-
2
-
-
0026621977
-
DNA sequencing with chain-terminating inhibitors (classical article: 1977)
-
Sanger,F., Nicklen,S. and Coulson,A.R. (1992) DNA sequencing with chain-terminating inhibitors (classical article: 1977). Biotechnology 24, 104-108.
-
(1992)
Biotechnology
, vol.24
, pp. 104-108
-
-
Sanger, F.1
Nicklen, S.2
Coulson, A.R.3
-
3
-
-
0345686789
-
The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags
-
Brentani,H., Caballero,O.L., Camargo,A.A., da Silva,A.M., da,S.W.A. Jr, Dias,N.E., Grivet,M., Gruber,A., Guimaraes,P.E., Hide,W. et al. (2003) The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags. Proc. Natl Acad. Sci. USA, 100, 13418-13423.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 13418-13423
-
-
Brentani, H.1
Caballero, O.L.2
Camargo, A.A.3
da Silva, A.M.4
da Jr, S.W.A.5
Dias, N.E.6
Grivet, M.7
Gruber, A.8
Guimaraes, P.E.9
Hide, W.10
-
4
-
-
34250305146
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
Birney,E., Stamatoyannopoulos,J.A., Dutta,A., Guigo,R., Gingeras,T.R., Margulies,E.H., Weng,Z.P., Snyder,M., Dermitzakis,E.T., Thurman,R.E. et al. (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447 799-816.
-
(2007)
Nature
, vol.447
, pp. 799-816
-
-
Birney, E.1
Stamatoyannopoulos, J.A.2
Dutta, A.3
Guigo, R.4
Gingeras, T.R.5
Margulies, E.H.6
Weng, Z.P.7
Snyder, M.8
Dermitzakis, E.T.9
Thurman, R.E.10
-
5
-
-
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. et al. (2005) The transcriptional landscape of the mammalian genome. Science, 309 1559-1563.
-
(2005)
Science
, vol.309
, pp. 1559-1563
-
-
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
-
6
-
-
23644443393
-
The amazing complexity of the human transcriptome
-
Frith,M.C., Pheasant,M. and Mattick,J.S. (2005) The amazing complexity of the human transcriptome. Eur. J. Hum. Genet., 13, 894-897.
-
(2005)
Eur. J. Hum. Genet
, vol.13
, pp. 894-897
-
-
Frith, M.C.1
Pheasant, M.2
Mattick, J.S.3
-
7
-
-
24644472515
-
Antisense transcription in the mammalian transcriptome
-
Katayama,S., Tomaru,Y., Kasukawa,T., Waki,K., Nakanishi,M., Nakamura,M., Nishida,H., Yap,C.C., Suzuki,M., Kawai,J. et al. (2005) Antisense transcription in the mammalian transcriptome. Science, 309, 1564-1566.
-
(2005)
Science
, vol.309
, pp. 1564-1566
-
-
Katayama, S.1
Tomaru, Y.2
Kasukawa, T.3
Waki, K.4
Nakanishi, M.5
Nakamura, M.6
Nishida, H.7
Yap, C.C.8
Suzuki, M.9
Kawai, J.10
-
9
-
-
33747706117
-
Non-coding RNAs in the nervous system
-
Mehler,M.F. and Mattick,J.S. (2006) Non-coding RNAs in the nervous system. J. Physiol., 575, 333-341.
-
(2006)
J. Physiol
, vol.575
, pp. 333-341
-
-
Mehler, M.F.1
Mattick, J.S.2
-
10
-
-
33846074755
-
RNAdb 2.0-an expanded database of mammalian non-coding RNAs
-
Pang,K.C., Stephen,S., Dinger,M.E., Engstrom,P.G., Lenhard,B. and Mattick,J.S. (2007) RNAdb 2.0-an expanded database of mammalian non-coding RNAs. Nucleic Acids Res., 35, D178-D182.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Pang, K.C.1
Stephen, S.2
Dinger, M.E.3
Engstrom, P.G.4
Lenhard, B.5
Mattick, J.S.6
-
11
-
-
4444364003
-
Antisense intronic non-coding RNA levels correlate to the degree of tumor differentiation in prostate cancer
-
Reis,E.M., Nakaya,H.I., Louro,R., Canavez,F.C., Flatschart,A.V.F., Almeida,G.T., Egidio,C.M., Paquola,A.C., Machado,A.A., Festa,F. et al. (2004) Antisense intronic non-coding RNA levels correlate to the degree of tumor differentiation in prostate cancer. Oncogene, 23, 6684-6692.
-
(2004)
Oncogene
, vol.23
, pp. 6684-6692
-
-
Reis, E.M.1
Nakaya, H.I.2
Louro, R.3
Canavez, F.C.4
Flatschart, A.V.F.5
Almeida, G.T.6
Egidio, C.M.7
Paquola, A.C.8
Machado, A.A.9
Festa, F.10
-
12
-
-
12344291073
-
Dark matter in the genome: Evidence of widespread transcription detected by microarray tiling experiments
-
Johnson,J.M., Edwards,S., Shoemaker,D. and Schadt,E.E. (2005) Dark matter in the genome: Evidence of widespread transcription detected by microarray tiling experiments. Trends Genet., 21, 93-102.
-
(2005)
Trends Genet
, vol.21
, pp. 93-102
-
-
Johnson, J.M.1
Edwards, S.2
Shoemaker, D.3
Schadt, E.E.4
-
13
-
-
22244442468
-
Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays
-
Kapranov,P., Drenkow,J., Cheng,J., Long,J., Helt,G., Dike,S. and Gingeras,T.R. (2005) Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays. Genome Res., 15, 987-997.
