-
1
-
-
34249088350
-
Genome-wide transcription and the implications for genomic organization
-
10.1038/nrg2083, 17486121
-
Kapranov P, Willingham AT, Gingeras TR. Genome-wide transcription and the implications for genomic organization. Nat Rev Genet 2007, 8:413-423. 10.1038/nrg2083, 17486121.
-
(2007)
Nat Rev Genet
, vol.8
, pp. 413-423
-
-
Kapranov, P.1
Willingham, A.T.2
Gingeras, T.R.3
-
2
-
-
81355142141
-
Non-coding RNAs in human disease
-
10.1038/nrg3074, 22094949
-
Esteller M. Non-coding RNAs in human disease. Nat Rev Genet 2011, 12:861-874. 10.1038/nrg3074, 22094949.
-
(2011)
Nat Rev Genet
, vol.12
, pp. 861-874
-
-
Esteller, M.1
-
3
-
-
84857066786
-
Modular regulatory principles of large non-coding RNAs
-
10.1038/nature10887, 22337053
-
Guttman M, Rinn JL. Modular regulatory principles of large non-coding RNAs. Nature 2012, 482:339-346. 10.1038/nature10887, 22337053.
-
(2012)
Nature
, vol.482
, pp. 339-346
-
-
Guttman, M.1
Rinn, J.L.2
-
4
-
-
84865727393
-
The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression
-
10.1101/gr.132159.111, 3431493, 22955988
-
Derrien T, Johnson R, Bussotti G, Tanzer A, Djebali S, Tilgner H, Guernec G, Martin D, Merkel A, Knowles DG, et al. The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res 2012, 22:1775-1789. 10.1101/gr.132159.111, 3431493, 22955988.
-
(2012)
Genome Res
, vol.22
, pp. 1775-1789
-
-
Derrien, T.1
Johnson, R.2
Bussotti, G.3
Tanzer, A.4
Djebali, S.5
Tilgner, H.6
Guernec, G.7
Martin, D.8
Merkel, A.9
Knowles, D.G.10
-
5
-
-
34250305146
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
10.1038/nature05874, 2212820, 17571346
-
Birney E, Stamatoyannopoulos JA, Dutta A, Guigo R, Gingeras TR, Margulies EH, Weng Z, Snyder M, Dermitzakis ET, Thurman RE, et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 2007, 447:799-816. 10.1038/nature05874, 2212820, 17571346.
-
(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.7
Snyder, M.8
Dermitzakis, E.T.9
Thurman, R.E.10
-
6
-
-
80053569699
-
Pervasive transcription - Lessons from yeast
-
10.1016/j.biochi.2011.07.001, 21771634
-
Tisseur M, Kwapisz M, Morillon A. Pervasive transcription - Lessons from yeast. Biochimie 2011, 93:1889-1896. 10.1016/j.biochi.2011.07.001, 21771634.
-
(2011)
Biochimie
, vol.93
, pp. 1889-1896
-
-
Tisseur, M.1
Kwapisz, M.2
Morillon, A.3
-
7
-
-
79960911703
-
The reality of pervasive transcription
-
discussion e1001102, 10.1371/journal.pbio.1000625, 3134446, 21765801
-
Clark MB, Amaral PP, Schlesinger FJ, Dinger ME, Taft RJ, Rinn JL, Ponting CP, Stadler PF, Morris KV, Morillon A, et al. The reality of pervasive transcription. PLoS Biol 2011, 9:e1000625. discussion e1001102, 10.1371/journal.pbio.1000625, 3134446, 21765801.
-
(2011)
PLoS Biol
, vol.9
-
-
Clark, M.B.1
Amaral, P.P.2
Schlesinger, F.J.3
Dinger, M.E.4
Taft, R.J.5
Rinn, J.L.6
Ponting, C.P.7
Stadler, P.F.8
Morris, K.V.9
Morillon, A.10
-
8
-
-
84863861287
-
Regulation of chromatin structure by long noncoding RNAs: focus on natural antisense transcripts
-
10.1016/j.tig.2012.03.013, 3768148, 22541732
-
Magistri M, Faghihi MA, St Laurent G, Wahlestedt C. Regulation of chromatin structure by long noncoding RNAs: focus on natural antisense transcripts. Trends Genet 2012, 28:389-396. 10.1016/j.tig.2012.03.013, 3768148, 22541732.
-
(2012)
Trends Genet
, vol.28
, pp. 389-396
-
-
Magistri, M.1
Faghihi, M.A.2
St Laurent, G.3
Wahlestedt, C.4
-
9
-
-
24644472515
-
Antisense transcription in the mammalian transcriptome
-
Katayama S, Tomaru Y, Kasukawa T, Waki K, Nakanishi M, Nakamura M, Nishida H, Yap CC, Suzuki M, Kawai J, et al. Antisense transcription in the mammalian transcriptome. Science 2005, 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
-
10
-
-
84869088820
-
Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat
-
10.1038/nature11508, 23064229
-
Carrieri C, Cimatti L, Biagioli M, Beugnet A, Zucchelli S, Fedele S, Pesce E, Ferrer I, Collavin L, Santoro C, et al. Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat. Nature 2012, 491(7424):454-457. 10.1038/nature11508, 23064229.
