-
1
-
-
80052978224
-
Integrative annotation of human large intergenic noncoding rnas reveals global properties and specific subclasses
-
Cabili, M.N. et al. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev 25, 1915-1927 (2011
-
(2011)
Genes Dev
, vol.25
, pp. 1915-1927
-
-
Cabili, M.N.1
-
2
-
-
84865727393
-
The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression
-
Derrien, T. et al. The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression. Genome Res. 22, 1775-1789 (2012
-
(2012)
Genome Res
, vol.22
, pp. 1775-1789
-
-
Derrien, T.1
-
3
-
-
84861904178
-
Genome regulation by long noncoding RNAs
-
Rinn, J.L., Chang, H.Y. Genome regulation by long noncoding RNAs. Annu. Rev. Biochem. 81, 145-166 (2012
-
(2012)
Annu. Rev. Biochem
, vol.81
, pp. 145-166
-
-
Rinn, J.L.1
Chang, H.Y.2
-
4
-
-
84867900638
-
Long non-coding RNAs and cancer: A new frontier of translational research?
-
Spizzo, R., Almeida, M.I., Colombatti, A Calin, G.A. Long non-coding RNAs and cancer: A new frontier of translational research? Oncogene 31, 4577-4587 (2012
-
(2012)
Oncogene
, vol.31
, pp. 4577-4587
-
-
Spizzo, R.1
Almeida, M.I.2
Colombatti, A.3
Calin, G.A.4
-
5
-
-
58549109636
-
X chromosome dosage compensation: How mammals keep the balance
-
Payer, B. Lee, J.T. X chromosome dosage compensation: How mammals keep the balance. Annu. Rev. Genet. 42, 733-772 (2008
-
(2008)
Annu. Rev. Genet
, vol.42
, pp. 733-772
-
-
Payer, B.1
Lee, J.T.2
-
6
-
-
34250729138
-
Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
-
Rinn, J.L. et al. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129, 1311-1323 (2007
-
(2007)
Cell
, vol.129
, pp. 1311-1323
-
-
Rinn, J.L.1
-
7
-
-
67650921949
-
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
-
Khalil, A.M. et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc. Natl. Acad. Sci. USA 106, 11667-11672 (2009
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 11667-11672
-
-
Khalil, A.M.1
-
8
-
-
78650253763
-
Genome-wide identification of polycomb-Associated RNAs by RIP-seq
-
Zhao, J. et al. Genome-wide identification of polycomb-Associated RNAs by RIP-seq. Mol. Cell 40, 939-953 (2010
-
(2010)
Mol. Cell
, vol.40
, pp. 939-953
-
-
Zhao, J.1
-
9
-
-
77957243921
-
Long noncoding RNAs with enhancer-like function in human cells
-
Orom, U.A. et al. Long noncoding RNAs with enhancer-like function in human cells. Cell 143, 46-58 (2010
-
(2010)
Cell
, vol.143
, pp. 46-58
-
-
Orom, U.A.1
-
10
-
-
80054715378
-
A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA
-
Cesana, M. et al. A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell 147, 358-369 (2011
-
(2011)
Cell
, vol.147
, pp. 358-369
-
-
Cesana, M.1
-
11
-
-
84875372911
-
Natural RNA circles function as efficient microRNA sponges
-
Hansen, T.B. et al. Natural RNA circles function as efficient microRNA sponges. Nature 495, 384-388 (2013
-
(2013)
Nature
, vol.495
, pp. 384-388
-
-
Hansen, T.B.1
-
12
-
-
77952313777
-
Differentiation of effector CD4 T cell populations
-
Zhu, J., Yamane, H. Paul, W.E. Differentiation of effector CD4 T cell populations. Annu. Rev. Immunol. 28, 445-489 (2010
-
(2010)
Annu. Rev. Immunol
, vol.28
, pp. 445-489
-
-
Zhu, J.1
Yamane, H.2
Paul, W.E.3
-
13
-
-
0038371368
-
Tmevpg1 a candidate gene for the control of Theiler's virus persistence, could be implicated in the regulation of γ interferon
-
Vigneau, S., Rohrlich, P.S., Brahic, M. Bureau, J.F. Tmevpg1, a candidate gene for the control of Theiler's virus persistence, could be implicated in the regulation of γ interferon. J. Virol. 77, 5632-5638 (2003
-
(2003)
J. Virol
, vol.77