-
(2005)
Genome Res
, vol.15
, pp. 987-997
-
-
Kapranov, P.1
Drenkow, J.2
Cheng, J.3
Long, J.4
Helt, G.5
Dike, S.6
Gingeras, T.R.7
-
14
-
-
34548092794
-
Use of tiling array data and RNA secondary structure predictions to identify noncoding RNA genes
-
Weile,C., Gardner,P.P., Hedegaard,M.M. and Vinther,J. (2007) Use of tiling array data and RNA secondary structure predictions to identify noncoding RNA genes. BMC Genomics, 8, 244.
-
(2007)
BMC Genomics
, vol.8
, pp. 244
-
-
Weile, C.1
Gardner, P.P.2
Hedegaard, M.M.3
Vinther, J.4
-
15
-
-
33644864059
-
The expanding transcriptome: The genome as the 'Book of Sand'
-
Soares,L.M.M. and Valcarcel,J. (2006) The expanding transcriptome: The genome as the 'Book of Sand'. EMBO J., 25, 923-931.
-
(2006)
EMBO J
, vol.25
, pp. 923-931
-
-
Soares, L.M.M.1
Valcarcel, J.2
-
16
-
-
33747603960
-
The imprinted Air ncRNA is an atypical RNAPII transcript that evades splicing and escapes nuclear export
-
Seidl,C.I.M., Stricker,S.H. and Barlow,D.P. (2006) The imprinted Air ncRNA is an atypical RNAPII transcript that evades splicing and escapes nuclear export. EMBO J., 25, 3565-3575.
-
(2006)
EMBO J
, vol.25
, pp. 3565-3575
-
-
Seidl, C.I.M.1
Stricker, S.H.2
Barlow, D.P.3
-
17
-
-
33748303049
-
Non-coding-RNA regulators of RNA polymerase II transcription
-
Goodrich,J.A. and Kugel,J.F. (2006) Non-coding-RNA regulators of RNA polymerase II transcription. Nat. Rev. Mol. Cell Biol., 7, 612-616.
-
(2006)
Nat. Rev. Mol. Cell Biol
, vol.7
, pp. 612-616
-
-
Goodrich, J.A.1
Kugel, J.F.2
-
18
-
-
34250189924
-
Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
-
Nakaya,H.I., Amaral,P.P., Louro,R., Lopes,A., Fachel,A.A., Moreira,Y.B., El Jundi,T.A., da Silva,A.M., Reis,E.M. and Verjovski-Almeida,S. (2007) Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription. Genome Biol., 8, R43.
-
(2007)
Genome Biol
, vol.8
-
-
Nakaya, H.I.1
Amaral, P.P.2
Louro, R.3
Lopes, A.4
Fachel, A.A.5
Moreira, Y.B.6
El Jundi, T.A.7
da Silva, A.M.8
Reis, E.M.9
Verjovski-Almeida, S.10
-
19
-
-
1842584883
-
RNA regulation: A new genetics?
-
Mattick,J.S. (2004) RNA regulation: A new genetics? Nat. Rev. Genet. 5, 316-323.
-
(2004)
Nat. Rev. Genet
, vol.5
, pp. 316-323
-
-
Mattick, J.S.1
-
20
-
-
0038688072
-
Identification of putative noncoding RNAs among the RIKEN mouse full-length cDNA collection
-
Numata,K., Kanai,A., Saito,R., Kondo,S., Adachi,J., Wilming,L.G., Hume,D.A., Hayashizaki,Y. and Tomita,M. (2003) Identification of putative noncoding RNAs among the RIKEN mouse full-length cDNA collection. Genome Res., 13, 1301-1306.
-
(2003)
Genome Res
, vol.13
, pp. 1301-1306
-
-
Numata, K.1
Kanai, A.2
Saito, R.3
Kondo, S.4
Adachi, J.5
Wilming, L.G.6
Hume, D.A.7
Hayashizaki, Y.8
Tomita, M.9
-
21
-
-
12144287461
-
Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22
-
Kampa,D., Cheng,J., Kapranov,P., Yamanaka,M., Brubaker,S., Cawley,S., Drenkow,J., Piccolboni,A., Bekiranov,S., Helt,G. et al. (2004) Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22. Genome Res., 14, 331-342.
-
(2004)
Genome Res
, vol.14
, pp. 331-342
-
-
Kampa, D.1
Cheng, J.2
Kapranov, P.3
Yamanaka, M.4
Brubaker, S.5
Cawley, S.6
Drenkow, J.7
Piccolboni, A.8
Bekiranov, S.9
Helt, G.10
-
22
-
-
33747712023
-
The complexity of the mammalian transcriptome
-
Gustincich,S., Sandelin,A., Plessy,C., Katayama,S., Simone,R., Lazarevic,D., Hayashizaki,Y. and Carninci,P. (2006) The complexity of the mammalian transcriptome. J. Physiol., 575, 321-332.
-
(2006)
J. Physiol
, vol.575
, pp. 321-332
-
-
Gustincich, S.1
Sandelin, A.2
Plessy, C.3
Katayama, S.4
Simone, R.5
Lazarevic, D.6
Hayashizaki, Y.7
Carninci, P.8
-
23
-
-
33749000852
-
Conserved distances between vertebrate highly conserved elements
-
Sun,H., Skogerbo,G. and Chen,R.S. (2006) Conserved distances between vertebrate highly conserved elements. Hum. Mol. Genet., 15, 2911-2922.
-
(2006)
Hum. Mol. Genet
, vol.15
, pp. 2911-2922
-
-
Sun, H.1
Skogerbo, G.2
Chen, R.S.3
-
24
-
-
25444452651
-
A systematic search for new mammalian noncoding RNAs indicates little conserved intergenic transcription
-
Babak,T., Blencowe,B.J. and Hughes,T.R. (2005) A systematic search for new mammalian noncoding RNAs indicates little conserved intergenic transcription. BMC Genomics, 6, 104.
