-
1
-
-
82155186923
-
The Emergence of lncRNAs in Cancer Biology
-
Prensner, J. R. & Chinnaiyan, A. M. The Emergence of lncRNAs in Cancer Biology. Cancer Discov. 1, 391-407 (2011).
-
(2011)
Cancer Discov.
, vol.1
, pp. 391-407
-
-
Prensner, J.R.1
Chinnaiyan, A.M.2
-
2
-
-
84879987789
-
LincRNAs: Genomics, evolution, and mechanisms
-
Ulitsky, I. & Bartel, D. P. LincRNAs: Genomics, evolution, and mechanisms. Cell 154, 26-46 (2013).
-
(2013)
Cell
, vol.154
, pp. 26-46
-
-
Ulitsky, I.1
Bartel, D.P.2
-
3
-
-
79961202865
-
Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression
-
Prensner, J. R. et al. Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression. Nat. Biotechnol. 29, 742-749 (2011).
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 742-749
-
-
Prensner, J.R.1
-
4
-
-
84887122461
-
The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex
-
Prensner, J. R. et al. The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex. Nat. Genet. 45, 1392-1398 (2013).
-
(2013)
Nat. Genet.
, vol.45
, pp. 1392-1398
-
-
Prensner, J.R.1
-
5
-
-
77955323879
-
A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response
-
Huarte, M. et al. A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response. Cell 142, 409-419 (2010).
-
(2010)
Cell
, vol.142
, pp. 409-419
-
-
Huarte, M.1
-
6
-
-
77951118936
-
Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis
-
Gupta, R. A. et al. Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis. Nature 464, 1071-1076 (2010).
-
(2010)
Nature
, vol.464
, pp. 1071-1076
-
-
Gupta, R.A.1
-
7
-
-
84924063355
-
The landscape of long noncoding RNAs in the human transcriptome
-
Iyer, M. K. et al. The landscape of long noncoding RNAs in the human transcriptome. Nat. Genet. 47, 199-208 (2015).
-
(2015)
Nat. Genet.
, vol.47
, pp. 199-208
-
-
Iyer, M.K.1
-
8
-
-
84877028141
-
Comprehensive molecular portraits of human breast tumours
-
Cancer Genome Atlas Research, N. et al.
-
Cancer Genome Atlas Research, N. et al. Comprehensive molecular portraits of human breast tumours. Nature 490, 61-70 (2015).
-
(2015)
Nature
, vol.490
, pp. 61-70
-
-
-
9
-
-
84939570237
-
Annotation, and functional analysis of long noncoding RNAs controlling cell-cycle gene expression and proliferation in breast cancer cells
-
Sun, M., Gadad, S. S., Kim, D. S. & Kraus, W. L. Discovery, annotation, and functional analysis of long noncoding RNAs controlling cell-cycle gene expression and proliferation in breast cancer cells. Mol. Cell 59, 698-711 (2015).
-
(2015)
Mol. Cell
, vol.59
, pp. 698-711
-
-
Sun, M.1
Gadad, S.S.2
Kim, D.S.3
Discovery, L.K.W.4
-
10
-
-
0042838307
-
Breast cancer classification and prognosis based on gene expression profiles from a population-based study
-
Sotiriou, C. et al. Breast cancer classification and prognosis based on gene expression profiles from a population-based study. Proc. Natl Acad. Sci. USA 100, 10393-10398 (2003).
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 10393-10398
-
-
Sotiriou, C.1
-
11
-
-
84867322865
-
Impact of breast cancer subtypes and treatment on survival: An analysis spanning two decades
-
Haque, R. et al. Impact of breast cancer subtypes and treatment on survival: an analysis spanning two decades. Cancer Epidemiol. Biomarkers Prev. 21, 1848-1855 (2012).
-
(2012)
Cancer Epidemiol. Biomarkers Prev.
, vol.21
, pp. 1848-1855
-
-
Haque, R.1
-
12
-
-
33750442923
-
Genome-wide analysis of estrogen receptor binding sites
-
Carroll, J. S. et al. Genome-wide analysis of estrogen receptor binding sites. Nat. Genet. 38, 1289-1297 (2006).
-
(2006)
Nat. Genet.
, vol.38
, pp. 1289-1297
-
-
Carroll, J.S.1
-
13
-
-
84856008906
-
Differential oestrogen receptor binding is associated with clinical outcome in breast cancer
-
Ross-Innes, C. S. et al. Differential oestrogen receptor binding is associated with clinical outcome in breast cancer. Nature 481, 389-393 (2012).