, pp. 5632-5638
-
-
Vigneau, S.1
Rohrlich, P.S.2
Brahic, M.3
Bureau, J.F.4
-
14
-
-
84865425772
-
Cutting edge: Influence of Tmevpg1, a long intergenic noncoding RNA, on the expression of Ifng by Th1 cells
-
Collier, S.P., Collins, P.L., Williams, C.L., Boothby, M.R., Aune, T.M. Cutting edge: Influence of Tmevpg1, a long intergenic noncoding RNA, on the expression of Ifng by Th1 cells. J. Immunol. 189, 2084-2088 (2012
-
(2012)
J. Immunol
, vol.189
, pp. 2084-2088
-
-
Collier, S.P.1
Collins, P.L.2
Williams, C.L.3
Boothby, M.R.4
Aune, T.M.5
-
15
-
-
84874025014
-
The NeST long ncRNA controls microbial susceptibility and epigenetic activation of the interferon-γ locus
-
Gomez, J.A. et al. The NeST long ncRNA controls microbial susceptibility and epigenetic activation of the interferon-γ locus. Cell 152, 743-754 (2013
-
(2013)
Cell
, vol.152
, pp. 743-754
-
-
Gomez, J.A.1
-
16
-
-
67649160600
-
Genome-wide identification of long noncoding RNAs in CD8+ T cells
-
Pang, K.C. et al. Genome-wide identification of long noncoding RNAs in CD8+ T cells. J. Immunol. 182, 7738-7748 (2009
-
(2009)
J. Immunol
, vol.182
, pp. 7738-7748
-
-
Pang, K.C.1
-
17
-
-
84875785000
-
Role of microRNAs and long-non-coding RNAs in CD4+ T-cell differentiation
-
Pagani, M. et al. Role of microRNAs and long-non-coding RNAs in CD4+ T-cell differentiation. Immunol. Rev. 253, 82-96 (2013
-
(2013)
Immunol. Rev
, vol.253
, pp. 82-96
-
-
Pagani, M.1
-
18
-
-
62249133709
-
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
-
Guttman, M. et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 458, 223-227 (2009
-
(2009)
Nature
, vol.458
, pp. 223-227
-
-
Guttman, M.1
-
19
-
-
84859436530
-
NCBI Reference Sequences (RefSeq): Current Status New Features And Genome Annotation Policy
-
Pruitt, K.D., Tatusova, T., Brown, G.R., Maglott, D.R. NCBI Reference Sequences (RefSeq): Current status, new features and genome annotation policy. Nucleic Acids Res. 40, D130-D135 (2012
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Pruitt, K.D.1
Tatusova, T.2
Brown, G.R.3
Maglott, D.R.4
-
21
-
-
84875404794
-
The UCSC Genome Browser database: Extensions and updates 2013
-
Meyer, L.R. et al. The UCSC Genome Browser database: Extensions and updates 2013. Nucleic Acids Res. 41, D64-D69 (2013
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Meyer, L.R.1
-
22
-
-
84860742355
-
NONCODE v3.0: Integrative annotation of long noncoding RNAs
-
Bu, D. et al. NONCODE v3.0: Integrative annotation of long noncoding RNAs. Nucleic Acids Res. 40, D210-D215 (2012
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Bu, D.1
-
23
-
-
34547582418
-
CPC: Assess the protein-coding potential of transcripts using sequence features and support vector machine
-
Kong, L. et al. CPC: Assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Res. 35, W345-W349 (2007
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Kong, L.1
-
24
-
-
84874248583
-
Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells
-
Sigova, A.A. et al. Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells. Proc. Natl. Acad. Sci. USA 110, 2876-2881 (2013
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 2876-2881
-
-
Sigova, A.A.1
-
25
-
-
84870027825
-
STATs shape the active enhancer landscape of T cell populations
-
Vahedi, G. et al. STATs shape the active enhancer landscape of T cell populations. Cell 151, 981-993 (2012
-
(2012)
Cell
, vol.151
, pp. 981-993
-
-
Vahedi, G.1
-
26
-
-
77953917067
-
Discrete roles of STAT4 and STAT6 transcription factors in tuning epigenetic modifications and transcription during T helper cell differentiation