-
(2005)
BMC Genomics
, vol.6
, pp. 104
-
-
Babak, T.1
Blencowe, B.J.2
Hughes, T.R.3
-
25
-
-
34250331200
-
Structured RNAs in the ENCODE selected regions of the human genome
-
Washietl,S., Pedersen,J.S., Korbel,J.O., Stocsits,C., Gruber,A.R., Hackermuller,J., Hertel,J., Lindemeyer,M., Reiche,K., Tanzer,A. et al. (2007) Structured RNAs in the ENCODE selected regions of the human genome. Genome Res., 17, 852-864.
-
(2007)
Genome Res
, vol.17
, pp. 852-864
-
-
Washietl, S.1
Pedersen, J.S.2
Korbel, J.O.3
Stocsits, C.4
Gruber, A.R.5
Hackermuller, J.6
Hertel, J.7
Lindemeyer, M.8
Reiche, K.9
Tanzer, A.10
-
26
-
-
12944262414
-
Shotgun sequencing of the human transcriptome with ORF expressed sequence tags
-
Dias,N.E., Correa,R.G., Verjovski-Almeida,S., Briones,M.R., Nagai,M.A., da,S.W. Jr, Zago,M.A., Bordin,S., Costa,F.F., Goldman,G.H. et al. (2000) Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. Proc. Natl Acad. Sci. USA, 97, 3491-3496.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 3491-3496
-
-
Dias, N.E.1
Correa, R.G.2
Verjovski-Almeida, S.3
Briones, M.R.4
Nagai, M.A.5
da Jr, S.W.6
Zago, M.A.7
Bordin, S.8
Costa, F.F.9
Goldman, G.H.10
-
27
-
-
0035834151
-
The contribution of 700,000 ORF sequence tags to the definition of the human transcriptome
-
Camargo,A.A., Samaia,H.P., Dias-Neto,E., Simao,D.F., Migotto,I.A., Briones,M.R., Costa,F.F., Nagai,M.A., Verjovski-Almeida,S., Zago,M.A. et al. (2001) The contribution of 700,000 ORF sequence tags to the definition of the human transcriptome. Proc. Natl Acad. Sci. USA, 98, 12103-12108.
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 12103-12108
-
-
Camargo, A.A.1
Samaia, H.P.2
Dias-Neto, E.3
Simao, D.F.4
Migotto, I.A.5
Briones, M.R.6
Costa, F.F.7
Nagai, M.A.8
Verjovski-Almeida, S.9
Zago, M.A.10
-
28
-
-
24144466902
-
Analysis of intronic conserved elements indicates that functional complexity might represent a major source of negative selection on non-coding sequences
-
Sironi,M., Menozzi,G., Comi,G.P., Cagliani,R., Bresolin,N. and Pozzoli,U. (2005) Analysis of intronic conserved elements indicates that functional complexity might represent a major source of negative selection on non-coding sequences. Hum. Mol. Genet., 14, 2533-2546.
-
(2005)
Hum. Mol. Genet
, vol.14
, pp. 2533-2546
-
-
Sironi, M.1
Menozzi, G.2
Comi, G.P.3
Cagliani, R.4
Bresolin, N.5
Pozzoli, U.6
-
29
-
-
30044434769
-
Experimental validation of the regulated expression of large numbers of non-coding RNAs from the mouse genome
-
Ravasi,T., Suzuki,H., Pang,K.C., Katayama,S., Furuno,M., Okunishi,R., Fukuda,S., Ru,K.L., Frith,M.C., Gongora,M.M. et al. (2006) Experimental validation of the regulated expression of large numbers of non-coding RNAs from the mouse genome. Genome Res., 16, 11-19.
-
(2006)
Genome Res
, vol.16
, pp. 11-19
-
-
Ravasi, T.1
Suzuki, H.2
Pang, K.C.3
Katayama, S.4
Furuno, M.5
Okunishi, R.6
Fukuda, S.7
Ru, K.L.8
Frith, M.C.9
Gongora, M.M.10
-
30
-
-
12944266836
-
Identification of human chromosome 22 transcribed sequences with ORF expressed sequence tags
-
de Souza,S.J., Camargo,A.A., Briones,M.R., Costa,F.F., Nagai,M.A., Verjovski-Almeida,S., Zago,M.A., Andrade,L.E., Carrer,H., El Dorry,H.F. et al. (2000) Identification of human chromosome 22 transcribed sequences with ORF expressed sequence tags. Proc. Natl Acad. Sci. USA 97, 12690-12693.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 12690-12693
-
-
de Souza, S.J.1
Camargo, A.A.2
Briones, M.R.3
Costa, F.F.4
Nagai, M.A.5
Verjovski-Almeida, S.6
Zago, M.A.7
Andrade, L.E.8
Carrer, H.9
El Dorry, H.F.10
-
31
-
-
33644643743
-
Mining ORESTES no-match database: Can we still contribute to cancer transcriptome?
-
Fonseca,R.D., Carraro,D.M. and Brentani,H. (2006) Mining ORESTES no-match database: Can we still contribute to cancer transcriptome? Genet. Mol. Res., 5, 24-32.