-
(2012)
Nature
, vol.481
, pp. 389-393
-
-
Ross-Innes, C.S.1
-
14
-
-
84888381937
-
Activating ESR1 mutations in hormone-resistant metastatic breast cancer
-
Robinson, D. R. et al. Activating ESR1 mutations in hormone-resistant metastatic breast cancer. Nat. Genet. 45, 1446-1451 (2013).
-
(2013)
Nat. Genet.
, vol.45
, pp. 1446-1451
-
-
Robinson, D.R.1
-
15
-
-
84888391516
-
ESR1 ligand-binding domain mutations in hormone-resistant breast cancer
-
Toy, W. et al. ESR1 ligand-binding domain mutations in hormone-resistant breast cancer. Nat. Genet. 45, 1439-1445 (2013).
-
(2013)
Nat. Genet.
, vol.45
, pp. 1439-1445
-
-
Toy, W.1
-
16
-
-
79551576468
-
Mechanisms of endocrine resistance in breast cancer
-
Osborne, C. K. & Schiff, R. Mechanisms of endocrine resistance in breast cancer. Annu. Rev. Med. 62, 233-247 (2011).
-
(2011)
Annu. Rev. Med.
, vol.62
, pp. 233-247
-
-
Osborne, C.K.1
Schiff, R.2
-
17
-
-
84908120731
-
Expression and clinical significance of estrogen-regulated long non-coding RNAs in estrogen receptor a-positive ovarian cancer progression
-
Qiu, J.-J. et al. Expression and clinical significance of estrogen-regulated long non-coding RNAs in estrogen receptor a-positive ovarian cancer progression. Oncol. Rep. 31, 1613-1622 (2014).
-
(2014)
Oncol. Rep.
, vol.31
, pp. 1613-1622
-
-
Qiu, J.-J.1
-
18
-
-
84923284989
-
The oestrogen receptor alpha-regulated lncRNA NEAT1 is a critical modulator of prostate cancer
-
Chakravarty, D. et al. The oestrogen receptor alpha-regulated lncRNA NEAT1 is a critical modulator of prostate cancer. Nat. Commun. 5, 5383 (2014).
-
(2014)
Nat. Commun.
, vol.5
, pp. 5383
-
-
Chakravarty, D.1
-
19
-
-
84883762956
-
Antisense transcript long noncoding RNA (lncRNA) HOTAIR is transcriptionally induced by estradiol
-
Bhan, A. et al. Antisense transcript long noncoding RNA (lncRNA) HOTAIR is transcriptionally induced by estradiol. J. Mol. Biol. 425, 3707-3722 (2013).
-
(2013)
J. Mol. Biol.
, vol.425
, pp. 3707-3722
-
-
Bhan, A.1
-
20
-
-
84962278340
-
Luminal long non-coding RNAs regulated by estrogen receptor alpha in a ligand-independent manner show functional roles in breast cancer
-
Miano, V. et al. Luminal long non-coding RNAs regulated by estrogen receptor alpha in a ligand-independent manner show functional roles in breast cancer. Oncotarget 7, 3201-3216 (2016).
-
(2016)
Oncotarget
, vol.7
, pp. 3201-3216
-
-
Miano, V.1
-
21
-
-
79955836460
-
A rapid, extensive, and transient transcriptional response to estrogen signaling in breast cancer cells
-
Hah, N. et al. A rapid, extensive, and transient transcriptional response to estrogen signaling in breast cancer cells. Cell 145, 622-634 (2011).
-
(2011)
Cell
, vol.145
, pp. 622-634
-
-
Hah, N.1
-
22
-
-
0034680102
-
Molecular portraits of human breast tumours
-
Perou, C. M. et al. Molecular portraits of human breast tumours. Nature 406, 747-752 (2000).
-
(2000)
Nature
, vol.406
, pp. 747-752
-
-
Perou, C.M.1
-
23
-
-
0035845511
-
Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications
-
Sorlie, T. et al. Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications. Proc. Natl Acad. Sci. USA 98, 10869-10874 (2001).
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 10869-10874
-
-
Sorlie, T.1
-
24
-
-
84856091317
-
Functionally recurrent rearrangements of the MAST kinase and Notch gene families in breast cancer
-
Robinson, D. R. et al. Functionally recurrent rearrangements of the MAST kinase and Notch gene families in breast cancer. Nat. Med. 17, 1646-1651 (2011).