-
(2012)
Nature
, vol.491
, Issue.7424
, pp. 454-457
-
-
Carrieri, C.1
Cimatti, L.2
Biagioli, M.3
Beugnet, A.4
Zucchelli, S.5
Fedele, S.6
Pesce, E.7
Ferrer, I.8
Collavin, L.9
Santoro, C.10
-
11
-
-
79959346319
-
Functional consequences of bidirectional promoters
-
10.1016/j.tig.2011.04.002, 3123404, 21601935
-
Wei W, Pelechano V, Jarvelin AI, Steinmetz LM. Functional consequences of bidirectional promoters. Trends Genet 2011, 27:267-276. 10.1016/j.tig.2011.04.002, 3123404, 21601935.
-
(2011)
Trends Genet
, vol.27
, pp. 267-276
-
-
Wei, W.1
Pelechano, V.2
Jarvelin, A.I.3
Steinmetz, L.M.4
-
12
-
-
57849109058
-
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters
-
10.1126/science.1162228, 2833333, 19056941
-
Core LJ, Waterfall JJ, Lis JT. Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science 2008, 322:1845-1848. 10.1126/science.1162228, 2833333, 19056941.
-
(2008)
Science
, vol.322
, pp. 1845-1848
-
-
Core, L.J.1
Waterfall, J.J.2
Lis, J.T.3
-
13
-
-
57849140661
-
Divergent transcription from active promoters
-
10.1126/science.1162253, 2692996, 19056940
-
Seila AC, Calabrese JM, Levine SS, Yeo GW, Rahl PB, Flynn RA, Young RA, Sharp PA. Divergent transcription from active promoters. Science 2008, 322:1849-1851. 10.1126/science.1162253, 2692996, 19056940.
-
(2008)
Science
, vol.322
, pp. 1849-1851
-
-
Seila, A.C.1
Calabrese, J.M.2
Levine, S.S.3
Yeo, G.W.4
Rahl, P.B.5
Flynn, R.A.6
Young, R.A.7
Sharp, P.A.8
-
14
-
-
34250160256
-
RNA maps reveal new RNA classes and a possible function for pervasive transcription
-
10.1126/science.1138341, 17510325
-
Kapranov P, Cheng J, Dike S, Nix DA, Duttagupta R, Willingham AT, Stadler PF, Hertel J, Hackermuller J, Hofacker IL, et al. RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science 2007, 316:1484-1488. 10.1126/science.1138341, 17510325.
-
(2007)
Science
, vol.316
, pp. 1484-1488
-
-
Kapranov, P.1
Cheng, J.2
Dike, S.3
Nix, D.A.4
Duttagupta, R.5
Willingham, A.T.6
Stadler, P.F.7
Hertel, J.8
Hackermuller, J.9
Hofacker, I.L.10
-
15
-
-
20444368036
-
Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase
-
10.1016/j.cell.2005.04.030, 15935759
-
Wyers F, Rougemaille M, Badis G, Rousselle JC, Dufour ME, Boulay J, Regnault B, Devaux F, Namane A, Seraphin B, et al. Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase. Cell 2005, 121:725-737. 10.1016/j.cell.2005.04.030, 15935759.
-
(2005)
Cell
, vol.121
, pp. 725-737
-
-
Wyers, F.1
Rougemaille, M.2
Badis, G.3
Rousselle, J.C.4
Dufour, M.E.5
Boulay, J.6
Regnault, B.7
Devaux, F.8
Namane, A.9
Seraphin, B.10
-
16
-
-
80051764912
-
PROMoter uPstream Transcripts share characteristics with mRNAs and are produced upstream of all three major types of mammalian promoters
-
10.1093/nar/gkr370, 3167610, 21596787
-
Preker P, Almvig K, Christensen MS, Valen E, Mapendano CK, Sandelin A, Jensen TH. PROMoter uPstream Transcripts share characteristics with mRNAs and are produced upstream of all three major types of mammalian promoters. Nucleic Acids Res 2011, 39:7179-7193. 10.1093/nar/gkr370, 3167610, 21596787.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 7179-7193
-
-
Preker, P.1
Almvig, K.2
Christensen, M.S.3
Valen, E.4
Mapendano, C.K.5
Sandelin, A.6
Jensen, T.H.7
-
17
-
-
57849123049
-
RNA exosome depletion reveals transcription upstream of active human promoters
-
10.1126/science.1164096, 19056938
-
Preker P, Nielsen J, Kammler S, Lykke-Andersen S, Christensen MS, Mapendano CK, Schierup MH, Jensen TH. RNA exosome depletion reveals transcription upstream of active human promoters. Science 2008, 322:1851-1854. 10.1126/science.1164096, 19056938.