-
(2006)
Genet. Mol. Res
, vol.5
, pp. 24-32
-
-
Fonseca, R.D.1
Carraro, D.M.2
Brentani, H.3
-
32
-
-
0037327027
-
A novel algorithm for computational identification of contaminated EST libraries
-
Sorek,R. and Safer,H.M. (2003) A novel algorithm for computational identification of contaminated EST libraries. Nucleic Acids Res., 31, 1067-1074.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 1067-1074
-
-
Sorek, R.1
Safer, H.M.2
-
33
-
-
17444390470
-
Gene expression arrays in cancer research: Methods and applications
-
Brentani,R., Carraro,D., Verjovski-Almeida,S., Reis,E., Neves,E., de Souza,S., Carvalho,A., Brentani,H. and Reis,L. (2005) Gene expression arrays in cancer research: Methods and applications. Crit. Rev. Oncol. Hematol., 54, 95-105.
-
(2005)
Crit. Rev. Oncol. Hematol
, vol.54
, pp. 95-105
-
-
Brentani, R.1
Carraro, D.2
Verjovski-Almeida, S.3
Reis, E.4
Neves, E.5
de Souza, S.6
Carvalho, A.7
Brentani, H.8
Reis, L.9
-
34
-
-
0025257556
-
Amplified RNA synthesized from limited quantities of heterogeneous cDNA
-
Vangelder,R.N., Vonzastrow,M.E., Yool,A., Dement,W.C., Barchas,J.D. and Eberwine,J.H. (1990) Amplified RNA synthesized from limited quantities of heterogeneous cDNA. Proc. Natl Acad. Sci. USA, 87, 1663-1667.
-
(1990)
Proc. Natl Acad. Sci. USA
, vol.87
, pp. 1663-1667
-
-
Vangelder, R.N.1
Vonzastrow, M.E.2
Yool, A.3
Dement, W.C.4
Barchas, J.D.5
Eberwine, J.H.6
-
35
-
-
0141849160
-
Comparative analysis of amplified and nonamplified RNA for hybridization in cDNA microarray
-
Gomes,L.I., Silva,R.L.A., Stolf,B.S., Cristo,E.B., Hirata,R., Soares,F.A., Reis,L.F.L., Neves,E.J. and Carvalho,A.F. (2003) Comparative analysis of amplified and nonamplified RNA for hybridization in cDNA microarray. Anal. Biochem., 321, 244-251.
-
(2003)
Anal. Biochem
, vol.321
, pp. 244-251
-
-
Gomes, L.I.1
Silva, R.L.A.2
Stolf, B.S.3
Cristo, E.B.4
Hirata, R.5
Soares, F.A.6
Reis, L.F.L.7
Neves, E.J.8
Carvalho, A.F.9
-
36
-
-
31344439298
-
-
Bowtell,D. and Sambrook,J eds, Cold Spring Harbor Laboratory Press, New York, pp
-
DeRisi,J. (2003) In Bowtell,D. and Sambrook,J (eds.), DNA Microarrays: A Molecular Cloning Manual, Cold Spring Harbor Laboratory Press, New York, pp. 187-193.
-
(2003)
DNA Microarrays: A Molecular Cloning Manual
, pp. 187-193
-
-
DeRisi, J.1
-
37
-
-
0036319960
-
Design issues for cDNA microarray experiments
-
Yang,Y.H. and Speed,T. (2002) Design issues for cDNA microarray experiments. Nat. Rev. Genet., 3, 579-588.
-
(2002)
Nat. Rev. Genet
, vol.3
, pp. 579-588
-
-
Yang, Y.H.1
Speed, T.2
-
38
-
-
1342294092
-
Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation
-
Yang,Y., Dudoit,S., Luu,P., Lin,D., Peng,V., Ngai,J. and Speed,T. (2002) Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res., 30, e15.
-
(2002)
Nucleic Acids Res
, vol.30
-
-
Yang, Y.1
Dudoit, S.2
Luu, P.3
Lin, D.4
Peng, V.5
Ngai, J.6
Speed, T.7
-
39
-
-
34547582418
-
CPC: Assess the protein-coding potential of transcripts using sequence features and support vector machine
-
Kong,L., Zhang,Y., Ye,Z.Q., Liu,X.Q., Zhao,S.Q., Wei,L. and Gao,G. (2007) CPC: Assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Res., 35, W345-W349.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Kong, L.1
Zhang, Y.2
Ye, Z.Q.3
Liu, X.Q.4
Zhao, S.Q.5
Wei, L.6
Gao, G.7
-
40
-
-
14044272835
-
Fast and reliable prediction of noncoding RNAs
-
Washietl,S., Hofacker,I.L. and Stadler,P.F. (2005) Fast and reliable prediction of noncoding RNAs. Proc. Natl Acad. Sci. USA, 102 2454-2459.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 2454-2459
-
-
Washietl, S.1
Hofacker, I.L.2
Stadler, P.F.3
-
41
-
-
12344270322
-
Normalization of gene expression measurements in tumor tissues: Comparison of 13 endogenous control genes
-
de Kok,J.B., Roelofs,R.W., Giesendorf,B.A., Pennings,J.L., Waas,E.T., Feuth,T., Swinkels,D.W. and Span,P.N. (2005) Normalization of gene expression measurements in tumor tissues: Comparison of 13 endogenous control genes. Lab. Invest., 85, 154-159.
-
(2005)
Lab. Invest
, vol.85
, pp. 154-159
-
-
de Kok, J.B.1
Roelofs, R.W.2
Giesendorf, B.A.3
Pennings, J.L.4
Waas, E.T.5
Feuth, T.6
Swinkels, D.W.7
Span, P.N.8
-
42
-
-
0034654176
-
Identification of differentially expressed genes in human prostate cancer using subtraction and microarray
-
Xu,J.C., Stolk,J.A., Zhang,X.Q., Silva,S.J., Houghton,R.L., Matsumura,M., Vedvick,T.S., Leslie,K.B., Badaro,R. and Reed,S.G. (2000) Identification of differentially expressed genes in human prostate cancer using subtraction and microarray. Cancer Res., 60, 1677-1682.