-
(2011)
Nat. Med.
, vol.17
, pp. 1646-1651
-
-
Robinson, D.R.1
-
25
-
-
84876020023
-
CPAT: Coding-potential assessment tool using an alignment-free logistic regression model
-
Wang, L. et al. CPAT: Coding-potential assessment tool using an alignment-free logistic regression model. Nucleic Acids Res. 41, 1-7 (2013).
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. 1-7
-
-
Wang, L.1
-
26
-
-
84861527388
-
The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups
-
Curtis, C. et al. The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature 486, 346-352 (2012).
-
(2012)
Nature
, vol.486
, pp. 346-352
-
-
Curtis, C.1
-
27
-
-
1642377561
-
ONCOMINE: A cancer microarray database and integrated data-mining platform1
-
Rhodes, D. R. et al. ONCOMINE: a cancer microarray database and integrated data-mining platform1. Neoplasia 6, 1-6 (2004).
-
(2004)
Neoplasia
, vol.6
, pp. 1-6
-
-
Rhodes, D.R.1
-
28
-
-
84877028141
-
Comprehensive molecular portraits of human breast tumours
-
Koboldt, D. C. et al. Comprehensive molecular portraits of human breast tumours. Nature 490, 61-70 (2012).
-
(2012)
Nature
, vol.490
, pp. 61-70
-
-
Koboldt, D.C.1
-
29
-
-
2542454682
-
Different gene expression patterns in invasive lobular and ductal carcinomas of the breast
-
Zhao, H. et al. Different gene expression patterns in invasive lobular and ductal carcinomas of the breast. Mol. Biol. Cell 15, 2523-2536 (2004).
-
(2004)
Mol. Biol. Cell
, vol.15
, pp. 2523-2536
-
-
Zhao, H.1
-
30
-
-
51349088017
-
Biological processes associated with breast cancer clinical outcome depend on the molecular subtypes
-
Desmedt, C. et al. Biological processes associated with breast cancer clinical outcome depend on the molecular subtypes. Clin. Cancer Res. 14, 5158-5165 (2008).
-
(2008)
Clin. Cancer Res.
, vol.14
, pp. 5158-5165
-
-
Desmedt, C.1
-
31
-
-
33751261643
-
Genetic reclassification of histologic grade delineates new clinical subtypes of breast cancer
-
Ivshina, A. V. et al. Genetic reclassification of histologic grade delineates new clinical subtypes of breast cancer. Cancer Res. 66, 10292-10301 (2006).
-
(2006)
Cancer Res.
, vol.66
, pp. 10292-10301
-
-
Ivshina, A.V.1
-
32
-
-
34247145491
-
Definition of clinically distinct molecular subtypes in estrogen receptor-positive breast carcinomas through genomic grade
-
Loi, S. et al. Definition of clinically distinct molecular subtypes in estrogen receptor-positive breast carcinomas through genomic grade. J. Clin. Oncol. 25, 1239-1246 (2007).
-
(2007)
J. Clin. Oncol.
, vol.25
, pp. 1239-1246
-
-
Loi, S.1
-
33
-
-
39749176127
-
Predicting features of breast cancer with gene expression patterns
-
Lu, X. et al. Predicting features of breast cancer with gene expression patterns. Breast Cancer Res. Treat. 108, 191-201 (2008).
-
(2008)
Breast Cancer Res. Treat.
, vol.108
, pp. 191-201
-
-
Lu, X.1
-
34
-
-
44849101184
-
The humoral immune system has a key prognostic impact in node-negative breast cancer
-
Schmidt, M. et al. The humoral immune system has a key prognostic impact in node-negative breast cancer. Cancer Res. 68, 5405-5413 (2008).
-
(2008)
Cancer Res.
, vol.68
, pp. 5405-5413
-
-
Schmidt, M.1
-
35
-
-
18244409687
-
Gene expression profiling predicts clinical outcome of breast cancer
-
van t Veer L. J. et al. Gene expression profiling predicts clinical outcome of breast cancer. Nature, 415, 530-536 (2002).
-
(2002)
Nature
, vol.415
, pp. 530-536
-
-
Van T Veer, L.J.1
-
36
-
-
13844310310
-
Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer
-
Wang, Y. et al. Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer. Lancet 365, 671-679 (2005).
