-
1
-
-
0345257783
-
Chipping away at the chip bias: RNA degradation in microarray analysis
-
Auer H., Lyianarachchi S., Newsom D., Klisovic M.I., Marcucci G., Kornacker K. Chipping away at the chip bias: RNA degradation in microarray analysis. Nat. Genet. 2003, 35:292.
-
(2003)
Nat. Genet.
, vol.35
, pp. 292
-
-
Auer, H.1
Lyianarachchi, S.2
Newsom, D.3
Klisovic, M.I.4
Marcucci, G.5
Kornacker, K.6
-
2
-
-
19944376457
-
Global identification of human transcribed sequences with genome tiling arrays
-
Bertone P., Stolc V., Royce T.E., Rozowsky J.S., Urban A.E., Zhu X., Rinn J.L., Tongprasit W., Samanta M., Weissman S., Gerstein M., Snyder M. Global identification of human transcribed sequences with genome tiling arrays. Science 2004, 306:2242.
-
(2004)
Science
, vol.306
, pp. 2242
-
-
Bertone, P.1
Stolc, V.2
Royce, T.E.3
Rozowsky, J.S.4
Urban, A.E.5
Zhu, X.6
Rinn, J.L.7
Tongprasit, W.8
Samanta, M.9
Weissman, S.10
Gerstein, M.11
Snyder, M.12
-
3
-
-
79953776636
-
Genome-wide gene expression profiling of formalin-fixed paraffin-embedded breast cancer core biopsies using microarrays
-
Budczies J., Weichert W., Noske A., Muller B.M., Weller C., Wittenberger T., Hofmann H.P., Dietel M., Denkert C., Gekeler V. Genome-wide gene expression profiling of formalin-fixed paraffin-embedded breast cancer core biopsies using microarrays. J. Histochem. Cytochem. 2011, 59:146.
-
(2011)
J. Histochem. Cytochem.
, vol.59
, pp. 146
-
-
Budczies, J.1
Weichert, W.2
Noske, A.3
Muller, B.M.4
Weller, C.5
Wittenberger, T.6
Hofmann, H.P.7
Dietel, M.8
Denkert, C.9
Gekeler, V.10
-
4
-
-
24644519490
-
The transcriptional landscape of the mammalian genome
-
Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J., Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., et al. The transcriptional landscape of the mammalian genome. Science 2005, 309:1559.
-
(2005)
Science
, vol.309
, pp. 1559
-
-
Carninci, P.1
Kasukawa, T.2
Katayama, S.3
Gough, J.4
Frith, M.C.5
Maeda, N.6
Oyama, R.7
Ravasi, T.8
Lenhard, B.9
Wells, C.10
Kodzius, R.11
Shimokawa, K.12
Bajic, V.B.13
Brenner, S.E.14
Batalov, S.15
Forrest, A.R.16
Zavolan, M.17
Davis, M.J.18
Wilming, L.G.19
Aidinis, V.20
Allen, J.E.21
Ambesi-Impiombato, A.22
Apweiler, R.23
Aturaliya, R.N.24
Bailey, T.L.25
Bansal, M.26
Baxter, L.27
Beisel, K.W.28
Bersano, T.29
Bono, H.30
Chalk, A.M.31
Chiu, K.P.32
Choudhary, V.33
Christoffels, A.34
Clutterbuck, D.R.35
Crowe, M.L.36
Dalla, E.37
Dalrymple, B.P.38
de Bono, B.39
Della Gatta, G.40
di Bernardo, D.41
Down, T.42
Engstrom, P.43
Fagiolini, M.44
Faulkner, G.45
Fletcher, C.F.46
Fukushima, T.47
Furuno, M.48
Futaki, S.49
Gariboldi, M.50
Georgii-Hemming, P.51
Gingeras, T.R.52
Gojobori, T.53
Green, R.E.54
Gustincich, S.55
Harbers, M.56
Hayashi, Y.57
Hensch, T.K.58
Hirokawa, N.59
Hill, D.60
Huminiecki, L.61
Iacono, M.62
Ikeo, K.63
Iwama, A.64
Ishikawa, T.65
Jakt, M.66
Kanapin, A.67
Katoh, M.68
Kawasawa, Y.69
Kelso, J.70
Kitamura, H.71
Kitano, H.72
Kollias, G.73
Krishnan, S.P.74
Kruger, A.75
Kummerfeld, S.K.76
Kurochkin, I.V.77
Lareau, L.F.78
Lazarevic, D.79
Lipovich, L.80
Liu, J.81
Liuni, S.82
McWilliam, S.83
Madan Babu, M.84
Madera, M.85
Marchionni, L.86
Matsuda, H.87
Matsuzawa, S.88
Miki, H.89
Mignone, F.90
Miyake, S.91
Morris, K.92
Mottagui-Tabar, S.93
Mulder, N.94
Nakano, N.95
Nakauchi, H.96
Ng, P.97
Nilsson, R.98
Nishiguchi, S.99
more..