-
(2000)
Cancer Res
, vol.60
, pp. 1677-1682
-
-
Xu, J.C.1
Stolk, J.A.2
Zhang, X.Q.3
Silva, S.J.4
Houghton, R.L.5
Matsumura, M.6
Vedvick, T.S.7
Leslie, K.B.8
Badaro, R.9
Reed, S.G.10
-
43
-
-
17344392308
-
A new mathematical model for relative quantification in real-time RT-PCR
-
Pfaffl,M.W. (2001) A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res., 29, e45.
-
(2001)
Nucleic Acids Res
, vol.29
-
-
Pfaffl, M.W.1
-
44
-
-
33646272409
-
Identification and classification of conserved RNA secondary structures in the human genome
-
Pedersen,J.S., Bejerano,G., Siepel,A., Rosenbloom,K., Lindblad-Toh,K., Lander,E.S., Kent,J., Miller,W. and Haussler,D. (2006) Identification and classification of conserved RNA secondary structures in the human genome. Plos Comput. Biol., 2, 251-262.
-
(2006)
Plos Comput. Biol
, vol.2
, pp. 251-262
-
-
Pedersen, J.S.1
Bejerano, G.2
Siepel, A.3
Rosenbloom, K.4
Lindblad-Toh, K.5
Lander, E.S.6
Kent, J.7
Miller, W.8
Haussler, D.9
-
46
-
-
46149097613
-
Diamonds in the rough: MRNA-like non-coding RNAs
-
Rymarquis,L.A., Kastenmayer,J.P., Huttenhofer,A.G. and Green,P.J. (2008) Diamonds in the rough: MRNA-like non-coding RNAs. Trends Plant Sci. 13, 329-334.
-
(2008)
Trends Plant Sci
, vol.13
, pp. 329-334
-
-
Rymarquis, L.A.1
Kastenmayer, J.P.2
Huttenhofer, A.G.3
Green, P.J.4
-
47
-
-
13444267841
-
NONCODE: An integrated knowledge database of non-coding RNAs
-
Liu,C., Bai,B., Skogerbo,G., Cai,L., Deng,W., Zhang,Y., Bu,D., Zhao,Y. and Chen,R. (2005) NONCODE: An integrated knowledge database of non-coding RNAs. Nucleic Acids Res., 33, D112-D115.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Liu, C.1
Bai, B.2
Skogerbo, G.3
Cai, L.4
Deng, W.5
Zhang, Y.6
Bu, D.7
Zhao, Y.8
Chen, R.9
-
48
-
-
34250212945
-
Sense-antisense pairs in mammals: Functional and evolutionary considerations
-
Galante,P.A.F., Vidal,D.O., de Souza,J.E., Camargo,A.A. and de Souza,S.J. (2007) Sense-antisense pairs in mammals: Functional and evolutionary considerations. Genome Biol., 8, R40.
-
(2007)
Genome Biol
, vol.8
-
-
Galante, P.A.F.1
Vidal, D.O.2
de Souza, J.E.3
Camargo, A.A.4
de Souza, S.J.5
-
49
-
-
0033429470
-
DD3: A new prostate-specific gene, highly overexpressed in prostate cancer
-
Bussemakers,M.J., van Bokhoven,A., Verhaegh,G.W., Smit,F.P., Karthaus,H.F., Schalken,J.A., Debruyne,F.M., Ru,N. and Isaacs,W.B. (1999) DD3: A new prostate-specific gene, highly overexpressed in prostate cancer. Cancer Res., 59, 5975-5979.
-
(1999)
Cancer Res
, vol.59
, pp. 5975-5979
-
-
Bussemakers, M.J.1
van Bokhoven, A.2
Verhaegh, G.W.3
Smit, F.P.4
Karthaus, H.F.5
Schalken, J.A.6
Debruyne, F.M.7
Ru, N.8
Isaacs, W.B.9
-
50
-
-
3242777607
-
Discovery and clinical application of a novel prostate cancer marker - alpha-Methylacyl CoA racemase (P504S)
-
Jiang,Z., Woda,B.A., Wu,C.L. and Yang,X.M.J. (2004) Discovery and clinical application of a novel prostate cancer marker - alpha-Methylacyl CoA racemase (P504S). Am. J. Clin. Pathol., 122, 275-289.
-
(2004)
Am. J. Clin. Pathol
, vol.122
, pp. 275-289
-
-
Jiang, Z.1
Woda, B.A.2
Wu, C.L.3
Yang, X.M.J.4
-
51
-
-
0034765524
-
P504S - a new molecular marker for the detection of prostate carcinoma
-
Jiang,Z., Woda,B.A., Rock,K.L., Xu,Y.D., Savas,L., Khan,A., Pihan,G., Cai,F., Babcook,J.S., Rathanaswami,P. et al. (2001) P504S - a new molecular marker for the detection of prostate carcinoma. Am. J. Surg. Pathol., 25, 1397-1404.
-
(2001)
Am. J. Surg. Pathol
, vol.25
, pp. 1397-1404
-
-
Jiang, Z.1
Woda, B.A.2
Rock, K.L.3
Xu, Y.D.4
Savas, L.5
Khan, A.6
Pihan, G.7
Cai, F.8
Babcook, J.S.9
Rathanaswami, P.10
-
52
-
-
1542515338
-
A census of human cancer genes
-
Futreal,P., Coin,L., Marshall,M., Down,T., Hubbard,T., Wooster,R., Rahman,N. and Stratton,M. (2004) A census of human cancer genes. Nat. Rev. Cancer, 4, 177-183.
