, 2001.
-
(2001)
Biotechniques
, vol.31
, pp. 62-65
-
-
Taylor, E.1
Cogdell, D.2
Coombes, K.3
Hu, L.4
Ramdas, L.5
Tabor, A.6
Hamilton, S.7
Zhang, W.8
-
52
-
-
0034848059
-
Characterization of adjacent breast tumors using oligonucleotide microarrays
-
Unger MA, Rishi M, Clemmer VB, Hartman JL, Keiper EA, Greshock JD, Chodosh LA, Liebman MN, and Weber BL. Characterization of adjacent breast tumors using oligonucleotide microarrays. Breast Cancer Res 3: 336-341, 2001.
-
(2001)
Breast Cancer Res
, vol.3
, pp. 336-341
-
-
Unger, M.A.1
Rishi, M.2
Clemmer, V.B.3
Hartman, J.L.4
Keiper, E.A.5
Greshock, J.D.6
Chodosh, L.A.7
Liebman, M.N.8
Weber, B.L.9
-
53
-
-
0035433128
-
Quantitative quality control in microarray image processing and data acquisition
-
Wang X, Ghosh S, and Guo SW. Quantitative quality control in microarray image processing and data acquisition. Nucleic Acids Res 29: E75-E82, 2001.
-
(2001)
Nucleic Acids Res
, vol.29
-
-
Wang, X.1
Ghosh, S.2
Guo, S.W.3
-
54
-
-
33645759817
-
Quantitative quality control of microarray experiments: Toward accurate gene expression measurements
-
edited by Hofmann W-K. Cambridge, UK: Cambridge Univ. Press. In press
-
Wang X and Hessner MJ. Quantitative quality control of microarray experiments: toward accurate gene expression measurements. In: Gene Expression Profiling by Microarrays: Clinical Implications, edited by Hofmann W-K. Cambridge, UK: Cambridge Univ. Press. In press.
-
Gene Expression Profiling by Microarrays: Clinical Implications
-
-
Wang, X.1
Hessner, M.J.2
-
55
-
-
0041592552
-
Quantitative quality control in microarray experiments and the application in data filtering, normalization and false positive rate prediction
-
Wang X, Hessner MJ, Wu Y, Pati N, and Ghosh S. Quantitative quality control in microarray experiments and the application in data filtering, normalization and false positive rate prediction. Bioinformatics 19: 1341-1347, 2003.
-
(2003)
Bioinformatics
, vol.19
, pp. 1341-1347
-
-
Wang, X.1
Hessner, M.J.2
Wu, Y.3
Pati, N.4
Ghosh, S.5
-
56
-
-
2442672221
-
A novel approach for high-quality microarray processing using third-dye array visualization technology
-
Wang X, Jiang N, Feng X, Xie Y, Tonellato P, Ghosh S, and Hessner MJ. A novel approach for high-quality microarray processing using third-dye array visualization technology. IEEE Trans Nanobioscience 2: 193-201, 2003.
-
(2003)
IEEE Trans Nanobioscience
, vol.2
, pp. 193-201
-
-
Wang, X.1
Jiang, N.2
Feng, X.3
Xie, Y.4
Tonellato, P.5
Ghosh, S.6
Hessner, M.J.7
-
57
-
-
0032402904
-
Technology for microarray analysis of gene expression
-
Watson A, Mazumder A, Stewart M, and Balasubramanian S. Technology for microarray analysis of gene expression. Curr Opin Biotechnol 9: 609-614, 1998.
-
(1998)
Curr Opin Biotechnol
, vol.9
, pp. 609-614
-
-
Watson, A.1
Mazumder, A.2
Stewart, M.3
Balasubramanian, S.4
-
58
-
-
17844379157
-
A comparison of cDNA, oligonucleotide, and Affymetrix GeneChip gene expression microarray platforms
-
Woo Y, Affourtit J, Daigle S, Viale A, Johnson K, Naggert J, and Churchill G. A comparison of cDNA, oligonucleotide, and Affymetrix GeneChip gene expression microarray platforms. J Biomol Tech 15: 276-284, 2004.
-
(2004)
J Biomol Tech
, vol.15
, pp. 276-284
-
-
Woo, Y.1
Affourtit, J.2
Daigle, S.3
Viale, A.4
Johnson, K.5
Naggert, J.6
Churchill, G.7
-
60
-
-
0035872073
-
An evaluation of the performance of cDNA microarrays for detecting changes in global mRNA expression
-
Yue H, Eastman PS, Wang BB, Minor J, Doctolero MH, Nuttall RL, Stack R, Becker JW, Montgomery JR, Vainer M, and Johnston R. An evaluation of the performance of cDNA microarrays for detecting changes in global mRNA expression. Nucleic Acids Res 29: E41, 2001.
-
(2001)
Nucleic Acids Res
, vol.29
-
-
Yue, H.1
Eastman, P.S.2
Wang, B.B.3
Minor, J.4
Doctolero, M.H.5
Nuttall, R.L.6
Stack, R.7
Becker, J.W.8
Montgomery, J.R.9
Vainer, M.10
Johnston, R.11
-
61
-
-
0037095769
-
Accuracy and calibration of commercial oligonucleotide and custom cDNA microarrays
-
Yuen T, Wurmbach E, Pfeffer RL, Ebersole BJ, and Sealfon SC. Accuracy and calibration of commercial oligonucleotide and custom cDNA microarrays. Nucleic Acids Res 30: e48, 2002.
-
(2002)
Nucleic Acids Res
, vol.30
-
-
Yuen, T.1
Wurmbach, E.2
Pfeffer, R.L.3
Ebersole, B.J.4
Sealfon, S.C.5
-
62
-
-
0004252445
-
-
Upper Saddle River, NJ: Prentice-Hall
-
Zar JH. Biostatistical Analysis. Upper Saddle River, NJ: Prentice-Hall, 1999.
-
(1999)
Biostatistical Analysis
-
-
Zar, J.H.1
|