-
(2008)
Science
, vol.322
, pp. 1851-1854
-
-
Preker, P.1
Nielsen, J.2
Kammler, S.3
Lykke-Andersen, S.4
Christensen, M.S.5
Mapendano, C.K.6
Schierup, M.H.7
Jensen, T.H.8
-
18
-
-
60549114880
-
Widespread bidirectional promoters are the major source of cryptic transcripts in yeast
-
10.1038/nature07747, 19169244
-
Neil H, Malabat C, Aubenton-Carafa D,Y, Xu Z, Steinmetz LM, Jacquier A. Widespread bidirectional promoters are the major source of cryptic transcripts in yeast. Nature 2009, 457:1038-1042. 10.1038/nature07747, 19169244.
-
(2009)
Nature
, vol.457
, pp. 1038-1042
-
-
Neil, H.1
Malabat, C.2
Aubenton-Carafa, D.Y.3
Xu, Z.4
Steinmetz, L.M.5
Jacquier, A.6
-
19
-
-
77952148742
-
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
-
10.1038/nbt.1633, 2868100, 20436462
-
Guttman M, Garber M, Levin JZ, Donaghey J, Robinson J, Adiconis X, Fan L, Koziol MJ, Gnirke A, Nusbaum C, et al. Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat Biotechnol 2010, 28:503-510. 10.1038/nbt.1633, 2868100, 20436462.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 503-510
-
-
Guttman, M.1
Garber, M.2
Levin, J.Z.3
Donaghey, J.4
Robinson, J.5
Adiconis, X.6
Fan, L.7
Koziol, M.J.8
Gnirke, A.9
Nusbaum, C.10
-
20
-
-
80052978224
-
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
-
10.1101/gad.17446611, 3185964, 21890647
-
Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev 2011, 25:1915-1927. 10.1101/gad.17446611, 3185964, 21890647.
-
(2011)
Genes Dev
, vol.25
, pp. 1915-1927
-
-
Cabili, M.N.1
Trapnell, C.2
Goff, L.3
Koziol, M.4
Tazon-Vega, B.5
Regev, A.6
Rinn, J.L.7
-
21
-
-
84874248583
-
Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells
-
10.1073/pnas.1221904110, 3581948, 23382218
-
Sigova AA, Mullen AC, Molinie B, Gupta S, Orlando DA, Guenther MG, Almada AE, Lin C, Sharp PA, Giallourakis CC, Young RA. Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells. Proc Natl Acad Sci U S A 2013, 110(8):2876-2881. 10.1073/pnas.1221904110, 3581948, 23382218.
-
(2013)
Proc Natl Acad Sci U S A
, vol.110
, Issue.8
, pp. 2876-2881
-
-
Sigova, A.A.1
Mullen, A.C.2
Molinie, B.3
Gupta, S.4
Orlando, D.A.5
Guenther, M.G.6
Almada, A.E.7
Lin, C.8
Sharp, P.A.9
Giallourakis, C.C.10
Young, R.A.11
-
22
-
-
77956340995
-
Comprehensive comparative analysis of strand-specific RNA sequencing methods
-
10.1038/nmeth.1491, 3005310, 20711195
-
Levin JZ, Yassour M, Adiconis X, Nusbaum C, Thompson DA, Friedman N, Gnirke A, Regev A. Comprehensive comparative analysis of strand-specific RNA sequencing methods. Nat Methods 2010, 7:709-715. 10.1038/nmeth.1491, 3005310, 20711195.
-
(2010)
Nat Methods
, vol.7
, pp. 709-715
-
-
Levin, J.Z.1
Yassour, M.2
Adiconis, X.3
Nusbaum, C.4
Thompson, D.A.5
Friedman, N.6
Gnirke, A.7
Regev, A.8
-
23
-
-
80052335127
-
Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profiling
-
10.1186/1471-2164-12-441, 3180702, 21888672
-
Thiagarajan RD, Cloonan N, Gardiner BB, Mercer TR, Kolle G, Nourbakhsh E, Wani S, Tang D, Krishnan K, Georgas KM, et al. Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profiling. BMC Genomics 2011, 12:441. 10.1186/1471-2164-12-441, 3180702, 21888672.
-
(2011)
BMC Genomics
, vol.12
, pp. 441
-
-
Thiagarajan, R.D.1
Cloonan, N.2
Gardiner, B.B.3
Mercer, T.R.4
Kolle, G.5
Nourbakhsh, E.6
Wani, S.7
Tang, D.8
Krishnan, K.9
Georgas, K.M.10
-
24
-
-
84859885816
-
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
-
10.1038/nprot.2012.016, 3334321, 22383036
-
Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, Pimentel H, Salzberg SL, Rinn JL, Pachter L. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat Protoc 2012, 7:562-578. 10.1038/nprot.2012.016, 3334321, 22383036.
-
(2012)
Nat Protoc
, vol.7
, pp. 562-578
-
-
Trapnell, C.1
Roberts, A.2
Goff, L.3
Pertea, G.4
Kim, D.5
Kelley, D.R.6
Pimentel, H.7
Salzberg, S.L.8
Rinn, J.L.9
Pachter, L.10
-
25
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
10.1038/nbt.1621, 3146043, 20436464
-
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 2010, 28:511-515. 10.1038/nbt.1621, 3146043, 20436464.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
van Baren, M.J.6
Salzberg, S.L.7
Wold, B.J.8
Pachter, L.9
-
26
-
-
79959446962
-
PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions
-
10.1093/bioinformatics/btr209, 3117341, 21685081
-
Lin MF, Jungreis I, Kellis M. PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions. Bioinformatics 2011, 27:i275-i282. 10.1093/bioinformatics/btr209, 3117341, 21685081.