-
(2004)
Nat. Rev. Cancer
, vol.4
, pp. 177-183
-
-
Futreal, P.1
Coin, L.2
Marshall, M.3
Down, T.4
Hubbard, T.5
Wooster, R.6
Rahman, N.7
Stratton, M.8
-
53
-
-
13444252847
-
Rfam: Annotating non-coding RNAs in complete genomes
-
Griffiths-Jones,S., Moxon,S., Marshall,M., Khanna,A., Eddy,S.R. and Bateman,A. (2005) Rfam: Annotating non-coding RNAs in complete genomes. Nucleic Acids Res., 33, D121-D124.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Griffiths-Jones, S.1
Moxon, S.2
Marshall, M.3
Khanna, A.4
Eddy, S.R.5
Bateman, A.6
-
54
-
-
36448997409
-
Computational methods in noncoding RNA research
-
Machado-Lima,A., del Portillo,H.A. and Durham,A.M. (2008) Computational methods in noncoding RNA research. J. Math. Biol., 56, 15-49.
-
(2008)
J. Math. Biol
, vol.56
, pp. 15-49
-
-
Machado-Lima, A.1
del Portillo, H.A.2
Durham, A.M.3
-
55
-
-
33748675254
-
An RNA gene expressed during cortical development evolved rapidly in humans
-
Pollard,K.S., Salama,S.R., Lambert,N., Lambot,M.A., Coppens,S., Pedersen,J.S., Katzman,S., King,B., Onodera,C., Siepel,A. et al. (2006) An RNA gene expressed during cortical development evolved rapidly in humans. Nature, 443, 167-172.
-
(2006)
Nature
, vol.443
, pp. 167-172
-
-
Pollard, K.S.1
Salama, S.R.2
Lambert, N.3
Lambot, M.A.4
Coppens, S.5
Pedersen, J.S.6
Katzman, S.7
King, B.8
Onodera, C.9
Siepel, A.10
-
56
-
-
36949004781
-
Mechanisms of Disease: Biomarkers and molecular targets from microarray gene expression studies in prostate cancer
-
Cooper,C.S., Campbell,C. and Jhavar,S. (2007) Mechanisms of Disease: biomarkers and molecular targets from microarray gene expression studies in prostate cancer. Nat. Clin. Pract. Urol., 4, 677-687.
-
(2007)
Nat. Clin. Pract. Urol
, vol.4
, pp. 677-687
-
-
Cooper, C.S.1
Campbell, C.2
Jhavar, S.3
-
57
-
-
0036682002
-
Comprehensive gene expression analysis of prostate cancer reveals distinct transcriptional programs associated with metastatic disease
-
LaTulippe,E., Satagopan,J., Smith,A., Scher,H., Scardino,P., Reuter,V. and Gerald,W.L. (2002) Comprehensive gene expression analysis of prostate cancer reveals distinct transcriptional programs associated with metastatic disease. Cancer Res., 62, 4499-4506.
-
(2002)
Cancer Res
, vol.62
, pp. 4499-4506
-
-
LaTulippe, E.1
Satagopan, J.2
Smith, A.3
Scher, H.4
Scardino, P.5
Reuter, V.6
Gerald, W.L.7
-
58
-
-
18644382388
-
The polycomb group protein EZH2 is involved in progression of prostate cancer
-
Varambally,S., Dhanasekaran,S.M., Zhou,M., Barrette,T.R., Kumar-Sinha,C., Sanda,M.G., Ghosh,D., Pienta,K.J., Sewalt,R.G.A.B., Otte,A.P. et al. (2002) The polycomb group protein EZH2 is involved in progression of prostate cancer. Nature, 419, 624-629.
-
(2002)
Nature
, vol.419
, pp. 624-629
-
-
Varambally, S.1
Dhanasekaran, S.M.2
Zhou, M.3
Barrette, T.R.4
Kumar-Sinha, C.5
Sanda, M.G.6
Ghosh, D.7
Pienta, K.J.8
Sewalt, R.G.A.B.9
Otte, A.P.10
-
59
-
-
0037846472
-
Multiplex biomarker approach for determining risk of prostate-specific antigen-defined recurrence of prostate cancer
-
Rhodes,D.R., Sanda,M.G., Otte,A.P., Chinnaiyan,A.M. and Rubin,M.A. (2003) Multiplex biomarker approach for determining risk of prostate-specific antigen-defined recurrence of prostate cancer. J. Natl Cancer Inst., 95, 661-668.
-
(2003)
J. Natl Cancer Inst
, vol.95
, pp. 661-668
-
-
Rhodes, D.R.1
Sanda, M.G.2
Otte, A.P.3
Chinnaiyan, A.M.4
Rubin, M.A.5
-
60
-
-
27344451557
-
Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer
-
Tomlins,S.A., Rhodes,D.R., Perner,S., Dhanasekaran,S.M., Mehra,R., Sun,X.W., Varambally,S., Cao,X.H., Tchinda,J., Kuefer,R. et al. (2005) Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer. Science, 310, 644-648.
-
(2005)
Science
, vol.310
, pp. 644-648
-
-
Tomlins, S.A.1
Rhodes, D.R.2
Perner, S.3
Dhanasekaran, S.M.4
Mehra, R.5
Sun, X.W.6
Varambally, S.7
Cao, X.H.8
Tchinda, J.9
Kuefer, R.10
-
61
-
-
20144387232
-
Large-scale transcriptome analyses reveal new genetic marker candidates of head, neck, and thyroid cancer
-
Reis,E.M., Ojopi,E.P.B., Alberto,F.L., Rahal,P., Tsukumo,F., Mancini,U.M., Guimaraes,G.S., Thompson,G.M.A., Camacho,C., Miracca,E. et al. (2005) Large-scale transcriptome analyses reveal new genetic marker candidates of head, neck, and thyroid cancer. Cancer Res., 65, 1693-1699.
