-
1
-
-
0036947892
-
Robust estimators for expression analysis
-
10.1093/bioinformatics/18.12.1585 12490442
-
Hubbell E Liu WM Mei R Robust estimators for expression analysis Bioinformatics 2002 18 1585-1592 10.1093/bioinformatics/18.12.1585 12490442
-
(2002)
Bioinformatics
, vol.18
, pp. 1585-1592
-
-
Hubbell, E.1
Liu, W.M.2
Mei, R.3
-
2
-
-
0142121516
-
Exploration, normalization, and summaries of high density oligonucleotide array probe level data
-
10.1093/biostatistics/4.2.249 12925520
-
Irizarry R Hobbs B Collin F Beazer-Barclay Y Antonellis K Scherf U Speed TP Exploration, normalization, and summaries of high density oligonucleotide array probe level data Biostatistics 2003 4 249-264 10.1093/biostatistics/4.2.249 12925520
-
(2003)
Biostatistics
, vol.4
, pp. 249-264
-
-
Irizarry, R.1
Hobbs, B.2
Collin, F.3
Beazer-Barclay, Y.4
Antonellis, K.5
Scherf, U.6
Speed, T.P.7
-
4
-
-
2442532353
-
A benchmark for Affymetrix GeneChip expression measures
-
10.1142/S0219720003000174
-
Cope L Irizarry R Jafee HW Z. Speed TP A benchmark for Affymetrix GeneChip expression measures Bioinformatics 2003 1 1 1-13 10.1142/ S0219720003000174
-
(2003)
Bioinformatics
, vol.1
, Issue.1
, pp. 1-13
-
-
Cope, L.1
Irizarry, R.2
Jafee, Z.H.W.3
Speed, T.P.4
-
5
-
-
22144461265
-
Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset
-
551536 15693945 10.1186/gb-2005-6-2-r16
-
Choe SE Boutros M Michelson AM Church GM Halfon MS Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset Genome Biol 2005 6 2 R16 551536 15693945 10.1186/gb-2005-6-2-r16
-
(2005)
Genome Biol
, vol.6
, Issue.2
-
-
Choe, S.E.1
Boutros, M.2
Michelson, A.M.3
Church, G.M.4
Halfon, M.S.5
-
6
-
-
33745023798
-
A reanalysis of a published Affymetrix GeneChip control dataset
-
1557755 16563185 10.1186/gb-2006-7-3-401
-
Dabney AR Storey JD A reanalysis of a published Affymetrix GeneChip control dataset Genome Biol 2006 7 3 401 1557755 16563185 10.1186/ gb-2006-7-3-401
-
(2006)
Genome Biol
, vol.7
, Issue.3
, pp. 401
-
-
Dabney, A.R.1
Storey, J.D.2
-
7
-
-
23844551199
-
Stochastic models inspired by hybridization theory for short oligonucleotide arrays
-
10.1089/cmb.2005.12.882 16108723
-
Wu Z Irizarry RA Stochastic models inspired by hybridization theory for short oligonucleotide arrays J Comput Biol 2005 12 6 882-893 10.1089/ cmb.2005.12.882 16108723
-
(2005)
J Comput Biol
, vol.12
, Issue.6
, pp. 882-893
-
-
Wu, Z.1
Irizarry, R.A.2
-
8
-
-
2442601878
-
A model based background adjustment for Oligonucleotide expression arrays
-
John Hopkins University Dept of Biostatistics Working Papers
-
Wu Z Irizarry R Gentleman R Murillo FM Spencer F A model based background adjustment for Oligonucleotide expression arrays John Hopkins University Dept of Biostatistics Working Papers 2004
-
(2004)
-
-
Wu, Z.1
Irizarry, R.2
Gentleman, R.3
Murillo, F.M.4
Spencer, F.5
-
9
-
-
12244313858
-
Analysis of high density expression microarrays with signed-rank call algorithms
-
10.1093/bioinformatics/18.12.1593 12490443
-
Liu WM Mei R Di X Ryder TB Hubbell E Dee S Webster TA Harrington CA Ho MH Baid J Smeekens SP Analysis of high density expression microarrays with signed-rank call algorithms Bioinformatics 2002 18 12 1593-1599 10.1093/bioinformatics/18.12.1593 12490443
-
(2002)
Bioinformatics
, vol.18
, Issue.12
, pp. 1593-1599
-
-
Liu, W.M.1
Mei, R.2
Di, X.3
Ryder, T.B.4
Hubbell, E.5