-
(2005)
Lancet
, vol.365
, pp. 671-679
-
-
Wang, Y.1
-
37
-
-
39649088238
-
A stromal gene signature associated with inflammatory breast cancer
-
Boersma, B. J. et al. A stromal gene signature associated with inflammatory breast cancer. Int. J. Cancer 122, 1324-1332 (2008).
-
(2008)
Int. J. Cancer
, vol.122
, pp. 1324-1332
-
-
Boersma, B.J.1
-
38
-
-
79955121426
-
Correlation of microarraybased breast cancer molecular subtypes and clinical outcomes: Implications for treatment optimization
-
Kao, K.-J., Chang, K.-M., Hsu, H.-C. & Huang, A. T. Correlation of microarraybased breast cancer molecular subtypes and clinical outcomes: implications for treatment optimization. BMC Cancer 11, 143 (2011).
-
(2011)
BMC Cancer
, vol.11
, pp. 143
-
-
Kao, K.-J.1
Chang, K.-M.2
Hsu, H.-C.3
Huang, A.T.4
-
39
-
-
77957935139
-
Genomic index of sensitivity to endocrine therapy for breast cancer
-
Symmans, W. F. et al. Genomic index of sensitivity to endocrine therapy for breast cancer. J. Clin. Oncol. 28, 4111-4119 (2010).
-
(2010)
J. Clin. Oncol.
, vol.28
, pp. 4111-4119
-
-
Symmans, W.F.1
-
40
-
-
0037137519
-
A gene-expression signature as a predictor of survival in breast cancer
-
van de Vijver, M. J. et al. A gene-expression signature as a predictor of survival in breast cancer. N. Engl. J. Med. 347, 1999-2009 (2002).
-
(2002)
N. Engl. J. Med.
, vol.347
, pp. 1999-2009
-
-
Van De Vijver, M.J.1
-
41
-
-
0141816752
-
EZH2 is a marker of aggressive breast cancer and promotes neoplastic transformation of breast epithelial cells
-
Kleer, C. G. et al. EZH2 is a marker of aggressive breast cancer and promotes neoplastic transformation of breast epithelial cells. Proc. Natl Acad. Sci. USA 100, 11606-11611 (2003).
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 11606-11611
-
-
Kleer, C.G.1
-
42
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian, A. et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl Acad. Sci. USA 102, 15545-15550 (2005).
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 15545-15550
-
-
Subramanian, A.1
-
43
-
-
0034607554
-
Protein-protein interaction among hnRNPs shuttling between nucleus and cytoplasm
-
Kim, J. H., Hahm, B., Kim, Y. K., Choi, M. & Jang, S. K. Protein-protein interaction among hnRNPs shuttling between nucleus and cytoplasm. J. Mol. Biol. 298, 395-405 (2000).
-
(2000)
J. Mol. Biol.
, vol.298
, pp. 395-405
-
-
Kim, J.H.1
Hahm, B.2
Kim, Y.K.3
Choi, M.4
Jang, S.K.5
-
44
-
-
0029142841
-
HnRNP L binds a cis-acting RNA sequence element that enables intron- independent gene expression
-
Liu, X. & Mertz, J. E. HnRNP L binds a cis-acting RNA sequence element that enables intron- independent gene expression. Genes Dev. 9, 1766-1780 (1995).
-
(1995)
Genes Dev.
, vol.9
, pp. 1766-1780
-
-
Liu, X.1
Mertz, J.E.2
-
45
-
-
0037217365
-
HnRNP L stimulates splicing of the eNOS gene by binding to variable-length CA repeats
-
Hui, J., Stangl, K., Lane, W. S. & Bindereif, A. HnRNP L stimulates splicing of the eNOS gene by binding to variable-length CA repeats. Nat. Struct. Biol. 10, 33-37 (2003).
-
(2003)
Nat. Struct. Biol.
, vol.10
, pp. 33-37
-
-
Hui, J.1
Stangl, K.2
Lane, W.S.3
Bindereif, A.4
-
46
-
-
23844471326
-
HnRNP L represses exon splicing via a regulated exonic splicing silencer
-
Rothrock, C. R., House, A. E. & Lynch, K. W. HnRNP L represses exon splicing via a regulated exonic splicing silencer. EMBO J. 24, 2792-2802 (2005).
-
(2005)
EMBO J.
, vol.24
, pp. 2792-2802
-
-
Rothrock, C.R.1
House, A.E.2
Lynch, K.W.3
-
47
-
-
38649129366
-
Diverse roles of hnRNP L in mammalian mRNA processing: A combined microarray and RNAi analysis
-
Hung, L.-H. et al. Diverse roles of hnRNP L in mammalian mRNA processing: a combined microarray and RNAi analysis. RNA 14, 284-296 (2008).