-
(2005)
Cancer Res
, vol.65
, pp. 1693-1699
-
-
Reis, E.M.1
Ojopi, E.P.B.2
Alberto, F.L.3
Rahal, P.4
Tsukumo, F.5
Mancini, U.M.6
Guimaraes, G.S.7
Thompson, G.M.A.8
Camacho, C.9
Miracca, E.10
-
62
-
-
33846223294
-
Characterization of HULC, a novel gene with striking up-regulation in hepatocellular carcinoma, as noncoding RNA
-
Panzitt,K., Tschernatsch,M.M.O., Guelly,C., Moustafa,T., Stradner,M., Strohmaier,H.M., Buck,C.R., Denk,H., Schroeder,R., Trauner,M. et al. (2007) Characterization of HULC, a novel gene with striking up-regulation in hepatocellular carcinoma, as noncoding RNA. Gastroenterology, 132, 330-342.
-
(2007)
Gastroenterology
, vol.132
, pp. 330-342
-
-
Panzitt, K.1
Tschernatsch, M.M.O.2
Guelly, C.3
Moustafa, T.4
Stradner, M.5
Strohmaier, H.M.6
Buck, C.R.7
Denk, H.8
Schroeder, R.9
Trauner, M.10
-
63
-
-
52649102560
-
Identification of protein-coding and intronic noncoding RNAs down-regulated in clear cell renal carcinoma
-
Brito,G.C., Fachel,A.A., Vettore,A.L., Vignal,G.M., Gimba,E.R., Campos,F.S., Barcinski,M.A., Verjovski-Almeida,S. and Reis,E.M. (2008) Identification of protein-coding and intronic noncoding RNAs down-regulated in clear cell renal carcinoma. Mol. Carcinog., 47, 757-767.
-
(2008)
Mol. Carcinog
, vol.47
, pp. 757-767
-
-
Brito, G.C.1
Fachel, A.A.2
Vettore, A.L.3
Vignal, G.M.4
Gimba, E.R.5
Campos, F.S.6
Barcinski, M.A.7
Verjovski-Almeida, S.8
Reis, E.M.9
-
64
-
-
1842364970
-
Expression of neural BC200 RNA in human tumours
-
Chen,W., Bocker,W., Brosius,J. and Tiedge,H. (1997) Expression of neural BC200 RNA in human tumours. J. Pathol., 183, 345-351.
-
(1997)
J. Pathol
, vol.183
, pp. 345-351
-
-
Chen, W.1
Bocker, W.2
Brosius, J.3
Tiedge, H.4
-
65
-
-
8844260368
-
BC200 RNA in invasive and preinvasive breast cancer
-
Iacoangeli,A., Lin,Y., Morley,E.J., Muslimov,I.A., Bianchi,R., Reilly,J., Weedon,J., Diallo,R., Bocker,W. and Tiedge,H. (2004) BC200 RNA in invasive and preinvasive breast cancer. Carcinogenesis, 25, 2125-2133.
-
(2004)
Carcinogenesis
, vol.25
, pp. 2125-2133
-
-
Iacoangeli, A.1
Lin, Y.2
Morley, E.J.3
Muslimov, I.A.4
Bianchi, R.5
Reilly, J.6
Weedon, J.7
Diallo, R.8
Bocker, W.9
Tiedge, H.10
-
66
-
-
0344429906
-
MALAT-1, a novel noncoding RNA, and thymosin beta 4 predict metastasis and survival in early-stage non-small cell lung cancer
-
Ji,P., Diederichs,S., Wang,W.B., Boing,S., Metzger,R., Schneider,P.M., Tidow,N., Brandt,B., Buerger,H., Bulk,E. et al. (2003) MALAT-1, a novel noncoding RNA, and thymosin beta 4 predict metastasis and survival in early-stage non-small cell lung cancer. Oncogene, 22, 8031-8041.
-
(2003)
Oncogene
, vol.22
, pp. 8031-8041
-
-
Ji, P.1
Diederichs, S.2
Wang, W.B.3
Boing, S.4
Metzger, R.5
Schneider, P.M.6
Tidow, N.7
Brandt, B.8
Buerger, H.9
Bulk, E.10
-
67
-
-
12944252955
-
PCGEM1, a prostate-specific gene, is overexpressed in prostate cancer
-
Srikantan,V., Zou,Z.Q., Petrovics,G., Xu,L., Augustus,M., Davis,L., Livezey,J.K., Connell,T., Sesterhenn,I.A., Yoshino,K. et al. (2000) PCGEM1, a prostate-specific gene, is overexpressed in prostate cancer. Proc. Natl Acad. Sci. USA, 97, 12216-12221.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 12216-12221
-
-
Srikantan, V.1
Zou, Z.Q.2
Petrovics, G.3
Xu, L.4
Augustus, M.5
Davis, L.6
Livezey, J.K.7
Connell, T.8
Sesterhenn, I.A.9
Yoshino, K.10
-
68
-
-
10744225687
-
Elevated expression of PCGEM1, a prostate-specific gene with cell growth-promoting function, is associated with high-risk prostate cancer patients
-
Petrovics,G., Zhang,W., Makarem,M., Street,J.P., Connelly,R., Sun,L., Sesterhenn,I.A., Srikantan,V., Moul,J.W. and Srivastava,S. (2004) Elevated expression of PCGEM1, a prostate-specific gene with cell growth-promoting function, is associated with high-risk prostate cancer patients. Oncogene, 23, 605-611.