Dee, S.6
Webster, T.A.7
Harrington, C.A.8
Ho, M.H.9
Baid, J.10
Smeekens, S.P.11
-
10
-
-
9144256854
-
Performance evaluation of commercial short-oligonucleotide microarrays and the impact of noise in making cross-platform correlations
-
517929 15345031 10.1186/1471-2164-5-61
-
Shippy R Sendera TJ Lockner R Palaniappan C Kaysser-Kranich T Watts G Alsobrook J Performance evaluation of commercial short-oligonucleotide microarrays and the impact of noise in making cross-platform correlations BMC Genomics 2004 5 1 61 517929 15345031 10.1186/ 1471-2164-5-61
-
(2004)
BMC Genomics
, vol.5
, Issue.1
, 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
-
11
-
-
33748482861
-
Using RNA sample titrations to assess microarray platform performance and normalization techniques
-
10.1038/nbt1241 16964226
-
Shippy R Fulmer-Smentek S Jensen RV Jones WD Wolber PK Johnson CD Pine PS Boysen C Guo X Chudin E Sun YA Willey JC Thierry-Mieg J Thierry-Mieg D Setterquist RA Wilson M Lucas AB Novoradovskaya N Papallo A Turpaz Y Baker SC Warrington JA Shi L Herman D Using RNA sample titrations to assess microarray platform performance and normalization techniques Nat Biotechnol 2006 24 9 1123-1131 10.1038/nbt1241 16964226
-
(2006)
Nat Biotechnol
, vol.24
, Issue.9
, 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
Sun, Y.A.11
Willey, J.C.12
Thierry-Mieg, J.13
Thierry-Mieg, D.14
Setterquist, R.A.15
Wilson, M.16
Lucas, A.B.17
Novoradovskaya, N.18
Papallo, A.19
Turpaz, Y.20
Baker, S.C.21
Warrington, J.A.22
Shi, L.23
Herman, D.24
more..
-
12
-
-
84973587732
-
A coefficient of agreement for nominal scales
-
10.1177/001316446002000104
-
Cohen J A coefficient of agreement for nominal scales Educational and psychological measurement 1960 20 37-46 10.1177/001316446002000104
-
(1960)
Educational and Psychological Measurement
, vol.20
, pp. 37-46
-
-
Cohen, J.1
-
13
-
-
0024521543
-
A concordance correlation coefficient to evaluate reproducibility
-
10.2307/2532051 2720055
-
Lin LI A concordance correlation coefficient to evaluate reproducibility Biometrics 1989 45 1 255-268 10.2307/2532051 2720055
-
(1989)
Biometrics
, vol.45
, Issue.1
, pp. 255-268
-
-
Lin, L.I.1
-
14
-
-
9444265265
-
Obtaining reliable information from minute amounts of RNA using cDNA microarrays
-
117130 12086591 10.1186/1471-2164-3-16
-
Hu L Wang J Baggerly K Wang H Fuller GN Hamilton SR Coombes KR Zhang W Obtaining reliable information from minute amounts of RNA using cDNA microarrays BMC Genomics 2002 3 1 16 117130 12086591 10.1186/ 1471-2164-3-16
-
(2002)
BMC Genomics
, vol.3
, Issue.1
, pp. 16
-
-
Hu, L.1
Wang, J.2
Baggerly, K.3
Wang, H.4
Fuller, G.N.5
Hamilton, S.R.6
Coombes, K.R.7
Zhang, W.8
-
15
-
-
33645326509
-
Comparison of Affymetrix GeneChip expression measures
-
10.1093/bioinformatics/btk046 16410320
-
Irizarry RA Wu Z Jaffee HA Comparison of Affymetrix GeneChip expression measures Bioinformatics 2006 22 7 789-794 10.1093/bioinformatics/btk046 16410320
-
(2006)
Bioinformatics
, vol.22
, Issue.7
, pp. 789-794
-
-
Irizarry, R.A.1
Wu, Z.2
Jaffee, H.A.3
-
16
-
-
84874648887
-
-
Affymetrix
-
Affymetrix Expression Analysis Technical Manual http://www.affymetrix.com/support/technical/manual/ expression_manual.affx
-
Expression Analysis Technical Manual
-
-
-
17
-
-
2942613694
-
The human L-threonine 3-dehydrogenase gene is an expressed pseudogene