-
(2008)
RNA
, vol.14
, pp. 284-296
-
-
Hung, L.-H.1
-
48
-
-
84896885113
-
Crosslinking-immunoprecipitation (iCLIP) analysis reveals global regulatory roles of hnRNP L
-
Rossbach, O. et al. Crosslinking-immunoprecipitation (iCLIP) analysis reveals global regulatory roles of hnRNP L. RNA Biol. 11, 146-155 (2014).
-
(2014)
RNA Biol.
, vol.11
, pp. 146-155
-
-
Rossbach, O.1
-
49
-
-
0043123153
-
Vienna RNA secondary structure server
-
Hofacker, I. L. Vienna RNA secondary structure server. Nucleic Acids Res. 31, 3429-3431 (2003).
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3429-3431
-
-
Hofacker, I.L.1
-
50
-
-
69049113989
-
Letrozole therapy alone or in sequence with tamoxifen in women with breast cancer
-
Mouridsen, H. et al. Letrozole therapy alone or in sequence with tamoxifen in women with breast cancer. N. Engl. J. Med. 361, 766-776 (2009).
-
(2009)
N. Engl. J. Med.
, vol.361
, pp. 766-776
-
-
Mouridsen, H.1
-
51
-
-
20044382779
-
American Society of Clinical Oncology technology assessment on the use of aromatase inhibitors as adjuvant therapy for postmenopausal women with hormone receptor-positive breast cancer: Status report 2004
-
Winer, E. P. et al. American Society of Clinical Oncology technology assessment on the use of aromatase inhibitors as adjuvant therapy for postmenopausal women with hormone receptor-positive breast cancer: status report 2004. J. Clin. Oncol. 23, 619-629 (2005).
-
(2005)
J. Clin. Oncol.
, vol.23
, pp. 619-629
-
-
Winer, E.P.1
-
52
-
-
84941670564
-
LncRNA HOTAIR enhances ER signaling and confers tamoxifen resistance in breast cancer
-
Xue, X. et al. LncRNA HOTAIR enhances ER signaling and confers tamoxifen resistance in breast cancer. Oncogene 35, 2746-2755 (2015).
-
(2015)
Oncogene
, vol.35
, pp. 2746-2755
-
-
Xue, X.1
-
53
-
-
79955044468
-
Characterization of BCAR4, a novel oncogene causing endocrine resistance in human breast cancer cells
-
Godinho, M., Meijer, D., Setyono-Han, B., Dorssers, L. C. J. & Van Agthoven, T. Characterization of BCAR4, a novel oncogene causing endocrine resistance in human breast cancer cells. J. Cell. Physiol. 226, 1741-1749 (2011).
-
(2011)
J. Cell. Physiol.
, vol.226
, pp. 1741-1749
-
-
Godinho, M.1
Meijer, D.2
Setyono-Han, B.3
Dorssers, L.C.J.4
Van Agthoven, T.5
-
54
-
-
79958008118
-
Large-scale label-free quantitative proteomics of the pea aphid-Buchnera symbiosis
-
M110.007039
-
Poliakov, A. et al. Large-scale label-free quantitative proteomics of the pea aphid-Buchnera symbiosis. Mol. Cell. Proteomics 10, M110.007039 (2011).
-
(2011)
Mol. Cell. Proteomics
, vol.10
-
-
Poliakov, A.1
-
55
-
-
84891796097
-
ProteomeXchange provides globally coordinated proteomics data submission and dissemination
-
Vizcaino, J., Deutsch, E. & Wang, R. ProteomeXchange provides globally coordinated proteomics data submission and dissemination. Nat. Biotechnol. 32, 223-226 (2014).
-
(2014)
Nat. Biotechnol.
, vol.32
, pp. 223-226
-
-
Vizcaino, J.1
Deutsch, E.2
Wang, R.3
-
56
-
-
67649884743
-
And accurate short read alignment with Burrows-Wheeler transform
-
Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Fast, D.R.2
-
57
-
-
53849146020
-
Model-based analysis of ChIP-Seq (MACS)
-
Zhang, Y. et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 9, R137 (2008).
-
(2008)
Genome Biol.