-
(2011)
Bioinformatics
, vol.27
-
-
Lin, M.F.1
Jungreis, I.2
Kellis, M.3
-
27
-
-
84864251757
-
Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions
-
10.1016/j.cell.2012.05.043, 3405548, 22817891
-
Bhatt DM, Pandya-Jones A, Tong AJ, Barozzi I, Lissner MM, Natoli G, Black DL, Smale ST. Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions. Cell 2012, 150:279-290. 10.1016/j.cell.2012.05.043, 3405548, 22817891.
-
(2012)
Cell
, vol.150
, pp. 279-290
-
-
Bhatt, D.M.1
Pandya-Jones, A.2
Tong, A.J.3
Barozzi, I.4
Lissner, M.M.5
Natoli, G.6
Black, D.L.7
Smale, S.T.8
-
28
-
-
37549010335
-
Launching the T-cell-lineage developmental programme
-
Rothenberg EV, Moore JE, Yui MA. Launching the T-cell-lineage developmental programme. NatRevImmunol 2008, 8:9-21.
-
(2008)
NatRevImmunol
, vol.8
, pp. 9-21
-
-
Rothenberg, E.V.1
Moore, J.E.2
Yui, M.A.3
-
29
-
-
67849130563
-
ToppGene Suite for gene list enrichment analysis and candidate gene prioritization
-
10.1093/nar/gkp427, 2703978, 19465376
-
Chen J, Bardes EE, Aronow BJ, Jegga AG. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res 2009, 37:W305-W311. 10.1093/nar/gkp427, 2703978, 19465376.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Chen, J.1
Bardes, E.E.2
Aronow, B.J.3
Jegga, A.G.4
-
30
-
-
84864462544
-
A map of the cis-regulatory sequences in the mouse genome
-
10.1038/nature11243, 22763441
-
Shen Y, Yue F, McCleary DF, Ye Z, Edsall L, Kuan S, Wagner U, Dixon J, Lee L, Lobanenkov VV, Ren B. A map of the cis-regulatory sequences in the mouse genome. Nature 2012, 488(7409):116-120. 10.1038/nature11243, 22763441.
-
(2012)
Nature
, vol.488
, Issue.7409
, pp. 116-120
-
-
Shen, Y.1
Yue, F.2
McCleary, D.F.3
Ye, Z.4
Edsall, L.5
Kuan, S.6
Wagner, U.7
Dixon, J.8
Lee, L.9
Lobanenkov, V.V.10
Ren, B.11
-
31
-
-
33846505022
-
Key factors in the organized chaos of early T cell development
-
10.1038/ni1436, 17242687
-
Hayday AC, Pennington DJ. Key factors in the organized chaos of early T cell development. Nat Immunol 2007, 8:137-144. 10.1038/ni1436, 17242687.
-
(2007)
Nat Immunol
, vol.8
, pp. 137-144
-
-
Hayday, A.C.1
Pennington, D.J.2
-
32
-
-
79961022267
-
Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters
-
10.1038/nsmb.2085, 21765417
-
Koch F, Fenouil R, Gut M, Cauchy P, Albert TK, Zacarias-Cabeza J, Spicuglia S, de la Chapelle AL, Heidemann M, Hintermair C, et al. Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters. Nat Struct Mol Biol 2011, 18:956-963. 10.1038/nsmb.2085, 21765417.
-
(2011)
Nat Struct Mol Biol
, vol.18
, pp. 956-963
-
-
Koch, F.1
Fenouil, R.2
Gut, M.3
Cauchy, P.4
Albert, T.K.5
Zacarias-Cabeza, J.6
Spicuglia, S.7
de la Chapelle, A.L.8
Heidemann, M.9
Hintermair, C.10
-
33
-
-
84859157183
-
Dynamic transformations of genome-wide epigenetic marking and transcriptional control establish T cell identity
-
10.1016/j.cell.2012.01.056, 3336965, 22500808
-
Zhang JA, Mortazavi A, Williams BA, Wold BJ, Rothenberg EV. Dynamic transformations of genome-wide epigenetic marking and transcriptional control establish T cell identity. Cell 2012, 149:467-482. 10.1016/j.cell.2012.01.056, 3336965, 22500808.
-
(2012)
Cell
, vol.149
, pp. 467-482
-
-
Zhang, J.A.1
Mortazavi, A.2
Williams, B.A.3
Wold, B.J.4
Rothenberg, E.V.5
-
34
-
-
65149092197
-
Transcriptional features of genomic regulatory blocks
-
10.1186/gb-2009-10-4-r38, 2688929, 19374772
-
Akalin A, Fredman D, Arner E, Dong X, Bryne JC, Suzuki H, Daub CO, Hayashizaki Y, Lenhard B. Transcriptional features of genomic regulatory blocks. Genome Biol 2009, 10:R38. 10.1186/gb-2009-10-4-r38, 2688929, 19374772.