-
12361482 10.1186/1471-2156-3-18
-
Edgar AJ The human L-threonine 3-dehydrogenase gene is an expressed pseudogene BMC Genet 2002 3 18 131051 12361482 10.1186/1471-2156-3-18
-
(2002)
BMC Genet
, vol.3
, pp. 18
-
-
Edgar, A.J.1
-
18
-
-
4344578831
-
Prostaglandin E2 activates Src signaling in lung adenocarcinoma cell via EP3
-
10.1016/j.canlet.2004.04.013 15331179
-
Yamaki T Endoh K Miyahara M Nagamine I Thi Thu Huong N Sakurai H Pokorny J Yano T Prostaglandin E2 activates Src signaling in lung adenocarcinoma cell via EP3 Cancer Lett 2004 214 1 115-120 10.1016/j.canlet.2004.04.013 15331179
-
(2004)
Cancer Lett
, vol.214
, Issue.1
, pp. 115-120
-
-
Yamaki, T.1
Endoh, K.2
Miyahara, M.3
Nagamine, I.4
Thi Thu Huong, N.5
Sakurai, H.6
Pokorny, J.7
Yano, T.8
-
19
-
-
0037454960
-
Host prostaglandin E(2)-EP3 signaling regulates tumor-associated angiogenesis and tumor growth
-
10.1084/jem.20021408 12538661
-
Amano H Hayashi I Endo H Kitasato H Yamashina S Maruyama T Kobayashi M Satoh K Narita M Sugimoto Y Murata T Yoshimura H Narumiya S Majima M Host prostaglandin E(2)-EP3 signaling regulates tumor-associated angiogenesis and tumor growth J Exp Med 2003 197 2 221-232 10.1084/ jem.20021408 12538661
-
(2003)
J Exp Med
, vol.197
, Issue.2
, pp. 221-232
-
-
Amano, H.1
Hayashi, I.2
Endo, H.3
Kitasato, H.4
Yamashina, S.5
Maruyama, T.6
Kobayashi, M.7
Satoh, K.8
Narita, M.9
Sugimoto, Y.10
Murata, T.11
Yoshimura, H.12
Narumiya, S.13
Majima, M.14
-
20
-
-
0034658682
-
Transcription mapping of the 5q- syndrome critical region: Cloning of two novel genes and sequencing, expression, and mapping of a further six novel cDNAs
-
10.1006/geno.2000.6193 10843801
-
Boultwood J Fidler C Strickson AJ Watkins F Kostrzewa M Jaju RJ Muller U Wainscoat JS Transcription mapping of the 5q- syndrome critical region: cloning of two novel genes and sequencing, expression, and mapping of a further six novel cDNAs Genomics 2000 66 1 26-34 10.1006/geno.2000.6193 10843801
-
(2000)
Genomics
, vol.66
, Issue.1
, pp. 26-34
-
-
Boultwood, J.1
Fidler, C.2
Strickson, A.J.3
Watkins, F.4
Kostrzewa, M.5
Jaju, R.J.6
Muller, U.7
Wainscoat, J.S.8
-
21
-
-
19044375960
-
Expression and regulation of the transcriptional repressor ZNF43 in Ewing sarcoma cells
-
10.1080/15227950290112789 12537770
-
Gonzalez-Lamuno D Loukili N Garcia-Fuentes M Thomson TM Expression and regulation of the transcriptional repressor ZNF43 in Ewing sarcoma cells Pediatr Pathol Mol Med 2002 21 6 531-540 10.1080/15227950290112789 12537770
-
(2002)
Pediatr Pathol Mol Med
, vol.21
, Issue.6
, pp. 531-540
-
-
Gonzalez-Lamuno, D.1
Loukili, N.2
Garcia-Fuentes, M.3
Thomson, T.M.4
-
22
-
-
33646187368
-
OAZ regulates bone morphogenetic protein signaling through Smad6 activation
-
10.1074/jbc.M510004200 16373339
-
Ku M Howard S Ni W Lagna G Hata A OAZ regulates bone morphogenetic protein signaling through Smad6 activation J Biol Chem 2006 281 8 5277-5287 10.1074/jbc.M510004200 16373339
-
(2006)
J Biol Chem
, vol.281
, Issue.8
, pp. 5277-5287
-
-
Ku, M.1
Howard, S.2
Ni, W.3
Lagna, G.4
Hata, A.5
-
23
-
-
0034458515
-
Calcitonin and calcitonin receptors: Bone and beyond
-
10.1046/j.1365-2613.2000.00176.x 11298188
-
Pondel M Calcitonin and calcitonin receptors: Bone and beyond Int J Exp Pathol 2000 81 6 405-422 10.1046/j.1365-2613.2000.00176.x 11298188
-
(2000)
Int J Exp Pathol
, vol.81
, Issue.6