-
5
-
-
54349086286
-
Factors in tissue handling and processing that impact RNA obtained from formalin-fixed, paraffin-embedded tissue
-
Chung J.Y., Braunschweig T., Williams R., Guerrero N., Hoffmann K.M., Kwon M., Song Y.K., Libutti S.K., Hewitt S.M. Factors in tissue handling and processing that impact RNA obtained from formalin-fixed, paraffin-embedded tissue. J. Histochem. Cytochem. 2008, 56:1033.
-
(2008)
J. Histochem. Cytochem.
, vol.56
, pp. 1033
-
-
Chung, J.Y.1
Braunschweig, T.2
Williams, R.3
Guerrero, N.4
Hoffmann, K.M.5
Kwon, M.6
Song, Y.K.7
Libutti, S.K.8
Hewitt, S.M.9
-
6
-
-
72549092925
-
Gene expression profiling of paraffin-embedded primary melanoma using the DASL assay identifies increased osteopontin expression as predictive of reduced relapse-free survival
-
Conway C., Mitra A., Jewell R., Randerson-Moor J., Lobo S., Nsengimana J., Edward S., Sanders D.S., Cook M., Powell B., Boon A., Elliott F., de Kort F., Knowles M.A., Bishop D.T., Newton-Bishop J. Gene expression profiling of paraffin-embedded primary melanoma using the DASL assay identifies increased osteopontin expression as predictive of reduced relapse-free survival. Clin. Cancer Res. 2009, 15:6939.
-
(2009)
Clin. Cancer Res.
, vol.15
, pp. 6939
-
-
Conway, C.1
Mitra, A.2
Jewell, R.3
Randerson-Moor, J.4
Lobo, S.5
Nsengimana, J.6
Edward, S.7
Sanders, D.S.8
Cook, M.9
Powell, B.10
Boon, A.11
Elliott, F.12
de Kort, F.13
Knowles, M.A.14
Bishop, D.T.15
Newton-Bishop, J.16
-
7
-
-
0032781869
-
Isolation of full-size mRNA from cells sorted by flow cytometry
-
Diez C., Bertsch G., Simm A. Isolation of full-size mRNA from cells sorted by flow cytometry. J. Biochem. Biophys. Methods 1999, 40:69.
-
(1999)
J. Biochem. Biophys. Methods
, vol.40
, pp. 69
-
-
Diez, C.1
Bertsch, G.2
Simm, A.3
-
8
-
-
67949104963
-
Microarray analysis of RNA extracted from formalin-fixed, paraffin-embedded and matched fresh-frozen ovarian adenocarcinomas
-
Fedorowicz G., Guerrero S., Wu T.D., Modrusan Z. Microarray analysis of RNA extracted from formalin-fixed, paraffin-embedded and matched fresh-frozen ovarian adenocarcinomas. BMC Med. Genomics 2009, 2:23.
-
(2009)
BMC Med. Genomics
, vol.2
, pp. 23
-
-
Fedorowicz, G.1
Guerrero, S.2
Wu, T.D.3
Modrusan, Z.4
-
9
-
-
35948989714
-
Gene expression profiling from formalin-fixed paraffin-embedded tumors of pediatric glioblastoma
-
Haque T., Faury D., Albrecht S., Lopez-Aguilar E., Hauser P., Garami M., Hanzely Z., Bognar L., Del Maestro R.F., Atkinson J., Nantel A., Jabado N. Gene expression profiling from formalin-fixed paraffin-embedded tumors of pediatric glioblastoma. Clin. Cancer Res. 2007, 13:6284.
-
(2007)
Clin. Cancer Res.
, vol.13
, pp. 6284
-
-
Haque, T.1
Faury, D.2
Albrecht, S.3
Lopez-Aguilar, E.4
Hauser, P.5
Garami, M.6
Hanzely, Z.7
Bognar, L.8
Del Maestro, R.F.9
Atkinson, J.10
Nantel, A.11
Jabado, N.12
-
10
-
-
70350292710
-
Prediction of qualitative outcome of oligonucleotide microarray hybridization by measurement of RNA integrity using the 2100 Bioanalyzer Capillary Electrophoresis system
-
Kiewe P., Gueller S., Komor M., Stroux A., Thiel E., Hofmann W.K. Prediction of qualitative outcome of oligonucleotide microarray hybridization by measurement of RNA integrity using the 2100 Bioanalyzer Capillary Electrophoresis system. Ann. Hematol. 2009, 88:1177.
