-
1
-
-
56549101959
-
Alternative isoform regulation in human tissue transcriptomes
-
DOI 10.1038/nature07509, PII NATURE07509
-
Wang, E. T., Sandberg, R., Luo, S., Khrebtukova, I., Zhang, L., Mayr, C., Kingsmore, S. F., Schroth, G. P., and Burge, C. B. (2008) Alternative isoform regulation in human tissue transcriptomes. Nature 456, 470-476 (Pubitemid 352759009)
-
(2008)
Nature
, vol.456
, Issue.7221
, pp. 470-476
-
-
Wang, E.T.1
Sandberg, R.2
Luo, S.3
Khrebtukova, I.4
Zhang, L.5
Mayr, C.6
Kingsmore, S.F.7
Schroth, G.P.8
Burge, C.B.9
-
2
-
-
56749098074
-
Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing
-
Pan, Q., Shai, O., Lee, L. J., Frey, B. J., and Blencowe, B. J. (2008) Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat. Genet. 40, 1413-1415
-
(2008)
Nat. Genet.
, vol.40
, pp. 1413-1415
-
-
Pan, Q.1
Shai, O.2
Lee, L.J.3
Frey, B.J.4
Blencowe, B.J.5
-
3
-
-
18344364099
-
Understanding alternative splicing: Towards a cellular code
-
DOI 10.1038/nrm1645
-
Matlin, A. J., Clark, F., and Smith, C. W. (2005) Understanding alternative splicing: towards a cellular code. Nat. Rev. Mol. Cell Biol. 6, 386-398 (Pubitemid 40637856)
-
(2005)
Nature Reviews Molecular Cell Biology
, vol.6
, Issue.5
, pp. 386-398
-
-
Matlin, A.J.1
Clark, F.2
Smith, C.W.J.3
-
4
-
-
33745899048
-
Alternative splicing: New insights from global analyses
-
Blencowe, B. J. (2006) Alternative splicing: new insights from global analyses. Cell 126, 37-47
-
(2006)
Cell
, vol.126
, pp. 37-47
-
-
Blencowe, B.J.1
-
5
-
-
7444220147
-
Aberrant and alternative splicing in cancer
-
Venables, J. P. (2004) Aberrant and alternative splicing in cancer. Cancer Res. 64, 7647-7654
-
(2004)
Cancer Res
, vol.64
, pp. 7647-7654
-
-
Venables, J.P.1
-
6
-
-
2342450548
-
Alternative splicing in disease and therapy
-
DOI 10.1038/nbt964
-
Garcia-Blanco, M. A., Baraniak, A. P., and Lasda, E. L. (2004) Alternative splicing in disease and therapy. Nat. Biotechnol. 22, 535-546 (Pubitemid 38585905)
-
(2004)
Nature Biotechnology
, vol.22
, Issue.5
, pp. 535-546
-
-
Garcia-Blanco, M.A.1
Baraniak, A.P.2
Lasda, E.L.3
-
7
-
-
0013394889
-
Mechanisms of alternative pre-messenger RNA splicing
-
Black, D. L. (2003) Mechanisms of alternative pre-messenger RNA splicing. Annu. Rev. Biochem. 72, 291-336
-
(2003)
Annu. Rev. Biochem.
, vol.72
, pp. 291-336
-
-
Black, D.L.1
-
8
-
-
2442700175
-
ESTGenes: Alternative splicing from ESTs in Ensembl
-
DOI 10.1101/gr.1862204
-
Eyras, E., Caccamo, M., Curwen, V., and Clamp, M. (2004) ESTGenes: alternative splicing from ESTs in Ensembl. Genome Res. 14, 976-987 (Pubitemid 38660519)
-
(2004)
Genome Research
, vol.14
, Issue.5
, pp. 976-987
-
-
Eyras, E.1
Caccamo, M.2
Curwen, V.3
Clamp, M.4
-
9
-
-
0035036534
-
Gene structure prediction and alternative splicing analysis using genomically aligned ESTs
-
DOI 10.1101/gr.155001
-
Kan, Z., Rouchka, E. C., Gish, W. R., and States, D. J. (2001) Gene structure prediction and alternative splicing analysis using genomically aligned ESTs. Genome Res. 11, 889-900 (Pubitemid 32447871)
-
(2001)
Genome Research
, vol.11
, Issue.5
, pp. 889-900
-
-
Kan, Z.1
Rouchka, E.C.2
Gish, W.R.3
States, D.J.4
-
10
-
-
79551610956
-
Genome-wide analysis of alternative splicing in Caenorhabditis elegans
-
Ramani, A. K., Calarco, J. A., Pan, Q., Mavandadi, S., Wang, Y., Nelson, A. C., Lee, L. J., Morris, Q., Blencowe, B. J., Zhen, M., and Fraser, A. G. (2011) Genome-wide analysis of alternative splicing in Caenorhabditis elegans. Genome Res. 21, 342-348
-
(2011)
Genome Res
, vol.21
, pp. 342-348
-
-
Ramani, A.K.1
Calarco, J.A.2
Pan, Q.3
Mavandadi, S.4
Wang, Y.5
Nelson, A.C.6
Lee, L.J.7
Morris, Q.8
Blencowe, B.J.9
Zhen, M.10
Fraser, A.G.11
-
11
-
-
65449136284
-
TopHat: Discovering splice junctions with RNA-Seq
-
Trapnell, C., Pachter, L., and Salzberg, S. L. (2009) TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25, 1105-1111
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
12
-
-
34047187150
-
SpliceMiner: A high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis
-
Kahn, A. B., Ryan, M. C., Liu, H., Zeeberg, B. R., Jamison, D. C., and Weinstein, J. N. (2007) SpliceMiner: a high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis. BMC Bioinformatics 8, 75
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 75
-
-
Kahn, A.B.1
Ryan, M.C.2
Liu, H.3
Zeeberg, B.R.4
Jamison, D.C.5
Weinstein, J.N.6
-
13
-
-
13444267842
-
ECgene: Genome annotation for alternative splicing
-
DOI 10.1093/nar/gki118
-
Kim, P., Kim, N., Lee, Y., Kim, B., Shin, Y., and Lee, S. (2005) ECgene: genome annotation for alternative splicing. Nucleic Acids Res. 33, D75-D79 (Pubitemid 40207834)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.DATABASE ISS.