-
(2009)
Genome Biol
, vol.10
-
-
Akalin, A.1
Fredman, D.2
Arner, E.3
Dong, X.4
Bryne, J.C.5
Suzuki, H.6
Daub, C.O.7
Hayashizaki, Y.8
Lenhard, B.9
-
35
-
-
84858440747
-
Metazoan promoters: emerging characteristics and insights into transcriptional regulation
-
Lenhard B, Sandelin A, Carninci P. Metazoan promoters: emerging characteristics and insights into transcriptional regulation. Nat Rev Genet 2012, 13:233-245.
-
(2012)
Nat Rev Genet
, vol.13
, pp. 233-245
-
-
Lenhard, B.1
Sandelin, A.2
Carninci, P.3
-
36
-
-
78650304236
-
Charting histone modifications and the functional organization of mammalian genomes
-
Zhou VW, Goren A, Bernstein BE. Charting histone modifications and the functional organization of mammalian genomes. Nat Rev Genet 2011, 12:7-18.
-
(2011)
Nat Rev Genet
, vol.12
, pp. 7-18
-
-
Zhou, V.W.1
Goren, A.2
Bernstein, B.E.3
-
37
-
-
34547624303
-
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
-
10.1038/nature06008, 2921165, 17603471
-
Mikkelsen TS, Ku M, Jaffe DB, Issac B, Lieberman E, Giannoukos G, Alvarez P, Brockman W, Kim TK, Koche RP, et al. Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature 2007, 448:553-560. 10.1038/nature06008, 2921165, 17603471.
-
(2007)
Nature
, vol.448
, pp. 553-560
-
-
Mikkelsen, T.S.1
Ku, M.2
Jaffe, D.B.3
Issac, B.4
Lieberman, E.5
Giannoukos, G.6
Alvarez, P.7
Brockman, W.8
Kim, T.K.9
Koche, R.P.10
-
38
-
-
33646070846
-
A bivalent chromatin structure marks key developmental genes in embryonic stem cells
-
10.1016/j.cell.2006.02.041, 16630819
-
Bernstein BE, Mikkelsen TS, Xie X, Kamal M, Huebert DJ, Cuff J, Fry B, Meissner A, Wernig M, Plath K, et al. A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell 2006, 125:315-326. 10.1016/j.cell.2006.02.041, 16630819.
-
(2006)
Cell
, vol.125
, pp. 315-326
-
-
Bernstein, B.E.1
Mikkelsen, T.S.2
Xie, X.3
Kamal, M.4
Huebert, D.J.5
Cuff, J.6
Fry, B.7
Meissner, A.8
Wernig, M.9
Plath, K.10
-
39
-
-
80051885764
-
Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types
-
10.1016/j.immuni.2011.08.007, 3169184, 21867929
-
Wei G, Abraham BJ, Yagi R, Jothi R, Cui K, Sharma S, Narlikar L, Northrup DL, Tang Q, Paul WE, et al. Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types. Immunity 2011, 35:299-311. 10.1016/j.immuni.2011.08.007, 3169184, 21867929.
-
(2011)
Immunity
, vol.35
, pp. 299-311
-
-
Wei, G.1
Abraham, B.J.2
Yagi, R.3
Jothi, R.4
Cui, K.5
Sharma, S.6
Narlikar, L.7
Northrup, D.L.8
Tang, Q.9
Paul, W.E.10
-
40
-
-
83855160775
-
Harnessing of the nucleosome-remodeling-deacetylase complex controls lymphocyte development and prevents leukemogenesis
-
Zhang J, Jackson AF, Naito T, Dose M, Seavitt J, Liu F, Heller EJ, Kashiwagi M, Yoshida T, Gounari F, et al. Harnessing of the nucleosome-remodeling-deacetylase complex controls lymphocyte development and prevents leukemogenesis. Nat Immunol 2012, 13:86-94.
-
(2012)
Nat Immunol
, vol.13
, pp. 86-94
-
-
Zhang, J.1
Jackson, A.F.2
Naito, T.3
Dose, M.4
Seavitt, J.5
Liu, F.6
Heller, E.J.7
Kashiwagi, M.8
Yoshida, T.9
Gounari, F.10
-
41
-
-
33744805985
-
Genome-wide analysis of mammalian promoter architecture and evolution
-
10.1038/ng1789, 16645617
-
Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CA, Taylor MS, Engstrom PG, Frith MC, et al. Genome-wide analysis of mammalian promoter architecture and evolution. Nat Genet 2006, 38:626-635. 10.1038/ng1789, 16645617.
-
(2006)
Nat Genet
, vol.38
, pp. 626-635
-
-
Carninci, P.1
Sandelin, A.2
Lenhard, B.3
Katayama, S.4
Shimokawa, K.5
Ponjavic, J.6
Semple, C.A.7
Taylor, M.S.8
Engstrom, P.G.9
Frith, M.C.10
-
42
-
-
84859087611
-
R-loop formation is a distinctive characteristic of unmethylated human CpG island promoters
-
10.1016/j.molcel.2012.01.017, 3319272, 22387027
-
Ginno PA, Lott PL, Christensen HC, Korf I, Chedin F. R-loop formation is a distinctive characteristic of unmethylated human CpG island promoters. Mol Cell 2012, 45:814-825. 10.1016/j.molcel.2012.01.017, 3319272, 22387027.