-
(2009)
Ann. Hematol.
, vol.88
, pp. 1177
-
-
Kiewe, P.1
Gueller, S.2
Komor, M.3
Stroux, A.4
Thiel, E.5
Hofmann, W.K.6
-
11
-
-
33646240135
-
Two-dimensional transcriptome profiling: identification of messenger RNA isoform signatures in prostate cancer from archived paraffin-embedded cancer specimens
-
Li H.R., Wang-Rodriguez J., Nair T.M., Yeakley J.M., Kwon Y.S., Bibikova M., Zheng C., Zhou L., Zhang K., Downs T., Fu X.D., Fan J.B. Two-dimensional transcriptome profiling: identification of messenger RNA isoform signatures in prostate cancer from archived paraffin-embedded cancer specimens. Cancer Res. 2006, 66:4079.
-
(2006)
Cancer Res.
, vol.66
, pp. 4079
-
-
Li, H.R.1
Wang-Rodriguez, J.2
Nair, T.M.3
Yeakley, J.M.4
Kwon, Y.S.5
Bibikova, M.6
Zheng, C.7
Zhou, L.8
Zhang, K.9
Downs, T.10
Fu, X.D.11
Fan, J.B.12
-
12
-
-
42149130812
-
Acquisition of biologically relevant gene expression data by Affymetrix microarray analysis of archival formalin-fixed paraffin-embedded tumours
-
Linton K.M., Hey Y., Saunders E., Jeziorska M., Denton J., Wilson C.L., Swindell R., Dibben S., Miller C.J., Pepper S.D., Radford J.A., Freemont A.J. Acquisition of biologically relevant gene expression data by Affymetrix microarray analysis of archival formalin-fixed paraffin-embedded tumours. Br. J. Cancer 2008, 98:1403.
-
(2008)
Br. J. Cancer
, vol.98
, pp. 1403
-
-
Linton, K.M.1
Hey, Y.2
Saunders, E.3
Jeziorska, M.4
Denton, J.5
Wilson, C.L.6
Swindell, R.7
Dibben, S.8
Miller, C.J.9
Pepper, S.D.10
Radford, J.A.11
Freemont, A.J.12
-
13
-
-
10544256600
-
Expression monitoring by hybridization to high-density oligonucleotide arrays
-
Lockhart D.J., Dong H., Byrne M.C., Follettie M.T., Gallo M.V., Chee M.S., Mittmann M., Wang C., Kobayashi M., Horton H., Brown E.L. Expression monitoring by hybridization to high-density oligonucleotide arrays. Nat. Biotechnol. 1996, 14:1675.
-
(1996)
Nat. Biotechnol.
, vol.14
, pp. 1675
-
-
Lockhart, D.J.1
Dong, H.2
Byrne, M.C.3
Follettie, M.T.4
Gallo, M.V.5
Chee, M.S.6
Mittmann, M.7
Wang, C.8
Kobayashi, M.9
Horton, H.10
Brown, E.L.11
-
14
-
-
71849085382
-
An in vitro system to model the establishment and reactivation of HIV-1 latency
-
Marini A., Harper J.M., Romerio F. An in vitro system to model the establishment and reactivation of HIV-1 latency. J. Immunol. 2008, 181:7713.
-
(2008)
J. Immunol.
, vol.181
, pp. 7713
-
-
Marini, A.1
Harper, J.M.2
Romerio, F.3
-
15
-
-
0033571272
-
Analysis of chemical modification of RNA from formalin-fixed samples and optimization of molecular biology applications for such samples
-
Masuda N., Ohnishi T., Kawamoto S., Monden M., Okubo K. Analysis of chemical modification of RNA from formalin-fixed samples and optimization of molecular biology applications for such samples. Nucleic Acids Res. 1999, 27:4436.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 4436
-
-
Masuda, N.1
Ohnishi, T.2
Kawamoto, S.3
Monden, M.4
Okubo, K.5
-
16
-
-
70549098725
-
Quality control in microarray assessment of gene expression in human airway epithelium
-
Raman T., O'Connor T.P., Hackett N.R., Wang W., Harvey B.G., Attiyeh M.A., Dang D.T., Teater M., Crystal R.G. Quality control in microarray assessment of gene expression in human airway epithelium. BMC Genomics 2009, 10:493.
-
(2009)
BMC Genomics
, vol.10
, pp. 493
-
-
Raman, T.1
O'Connor, T.P.2
Hackett, N.R.3
Wang, W.4
Harvey, B.G.5
Attiyeh, M.A.6
Dang, D.T.7
Teater, M.8
Crystal, R.G.9
-
17
-
-
0003903343
-
-
Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
-
Sambrook J., Fritsch E.F., Maniatis T. Molecular cloning: a laboratory manual 1989, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
-
(1989)
Molecular cloning: a laboratory manual
-
-
Sambrook, J.1
Fritsch, E.F.2
Maniatis, T.3
-
18
-
-
0028806048
-
Quantitative monitoring of gene expression patterns with a complementary DNA microarray
-
Schena M., Shalon D., Davis R.W., Brown P.O. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 1995, 270:467.