-
Wei, L. et al. Discrete roles of STAT4 and STAT6 transcription factors in tuning epigenetic modifications and transcription during T helper cell differentiation. Immunity 32, 840-851 (2010
-
(2010)
Immunity
, vol.32
, pp. 840-851
-
-
Wei, L.1
-
27
-
-
0034677646
-
A novel transcription factor, T-bet, directs Th1 lineage commitment
-
Szabo, S.J. et al. A novel transcription factor, T-bet, directs Th1 lineage commitment. Cell 100, 655-669 (2000
-
(2000)
Cell
, vol.100
, pp. 655-669
-
-
Szabo, S.J.1
-
28
-
-
0030810155
-
The transcription factor GATA-3 is necessary and sufficient for Th2 cytokine gene expression in CD4 T cells
-
Zheng, W. Flavell, R.A. The transcription factor GATA-3 is necessary and sufficient for Th2 cytokine gene expression in CD4 T cells. Cell 89, 587-596 (1997
-
(1997)
Cell
, vol.89
, pp. 587-596
-
-
Zheng, W.1
Flavell, R.A.2
-
29
-
-
84867827632
-
The transcription factor T-bet is induced by multiple pathways and prevents an endogenous Th2 cell program during Th1 cell responses
-
Zhu, J. et al. The transcription factor T-bet is induced by multiple pathways and prevents an endogenous Th2 cell program during Th1 cell responses. Immunity 37, 660-673 (2012
-
(2012)
Immunity
, vol.37
, pp. 660-673
-
-
Zhu, J.1
-
30
-
-
79960035010
-
An updated view on transcription factor GATA3-mediated regulation of Th1 and Th2 cell differentiation
-
Yagi, R., Zhu, J. Paul, W.E. An updated view on transcription factor GATA3-mediated regulation of Th1 and Th2 cell differentiation. Int. Immunol. 23, 415-420 (2011
-
(2011)
Int. Immunol
, vol.23
, pp. 415-420
-
-
Yagi, R.1
Zhu, J.2
Paul, W.E.3
-
31
-
-
80051885764
-
Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types
-
Wei, G. et al. Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types. Immunity 35, 299-311 (2011
-
(2011)
Immunity
, vol.35
, pp. 299-311
-
-
Wei, G.1
-
32
-
-
0037100257
-
Cutting edge: Th2 cell trafficking into the allergic lung is dependent on chemoattractant receptor signaling
-
Mathew, A., Medoff, B.D., Carafone, A.D., Luster, A.D. Cutting edge: Th2 cell trafficking into the allergic lung is dependent on chemoattractant receptor signaling. J. Immunol. 169, 651-655 (2002
-
(2002)
J. Immunol
, vol.169
, pp. 651-655
-
-
Mathew, A.1
Medoff, B.D.2
Carafone, A.D.3
Luster, A.D.4
-
33
-
-
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
-
34
-
-
78649467088
-
Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells
-
Loewer, S. et al. Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells. Nat. Genet. 42, 1113-1117 (2010
-
(2010)
Nat. Genet
, vol.42
, pp. 1113-1117
-
-
Loewer, S.1
-
35
-
-
79955364415
-
An NK and T cell enhancer lies 280 kilobase pairs 3′ to the gata3 structural gene
-
Hosoya-Ohmura, S. et al. An NK and T cell enhancer lies 280 kilobase pairs 3′ to the gata3 structural gene. Mol. Cell. Biol. 31, 1894-1904 (2011
-
(2011)
Mol. Cell. Biol
, vol.31
, pp. 1894-1904
-
-
Hosoya-Ohmura, S.1
-
36
-
-
77951920474
-
The transcription factor GATA3 actively represses RUNX3 protein-regulated production of interferon-γ
-
Yagi, R. et al. The transcription factor GATA3 actively represses RUNX3 protein-regulated production of interferon-γ. Immunity 32, 507-517 (2010
-
(2010)
Immunity
, vol.32
, pp. 507-517
-
-
Yagi, R.1
-
37
-
-
25144476332
-
Independent roles for IL-2 and GATA-3 in stimulating naive CD4+ T cells to generate a Th2-inducing cytokine environment
-
Yamane, H., Zhu, J. Paul, W.E. Independent roles for IL-2 and GATA-3 in stimulating naive CD4+ T cells to generate a Th2-inducing cytokine environment. J. Exp. Med. 202, 793-804 (2005
-
(2005)