-
(2012)
Mol Cell
, vol.45
, pp. 814-825
-
-
Ginno, P.A.1
Lott, P.L.2
Christensen, H.C.3
Korf, I.4
Chedin, F.5
-
43
-
-
84880510553
-
Promoter directionality is controlled by U1 snRNP and polyadenylation signals
-
10.1038/nature12349, 23792564
-
Almada AE, Wu X, Kriz AJ, Burge CB, Sharp PA. Promoter directionality is controlled by U1 snRNP and polyadenylation signals. Nature 2013, 499:360-363. 10.1038/nature12349, 23792564.
-
(2013)
Nature
, vol.499
, pp. 360-363
-
-
Almada, A.E.1
Wu, X.2
Kriz, A.J.3
Burge, C.B.4
Sharp, P.A.5
-
44
-
-
84881474625
-
Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality
-
10.1038/nsmb.2640, 23851456
-
Ntini E, Jarvelin AI, Bornholdt J, Chen Y, Boyd M, Jorgensen M, Andersson R, Hoof I, Schein A, Andersen PR, et al. Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality. Nat Struct Mol Biol 2013, 20:923-928. 10.1038/nsmb.2640, 23851456.
-
(2013)
Nat Struct Mol Biol
, vol.20
, pp. 923-928
-
-
Ntini, E.1
Jarvelin, A.I.2
Bornholdt, J.3
Chen, Y.4
Boyd, M.5
Jorgensen, M.6
Andersson, R.7
Hoof, I.8
Schein, A.9
Andersen, P.R.10
-
45
-
-
84864303162
-
First exon length controls active chromatin signatures and transcription
-
10.1016/j.celrep.2012.05.019, 22840397
-
Bieberstein NI, Carrillo Oesterreich F, Straube K, Neugebauer KM. First exon length controls active chromatin signatures and transcription. Cell Rep 2012, 2:62-68. 10.1016/j.celrep.2012.05.019, 22840397.
-
(2012)
Cell Rep
, vol.2
, pp. 62-68
-
-
Bieberstein, N.I.1
Carrillo Oesterreich, F.2
Straube, K.3
Neugebauer, K.M.4
-
46
-
-
78649836342
-
Reciprocal intronic and exonic histone modification regions in humans
-
10.1038/nsmb.1924, 3057557, 21057525
-
Huff JT, Plocik AM, Guthrie C, Yamamoto KR. Reciprocal intronic and exonic histone modification regions in humans. Nat Struct Mol Biol 2010, 17:1495-1499. 10.1038/nsmb.1924, 3057557, 21057525.
-
(2010)
Nat Struct Mol Biol
, vol.17
, pp. 1495-1499
-
-
Huff, J.T.1
Plocik, A.M.2
Guthrie, C.3
Yamamoto, K.R.4
-
47
-
-
84872405841
-
Dynamic phosphorylation patterns of RNA polymerase II CTD during transcription
-
Heidemann M, Hintermair C, Voss K, Eick D. Dynamic phosphorylation patterns of RNA polymerase II CTD during transcription. Biochim Biophys Acta 1829, 2013:55-62.
-
(1829)
Biochim Biophys Acta
, vol.2013
, pp. 55-62
-
-
Heidemann, M.1
Hintermair, C.2
Voss, K.3
Eick, D.4
-
48
-
-
84870566023
-
Long non-coding RNAs in C. elegans
-
10.1101/gr.140475.112, 3514682, 22707570
-
Nam JW, Bartel D. Long non-coding RNAs in C. elegans. Genome Res 2012, 22(12):2529-2540. 10.1101/gr.140475.112, 3514682, 22707570.
-
(2012)
Genome Res
, vol.22
, Issue.12
, pp. 2529-2540
-
-
Nam, J.W.1
Bartel, D.2
-
49
-
-
84870485829
-
CpG islands and GC content dictate nucleosome depletion in a transcription-independent manner at mammalian promoters
-
10.1101/gr.138776.112, 3514669, 23100115
-
Fenouil R, Cauchy P, Koch F, Descostes N, Cabeza JZ, Innocenti C, Ferrier P, Spicuglia S, Gut M, Gut I, Andrau JC. CpG islands and GC content dictate nucleosome depletion in a transcription-independent manner at mammalian promoters. Genome Res 2012, 22:2399-2408. 10.1101/gr.138776.112, 3514669, 23100115.