-
(1995)
Science
, vol.270
, pp. 467
-
-
Schena, M.1
Shalon, D.2
Davis, R.W.3
Brown, P.O.4
-
19
-
-
0345168051
-
Moderate degradation does not preclude microarray analysis of small amounts of RNA
-
Schoor O., Weinschenk T., Hennenlotter J., Corvin S., Stenzl A., Rammensee H.G., Stevanovic S. Moderate degradation does not preclude microarray analysis of small amounts of RNA. Biotechniques 2003, 35(1192-6):1198.
-
(2003)
Biotechniques
, vol.35
, Issue.6-1192
, pp. 1198
-
-
Schoor, O.1
Weinschenk, T.2
Hennenlotter, J.3
Corvin, S.4
Stenzl, A.5
Rammensee, H.G.6
Stevanovic, S.7
-
20
-
-
33645241407
-
The RIN: an RNA integrity number for assigning integrity values to RNA measurements
-
Schroeder A., Mueller O., Stocker S., Salowsky R., Leiber M., Gassmann M., Lightfoot S., Menzel W., Granzow M., Ragg T. The RIN: an RNA integrity number for assigning integrity values to RNA measurements. BMC Mol. Biol. 2006, 7:3.
-
(2006)
BMC Mol. Biol.
, vol.7
, pp. 3
-
-
Schroeder, A.1
Mueller, O.2
Stocker, S.3
Salowsky, R.4
Leiber, M.5
Gassmann, M.6
Lightfoot, S.7
Menzel, W.8
Granzow, M.9
Ragg, T.10
-
21
-
-
0035865260
-
Experimental annotation of the human genome using microarray technology
-
Shoemaker D.D., Schadt E.E., Armour C.D., He Y.D., Garrett-Engele P., McDonagh P.D., Loerch P.M., Leonardson A., Lum P.Y., Cavet G., Wu L.F., Altschuler S.J., Edwards S., King J., Tsang J.S., Schimmack G., Schelter J.M., Koch J., Ziman M., Marton M.J., Li B., Cundiff P., Ward T., Castle J., Krolewski M., Meyer M.R., Mao M., Burchard J., Kidd M.J., Dai H., Phillips J.W., Linsley P.S., Stoughton R., Scherer S., Boguski M.S. Experimental annotation of the human genome using microarray technology. Nature 2001, 409:922.
-
(2001)
Nature
, vol.409
, pp. 922
-
-
Shoemaker, D.D.1
Schadt, E.E.2
Armour, C.D.3
He, Y.D.4
Garrett-Engele, P.5
McDonagh, P.D.6
Loerch, P.M.7
Leonardson, A.8
Lum, P.Y.9
Cavet, G.10
Wu, L.F.11
Altschuler, S.J.12
Edwards, S.13
King, J.14
Tsang, J.S.15
Schimmack, G.16
Schelter, J.M.17
Koch, J.18
Ziman, M.19
Marton, M.J.20
Li, B.21
Cundiff, P.22
Ward, T.23
Castle, J.24
Krolewski, M.25
Meyer, M.R.26
Mao, M.27
Burchard, J.28
Kidd, M.J.29
Dai, H.30
Phillips, J.W.31
Linsley, P.S.32
Stoughton, R.33
Scherer, S.34
Boguski, M.S.35
more..
-
22
-
-
80052447491
-
Robust gene expression signature from formalin-fixed paraffin-embedded samples predicts prognosis of non-small-cell lung cancer patients
-
Xie Y., Xiao G., Coombes K.R., Behrens C., Solis L.M., Raso G., Girard L., Erickson H.S., Roth J., Heymach J.V., Moran C., Danenberg K., Minna J.D., Wistuba I.I. Robust gene expression signature from formalin-fixed paraffin-embedded samples predicts prognosis of non-small-cell lung cancer patients. Clin. Cancer Res. 2011, 17:5705.
-
(2011)
Clin. Cancer Res.
, vol.17
, pp. 5705
-
-
Xie, Y.1
Xiao, G.2
Coombes, K.R.3
Behrens, C.4
Solis, L.M.5
Raso, G.6
Girard, L.7
Erickson, H.S.8
Roth, J.9
Heymach, J.V.10
Moran, C.11
Danenberg, K.12
Minna, J.D.13
Wistuba, I.I.14
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