J. Exp. Med
, vol.202
, pp. 793-804
-
-
Yamane, H.1
Zhu, J.2
Paul, W.E.3
-
38
-
-
35548980865
-
Thermodynamic instability of siRNA duplex is a prerequisite for dependable prediction of siRNA activities
-
Ichihara, M. et al. Thermodynamic instability of siRNA duplex is a prerequisite for dependable prediction of siRNA activities. Nucleic Acids Res. 35, e123 (2007
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Ichihara, M.1
-
39
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
Langmead, B., Trapnell, C., Pop, M. Salzberg, S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009
-
(2009)
Genome Biol
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
40
-
-
67650711619
-
A clustering approach for identification of enriched domains from histone modification ChIP-Seq data
-
Zang, C.Z. et al. A clustering approach for identification of enriched domains from histone modification ChIP-Seq data. Bioinformatics 25, 1952-1958 (2009
-
(2009)
Bioinformatics
, vol.25
, pp. 1952-1958
-
-
Zang, C.Z.1
-
41
-
-
58149214356
-
Global mapping of H3K4me3 and H3K27me3 reveals specificity and plasticity in lineage fate determination of differentiating CD4+ T cells
-
Wei, G. et al. Global mapping of H3K4me3 and H3K27me3 reveals specificity and plasticity in lineage fate determination of differentiating CD4+ T cells. Immunity 30, 155-167 (2009
-
(2009)
Immunity
, vol.30
, pp. 155-167
-
-
Wei, G.1
-
42
-
-
79959872458
-
Cell type-specific DNA methylation at intragenic CpG islands in the immune system
-
Deaton, A.M. et al. Cell type-specific DNA methylation at intragenic CpG islands in the immune system. Genome Res. 21, 1074-1086 (2011
-
(2011)
Genome Res
, vol.21
, pp. 1074-1086
-
-
Deaton, A.M.1
-
43
-
-
84255178198
-
Early Th1 cell differentiation is marked by a Tfh cell-like transition
-
Nakayamada, S. et al. Early Th1 cell differentiation is marked by a Tfh cell-like transition. Immunity 35, 919-931 (2011
-
(2011)
Immunity
, vol.35
, pp. 919-931
-
-
Nakayamada, S.1
-
44
-
-
75249087100
-
EdgeR: A bioconductor package for differential expression analysis of digital gene expression data
-
Robinson, M.D., McCarthy, D.J., Smyth, G.K. edgeR: A Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26, 139-140 (2010
-
(2010)
Bioinformatics
, vol.26
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
45
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
Huang. D., W., Sherman, B.T., Lempicki, R.A. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat. Protoc. 4, 44-57 (2009
-
(2009)
Nat. Protoc
, vol.4
, pp. 44-57
-
-
Huang, D.W.1
Sherman, B.T.2
Lempicki, R.A.3
-
46
-
-
60849139395
-
GOrilla: A tool for discovery and visualization of enriched GO terms in ranked gene lists
-
Eden, E., Navon, R., Steinfeld, I., Lipson, D. Yakhini, Z. GOrilla: A tool for discovery and visualization of enriched GO terms in ranked gene lists. BMC Bioinformatics 10, 48 (2009
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 48
-
-
Eden, E.1
Navon, R.2
Steinfeld, I.3
Lipson, D.4
Yakhini, Z.5
-
47
-
-
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
-
48
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell, C. et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat. Biotechnol. 28, 511-515 (2010
-
(2010)
Nat. Biotechnol
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
-
49
-
-
84869881863
-
Transposable elements reveal a stem cell-specific class of long noncoding RNAs
-
Kelley, D. Rinn, J. Transposable elements reveal a stem cell-specific class of long noncoding RNAs. Genome Biol. 13, R107 (2012
-
(2012)
Genome Biol
, vol.13
-
-
Kelley, D.1
Rinn, J.2
|