-
(2012)
Genome Res
, vol.22
, pp. 2399-2408
-
-
Fenouil, R.1
Cauchy, P.2
Koch, F.3
Descostes, N.4
Cabeza, J.Z.5
Innocenti, C.6
Ferrier, P.7
Spicuglia, S.8
Gut, M.9
Gut, I.10
Andrau, J.C.11
-
50
-
-
38649114329
-
Specific expression of long noncoding RNAs in the mouse brain
-
10.1073/pnas.0706729105, 2206602, 18184812
-
Mercer TR, Dinger ME, Sunkin SM, Mehler MF, Mattick JS. Specific expression of long noncoding RNAs in the mouse brain. Proc Natl Acad Sci U S A 2008, 105:716-721. 10.1073/pnas.0706729105, 2206602, 18184812.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 716-721
-
-
Mercer, T.R.1
Dinger, M.E.2
Sunkin, S.M.3
Mehler, M.F.4
Mattick, J.S.5
-
51
-
-
62249133709
-
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
-
10.1038/nature07672, 2754849, 19182780
-
Guttman M, Amit I, Garber M, French C, Lin MF, Feldser D, Huarte M, Zuk O, Carey BW, Cassady JP, et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 2009, 458:223-227. 10.1038/nature07672, 2754849, 19182780.
-
(2009)
Nature
, vol.458
, pp. 223-227
-
-
Guttman, M.1
Amit, I.2
Garber, M.3
French, C.4
Lin, M.F.5
Feldser, D.6
Huarte, M.7
Zuk, O.8
Carey, B.W.9
Cassady, J.P.10
-
52
-
-
84867073340
-
Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage
-
10.1016/j.cell.2012.07.035, 3462286, 22981692
-
Wamstad JA, Alexander JM, Truty RM, Shrikumar A, Li F, Eilertson KE, Ding H, Wylie JN, Pico AR, Capra JA, et al. Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage. Cell 2012, 151:206-220. 10.1016/j.cell.2012.07.035, 3462286, 22981692.
-
(2012)
Cell
, vol.151
, pp. 206-220
-
-
Wamstad, J.A.1
Alexander, J.M.2
Truty, R.M.3
Shrikumar, A.4
Li, F.5
Eilertson, K.E.6
Ding, H.7
Wylie, J.N.8
Pico, A.R.9
Capra, J.A.10
-
53
-
-
84879987789
-
LincRNAs: genomics, evolution, and mechanisms
-
10.1016/j.cell.2013.06.020, 23827673
-
Ulitsky I, Bartel DP. lincRNAs: genomics, evolution, and mechanisms. Cell 2013, 154:26-46. 10.1016/j.cell.2013.06.020, 23827673.
-
(2013)
Cell
, vol.154
, pp. 26-46
-
-
Ulitsky, I.1
Bartel, D.P.2
-
54
-
-
84455206362
-
Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution
-
10.1016/j.cell.2011.11.055, 3376356, 22196729
-
Ulitsky I, Shkumatava A, Jan CH, Sive H, Bartel DP. Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. Cell 2011, 147:1537-1550. 10.1016/j.cell.2011.11.055, 3376356, 22196729.
-
(2011)
Cell
, vol.147
, pp. 1537-1550
-
-
Ulitsky, I.1
Shkumatava, A.2
Jan, C.H.3
Sive, H.4
Bartel, D.P.5
-
55
-
-
34248358308
-
Hyperconserved CpG domains underlie Polycomb-binding sites
-
10.1073/pnas.0609746104, 1838490, 17376869
-
Tanay A, ODonnell AH, Damelin M, Bestor TH. Hyperconserved CpG domains underlie Polycomb-binding sites. Proc Natl Acad Sci U S A 2007, 104:5521-5526. 10.1073/pnas.0609746104, 1838490, 17376869.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 5521-5526
-
-
Tanay, A.1
Donnell, O.A.H.2
Damelin, M.3
Bestor, T.H.4
-
56
-
-
44449113335
-
Diversity of core promoter elements comprising human bidirectional promoters
-
Yang MQ, Elnitski LL. Diversity of core promoter elements comprising human bidirectional promoters. BMC Genomics 2008, 9(Suppl 2):S3.
-
(2008)
BMC Genomics
, vol.9
, Issue.SUPPL. 2
-
-
Yang, M.Q.1
Elnitski, L.L.2
-
57
-
-
0347135948
-
An abundance of bidirectional promoters in the human genome
-
314279, 14707170
-
Trinklein ND, Aldred SF, Hartman SJ, Schroeder DI, Otillar RP, Myers RM. An abundance of bidirectional promoters in the human genome. Genome Res 2004, 14:62-66. 314279, 14707170.
-
(2004)
Genome Res
, vol.14
, pp. 62-66
-
-
Trinklein, N.D.1
Aldred, S.F.2
Hartman, S.J.3
Schroeder, D.I.4
Otillar, R.P.5
Myers, R.M.6
-
58
-
-
33746093492
-
Cotranscriptional processes and their influence on genome stability
-
10.1101/gad.1438306, 16847344
-
Li X, Manley JL. Cotranscriptional processes and their influence on genome stability. Genes Dev 2006, 20:1838-1847. 10.1101/gad.1438306, 16847344.
-
(2006)
Genes Dev
, vol.20
, pp. 1838-1847
-
-
Li, X.1
Manley, J.L.2
-
59
-
-
84855286267
-
Genome instability and transcription elongation impairment in human cells depleted of THO/TREX
-
10.1371/journal.pgen.1002386, 3228816, 22144908
-
Dominguez-Sanchez MS, Barroso S, Gomez-Gonzalez B, Luna R, Aguilera A. Genome instability and transcription elongation impairment in human cells depleted of THO/TREX. PLoS Genet 2011, 7:e1002386. 10.1371/journal.pgen.1002386, 3228816, 22144908.