-
(2004)
Oncogene
, vol.23
, pp. 605-611
-
-
Petrovics, G.1
Zhang, W.2
Makarem, M.3
Street, J.P.4
Connelly, R.5
Sun, L.6
Sesterhenn, I.A.7
Srikantan, V.8
Moul, J.W.9
Srivastava, S.10
-
69
-
-
0242691892
-
New targets for therapy in prostate cancer: Differential display code 3 (DD3(PCA3)) a highly prostate cancer-specific gene
-
Schalken,J.A., Hessels,D. and Verhaegh,G. (2003) New targets for therapy in prostate cancer: Differential display code 3 (DD3(PCA3)) a highly prostate cancer-specific gene. Urology, 62, 34-43.
-
(2003)
Urology
, vol.62
, pp. 34-43
-
-
Schalken, J.A.1
Hessels, D.2
Verhaegh, G.3
-
70
-
-
0037974513
-
DD3(PCA3)-based molecular urine analysis for the diagnosis of prostate cancer
-
Hessels,D., Gunnewiek,J.M.T.K., van Oort,I., Karthaus,H.F.M., van Leenders,G.J.L., van Balken,B., Kiemeney,L.A., Witjes,J.A. and Schalken,J.A. (2003) DD3(PCA3)-based molecular urine analysis for the diagnosis of prostate cancer. Eur. Urol., 44, 8-15.
-
(2003)
Eur. Urol
, vol.44
, pp. 8-15
-
-
Hessels, D.1
Gunnewiek, J.M.T.K.2
van Oort, I.3
Karthaus, H.F.M.4
van Leenders, G.J.L.5
van Balken, B.6
Kiemeney, L.A.7
Witjes, J.A.8
Schalken, J.A.9
-
71
-
-
3142540904
-
DD3(PCA3) RNA analysis in urine - a new perspective for detecting prostate cancer
-
Tinzl,M., Marberger,M., Horvath,S. and Chypre,C. (2004) DD3(PCA3) RNA analysis in urine - a new perspective for detecting prostate cancer. Eur. Urol., 46, 182-187.
-
(2004)
Eur. Urol
, vol.46
, pp. 182-187
-
-
Tinzl, M.1
Marberger, M.2
Horvath, S.3
Chypre, C.4
-
72
-
-
9144251970
-
Gene expression profiling identifies clinically relevant subtypes of prostate cancer
-
Lapointe,J., Li,C., Higgins,J.P., van de Rijn,M., Bair,E., Montgomery,K., Ferrari,M., Egevad,L., Rayford,W., Bergerheim,U. et al. (2004) Gene expression profiling identifies clinically relevant subtypes of prostate cancer. Proc. Natl Acad. Sci. USA, 101, 811-816.
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 811-816
-
-
Lapointe, J.1
Li, C.2
Higgins, J.P.3
van de Rijn, M.4
Bair, E.5
Montgomery, K.6
Ferrari, M.7
Egevad, L.8
Rayford, W.9
Bergerheim, U.10
-
73
-
-
0035939903
-
Delineation of prognostic biomarkers in prostate cancer
-
Dhanasekaran,S.M., Barrette,T.R., Ghosh,D., Shah,R., Varambally,S., Kurachi,K., Pienta,K.J., Rubin,M.A. and Chinnaiyan,A.M. (2001) Delineation of prognostic biomarkers in prostate cancer. Nature, 412, 822-826.
-
(2001)
Nature
, vol.412
, pp. 822-826
-
-
Dhanasekaran, S.M.1
Barrette, T.R.2
Ghosh, D.3
Shah, R.4
Varambally, S.5
Kurachi, K.6
Pienta, K.J.7
Rubin, M.A.8
Chinnaiyan, A.M.9
-
74
-
-
0033560707
-
Activation of serum- and glucocorticoid-regulated protein kinase by agonists that activate phosphatidylinositide 3-kinase is mediated by 3-phosphoinositide-dependent protein kinase-1 (PDK1) and PDK2
-
Kobayashi,T. and Cohen,P. (1999) Activation of serum- and glucocorticoid-regulated protein kinase by agonists that activate phosphatidylinositide 3-kinase is mediated by 3-phosphoinositide-dependent protein kinase-1 (PDK1) and PDK2. Biochem. J., 339 (Pt 2), 319-328.
-
(1999)
Biochem. J
, vol.339
, Issue.PART 2
, pp. 319-328
-
-
Kobayashi, T.1
Cohen, P.2
-
75
-
-
0033151832
-
Serum and glucocorticoid-inducible kinase (SGK) is a target of the PI 3-kinase-stimulated signaling pathway
-
Park,J., Leong,M., Buse,P., Maiyar,A., Firestone,G. and Hemmings,B. (1999) Serum and glucocorticoid-inducible kinase (SGK) is a target of the PI 3-kinase-stimulated signaling pathway. EMBO J., 18, 3024-3033.
-
(1999)
EMBO J
, vol.18
, pp. 3024-3033
-
-
Park, J.1
Leong, M.2
Buse, P.3
Maiyar, A.4
Firestone, G.5
Hemmings, B.6
-
76
-
-
36248929974
-
Serum/glucocorticoid-induced protein kinase-1 facilitates androgen receptor-dependent cell survival
-
Shanmugam,I., Cheng,G., Terranova,P., Thrasher,J., Thomas,C. and Li,B. (2007) Serum/glucocorticoid-induced protein kinase-1 facilitates androgen receptor-dependent cell survival. Cell Death Differ., 14, 2085-2094.
-
(2007)
Cell Death Differ
, vol.14
, pp. 2085-2094
-
-
Shanmugam, I.1
Cheng, G.2
Terranova, P.3
Thrasher, J.4
Thomas, C.5
Li, B.6
|