, pp. 405-422
-
-
Pondel, M.1
-
24
-
-
0036781431
-
Expression of WNT7A in human normal tissues and cancer, and regulation of WNT7A and WNT7B in human cancer
-
12239632
-
Kirikoshi H Katoh M Expression of WNT7A in human normal tissues and cancer, and regulation of WNT7A and WNT7B in human cancer Int J Oncol 2002 21 4 895-900 12239632
-
(2002)
Int J Oncol
, vol.21
, Issue.4
, pp. 895-900
-
-
Kirikoshi, H.1
Katoh, M.2
-
25
-
-
33645143721
-
Effects of filtering by Present call on analysis of microarray experiments
-
1409797 16448562 10.1186/1471-2105-7-49
-
McClintick JN Edenberg HJ Effects of filtering by Present call on analysis of microarray experiments BMC Bioinformatics 2006 7 49 1409797 16448562 10.1186/1471-2105-7-49
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 49
-
-
McClintick, J.N.1
Edenberg, H.J.2
-
26
-
-
33847162014
-
A methodology for global validation of microarray experiments
-
1539027 16822306 10.1186/1471-2105-7-333
-
Miron M Woody OZ Marcil A Murie C Sladek R Nadon R A methodology for global validation of microarray experiments BMC Bioinformatics 2006 7 333 1539027 16822306 10.1186/1471-2105-7-333
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 333
-
-
Miron, M.1
Woody, O.Z.2
Marcil, A.3
Murie, C.4
Sladek, R.5
Nadon, R.6
-
27
-
-
28744458859
-
Bioconductor: Open software development for computational biology and bioinformatics
-
545600 15461798 10.1186/gb-2004-5-10-r80
-
Gentleman RC Carey VJ Bates DM Bolstad B Dettling M Dudoit S Ellis B Gautier L Ge Y Gentry J Hornik K Hothorn T Huber W Iacus S Irizarry R Leisch F Li C Maechler M Rossini AJ Sawitzki G Smith C Smyth G Tierney L Yang JY Zhang J Bioconductor: Open software development for computational biology and bioinformatics Genome Biol 2004 5 10 R80 545600 15461798 10.1186/gb-2004-5-10-r80
-
(2004)
Genome Biol
, vol.5
, Issue.10
-
-
Gentleman, R.C.1
Carey, V.J.2
Bates, D.M.3
Bolstad, B.4
Dettling, M.5
Dudoit, S.6
Ellis, B.7
Gautier, L.8
Ge, Y.9
Gentry, J.10
Hornik, K.11
Hothorn, T.12
Huber, W.13
Iacus, S.14
Irizarry, R.15
Leisch, F.16
Li, C.17
Maechler, M.18
Rossini, A.J.19
Sawitzki, G.20
Smith, C.21
Smyth, G.22
Tierney, L.23
Yang, J.Y.24
Zhang, J.25
more..
-
28
-
-
1342288026
-
Affy-Analysis of Affymetrix GeneChip data at the probe level
-
10.1093/bioinformatics/btg405 14960456
-
Gautier L Cope L Bolstad BM Irizarry RA affy--analysis of Affymetrix GeneChip data at the probe level Bioinformatics 2004 20 3 307-315 10.1093/bioinformatics/btg405 14960456
-
(2004)
Bioinformatics
, vol.20
, Issue.3
, pp. 307-315
-
-
Gautier, L.1
Cope, L.2
Bolstad, B.M.3
Irizarry, R.A.4
-
29
-
-
24644512209
-
Simpleaffy: A BioConductor package for Affymetrix Quality Control and data analysis
-
10.1093/bioinformatics/bti605 16076888
-
Wilson CL Miller CJ Simpleaffy: A BioConductor package for Affymetrix Quality Control and data analysis Bioinformatics 2005 21 18 3683-3685 10.1093/bioinformatics/bti605 16076888
-
(2005)
Bioinformatics
, vol.21
, Issue.18
, pp. 3683-3685
-
-
Wilson, C.L.1
Miller, C.J.2
-
31
-
-
0035710746
-
Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method
-
10.1006/meth.2001.1262 11846609
-
Livak KJ Schmittgen TD Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method Methods 2001 25 4 402-408 10.1006/meth.2001.1262 11846609
-
(2001)
Methods
, vol.25
, Issue.4
, pp. 402-408
-
-
Livak, K.J.1
Schmittgen, T.D.2
|