, vol.9
, pp. R137
-
-
Zhang, Y.1
-
58
-
-
84891771466
-
The UCSC Genome Browser database: 2014 update
-
Karolchik, D. et al. The UCSC Genome Browser database: 2014 update. Nucleic Acids Res. 42, 764-770 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 764-770
-
-
Karolchik, D.1
-
59
-
-
77954041808
-
HPeak: An HMM-based algorithm for defining read-enriched regions in ChIP-Seq data
-
Qin, Z. S. et al. HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-Seq data. BMC Bioinformatics 11, 369 (2010).
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 369
-
-
Qin, Z.S.1
-
60
-
-
65449136284
-
TopHat: Discovering splice junctions with RNA-Seq
-
Trapnell, C., Pachter, L. & Salzberg, S. L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25, 1105-1111 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
61
-
-
84859885816
-
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
-
Trapnell, C. et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat. Protoc. 7, 562-578 (2012).
-
(2012)
Nat. Protoc.
, vol.7
, pp. 562-578
-
-
Trapnell, C.1
-
62
-
-
0038137601
-
Gene expression profiles of human breast cancer progression
-
Ma, X.-J. et al. Gene expression profiles of human breast cancer progression. Proc. Natl Acad. Sci. USA 100, 5974-5979 (2003).
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 5974-5979
-
-
Ma, X.-J.1
-
63
-
-
54549108740
-
Comprehensive genomic characterization defines human glioblastoma genes and core pathways
-
McLendon, R. et al. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 455, 1061-1068 (2008).
-
(2008)
Nature
, vol.455
, pp. 1061-1068
-
-
McLendon, R.1
-
64
-
-
18244409687
-
Gene expression profiling predicts clinical outcome of breast cancer
-
van t Veer L. J. et al. Gene expression profiling predicts clinical outcome of breast cancer. Nature, 415, 530-536 (2002).
-
(2002)
Nature
, vol.415
, pp. 530-536
-
-
Van T Veer, L.J.1
-
65
-
-
68149176840
-
Chimeric transcript discovery by paired-end transcriptome sequencing
-
Maher, C. A. et al. Chimeric transcript discovery by paired-end transcriptome sequencing. Proc. Natl Acad. Sci. USA 106, 12353-12358 (2009).
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 12353-12358
-
-
Maher, C.A.1
-
66
-
-
77956340995
-
Comprehensive comparative analysis of strand-specific RNA sequencing methods
-
Levin, J. Z. et al. Comprehensive comparative analysis of strand-specific RNA sequencing methods. Nat. Methods 7, 709-715 (2010).
-
(2010)
Nat. Methods
, vol.7
, pp. 709-715
-
-
Levin, J.Z.1
-
67
-
-
79958135926
-
Molecular signatures database (MSigDB) 3.0
-
Liberzon, A. et al. Molecular signatures database (MSigDB) 3.0. Bioinformatics 27, 1739-1740 (2011).
-
(2011)
Bioinformatics
, vol.27
, pp. 1739-1740
-
-
Liberzon, A.1
-
68
-
-
84892636681
-
Modeling binding preferences of RNA-binding proteins
-
Maticzka, D., Lange, S. J., Costa, F. & Backofen, R. GraphProt: modeling binding preferences of RNA-binding proteins. Genome Biol. 15, R17 (2014).
-
(2014)
Genome Biol.
, vol.15
, pp. R17
-
-
Maticzka, D.1
Lange, S.J.2
Costa, F.3
GraphProt, B.R.4
-
69
-
-
53349161901
-
Imaging individual mRNA molecules using multiple singly labeled probes
-
Raj, A., van den Bogaard, P., Rifkin, S. a., van Oudenaarden, A. & Tyagi, S. Imaging individual mRNA molecules using multiple singly labeled probes. Nat. Methods 5, 877-879 (2008).
-
(2008)
Nat. Methods
, vol.5
, pp. 877-879
-
-
Raj, A.1
Van Den Bogaard, P.2
Rifkin, S.A.3
Van Oudenaarden, A.4
Tyagi, S.5
-
70
-
-
84864885322
-
Intracellular single molecule microscopy reveals two kinetically distinct pathways for microRNA assembly
-
Pitchiaya, S., Androsavich, J. R. & Walter, N. G. Intracellular single molecule microscopy reveals two kinetically distinct pathways for microRNA assembly. EMBO Rep. 13, 709-715 (2012).
-
(2012)
EMBO Rep.
, vol.13
, pp. 709-715
-
-
Pitchiaya, S.1
Androsavich, J.R.2
Walter, N.G.3
|