-
-
Kim, P.1
Kim, N.2
Lee, Y.3
Kim, B.4
Shin, Y.5
Lee, S.6
-
14
-
-
27644555055
-
Interpretation of shotgun proteomic data: The protein inference problem
-
DOI 10.1074/mcp.R500012-MCP200
-
Nesvizhskii, A. I., and Aebersold, R. (2005) Interpretation of shotgun proteomic data: the protein inference problem. Mol. Cell. Proteomics 4, 1419-1440 (Pubitemid 41555469)
-
(2005)
Molecular and Cellular Proteomics
, vol.4
, Issue.10
, pp. 1419-1440
-
-
Nesvizhskii, A.I.1
Aebersold, R.2
-
15
-
-
63449133670
-
High-throughput proteomics detection of novel splice isoforms in human platelets
-
Power, K. A., McRedmond, J. P., de Stefani, A., Gallagher, W. M., and Gaora, P. O. (2009) High-throughput proteomics detection of novel splice isoforms in human platelets. PLoS One 4, e5001
-
(2009)
PLoS One
, vol.4
-
-
Power, K.A.1
McRedmond, J.P.2
De Stefani, A.3
Gallagher, W.M.4
Gaora, P.O.5
-
16
-
-
79956275842
-
Identification of a novel protein isoform derived from cancer-related splicing variants using combined analysis of transcriptome and proteome
-
Hatakeyama, K., Ohshima, K., Fukuda, Y., Ogura, S., Terashima, M., Yamaguchi, K., and Mochizuki, T. (2011) Identification of a novel protein isoform derived from cancer-related splicing variants using combined analysis of transcriptome and proteome. Proteomics 11, 2275-2282
-
(2011)
Proteomics
, vol.11
, pp. 2275-2282
-
-
Hatakeyama, K.1
Ohshima, K.2
Fukuda, Y.3
Ogura, S.4
Terashima, M.5
Yamaguchi, K.6
Mochizuki, T.7
-
17
-
-
77951718967
-
Proteomic characterization of novel alternative splice variant proteins in human epidermal growth factor receptor 2/neu-induced breast cancers
-
Menon, R., and Omenn, G. S. (2010) Proteomic characterization of novel alternative splice variant proteins in human epidermal growth factor receptor 2/neu-induced breast cancers. Cancer Res. 70, 3440-3449
-
(2010)
Cancer Res
, vol.70
, pp. 3440-3449
-
-
Menon, R.1
Omenn, G.S.2
-
18
-
-
80054013297
-
Enhanced information output from shotgun proteomics data by protein quantification and peptide quality control (PQPQ)
-
Forshed, J., Johansson, H. J., Pernemalm, M., Branca, R. M., Sandberg, A., and Lehtio, J. (2011) Enhanced information output from shotgun proteomics data by protein quantification and peptide quality control (PQPQ). Mol. Cell. Proteomics 10, M111.010264
-
(2011)
Mol. Cell. Proteomics
, vol.10
-
-
Forshed, J.1
Johansson, H.J.2
Pernemalm, M.3
Branca, R.M.4
Sandberg, A.5
Lehtio, J.6
-
19
-
-
84894619287
-
HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics
-
Branca, R. M., Orre, L. M., Johansson, H. J., Granholm, V., Huss, M., Perez-Bercoff, A., Forshed, J., Kall, L., and Lehtio, J. (2014) HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics. Nat. Methods 11, 59-62
-
(2014)
Nat. Methods
, vol.11
, pp. 59-62
-
-
Branca, R.M.1
Orre, L.M.2
Johansson, H.J.3
Granholm, V.4
Huss, M.5
Perez-Bercoff, A.6
Forshed, J.7
Kall, L.8
Lehtio, J.9
-
20
-
-
49749131566
-
Quantitative membrane proteomics applying narrow range peptide isoelectric focusing for studies of small cell lung cancer resistance mechanisms
-
Eriksson, H., Lengqvist, J., Hedlund, J., Uhlen, K., Orre, L. M., Bjellqvist, B., Persson, B., Lehtio, J., and Jakobsson, P. J. (2008) Quantitative membrane proteomics applying narrow range peptide isoelectric focusing for studies of small cell lung cancer resistance mechanisms. Proteomics 8, 3008-3018
-
(2008)
Proteomics
, vol.8
, pp. 3008-3018
-
-
Eriksson, H.1
Lengqvist, J.2
Hedlund, J.3
Uhlen, K.4
Orre, L.M.5
Bjellqvist, B.6
Persson, B.7
Lehtio, J.8
Jakobsson, P.J.9
-
21
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
DOI 10.1093/nar/25.17.3389
-
Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402 (Pubitemid 27359211)
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
22
-
-
82155179339
-
The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells
-
Munoz, J., Low, T. Y., Kok, Y. J., Chin, A., Frese, C. K., Ding, V., Choo, A., and Heck, A. J. (2011) The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells. Mol. Syst. Biol. 7, 550
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 550
-
-
Munoz, J.1
Low, T.Y.2
Kok, Y.J.3
Chin, A.4
Frese, C.K.5
Ding, V.6
Choo, A.7
Heck, A.J.8
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