-
(2011)
PLoS Genet
, vol.7
-
-
Dominguez-Sanchez, M.S.1
Barroso, S.2
Gomez-Gonzalez, B.3
Luna, R.4
Aguilera, A.5
-
60
-
-
77954841539
-
Loss of Topoisomerase I leads to R-loop-mediated transcriptional blocks during ribosomal RNA synthesis
-
10.1101/gad.573310, 2904944, 20634320
-
El Hage A, French SL, Beyer AL, Tollervey D. Loss of Topoisomerase I leads to R-loop-mediated transcriptional blocks during ribosomal RNA synthesis. Genes Dev 2010, 24:1546-1558. 10.1101/gad.573310, 2904944, 20634320.
-
(2010)
Genes Dev
, vol.24
, pp. 1546-1558
-
-
El Hage, A.1
French, S.L.2
Beyer, A.L.3
Tollervey, D.4
-
61
-
-
34447267682
-
Impairment of transcription elongation by R-loops in vitro
-
10.1016/j.bbrc.2007.06.098, 17603014
-
Tous C, Aguilera A. Impairment of transcription elongation by R-loops in vitro. Biochem Biophys Res Commun 2007, 360:428-432. 10.1016/j.bbrc.2007.06.098, 17603014.
-
(2007)
Biochem Biophys Res Commun
, vol.360
, pp. 428-432
-
-
Tous, C.1
Aguilera, A.2
-
62
-
-
84863426816
-
Identification and characterization of a noncoding RNA at the mouse Pcna locus
-
10.1007/s10059-012-2164-x, 22228179
-
Lee JY, Khan AA, Min H, Wang X, Kim MH. Identification and characterization of a noncoding RNA at the mouse Pcna locus. Mol Cells 2012, 33:111-116. 10.1007/s10059-012-2164-x, 22228179.
-
(2012)
Mol Cells
, vol.33
, pp. 111-116
-
-
Lee, J.Y.1
Khan, A.A.2
Min, H.3
Wang, X.4
Kim, M.H.5
-
63
-
-
84873829893
-
The Tissue-Specific lncRNA Fendrr Is an Essential Regulator of Heart and Body Wall Development in the Mouse
-
10.1016/j.devcel.2012.12.012, 23369715
-
Grote P, Wittler L, Hendrix D, Koch F, Wahrisch S, Beisaw A, Macura K, Blass G, Kellis M, Werber M, Herrmann BG. The Tissue-Specific lncRNA Fendrr Is an Essential Regulator of Heart and Body Wall Development in the Mouse. Dev Cell 2013, 24:206-214. 10.1016/j.devcel.2012.12.012, 23369715.
-
(2013)
Dev Cell
, vol.24
, pp. 206-214
-
-
Grote, P.1
Wittler, L.2
Hendrix, D.3
Koch, F.4
Wahrisch, S.5
Beisaw, A.6
Macura, K.7
Blass, G.8
Kellis, M.9
Werber, M.10
Herrmann, B.G.11
-
64
-
-
84871699564
-
Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans
-
10.1038/nrg3293, 3552498, 22986266
-
Adelman K, Lis JT. Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans. Nat Rev Genet 2012, 13:720-731. 10.1038/nrg3293, 3552498, 22986266.
-
(2012)
Nat Rev Genet
, vol.13
, pp. 720-731
-
-
Adelman, K.1
Lis, J.T.2
-
65
-
-
34447098370
-
A chromatin landmark and transcription initiation at most promoters in human cells
-
10.1016/j.cell.2007.05.042, 3200295, 17632057
-
Guenther MG, Levine SS, Boyer LA, Jaenisch R, Young RA. A chromatin landmark and transcription initiation at most promoters in human cells. Cell 2007, 130:77-88. 10.1016/j.cell.2007.05.042, 3200295, 17632057.
-
(2007)
Cell
, vol.130
, pp. 77-88
-
-
Guenther, M.G.1
Levine, S.S.2
Boyer, L.A.3
Jaenisch, R.4
Young, R.A.5
-
66
-
-
70849107088
-
Immediate mediators of the inflammatory response are poised for gene activation through RNA polymerase II stalling
-
10.1073/pnas.0910177106, 2775335, 19820169
-
Adelman K, Kennedy MA, Nechaev S, Gilchrist DA, Muse GW, Chinenov Y, Rogatsky I. Immediate mediators of the inflammatory response are poised for gene activation through RNA polymerase II stalling. Proc Natl Acad Sci U S A 2009, 106:18207-18212. 10.1073/pnas.0910177106, 2775335, 19820169.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 18207-18212
-
-
Adelman, K.1
Kennedy, M.A.2
Nechaev, S.3
Gilchrist, D.A.4
Muse, G.W.5
Chinenov, Y.6
Rogatsky, I.7
-
67
-
-
67649648237
-
Control of inducible gene expression by signal-dependent transcriptional elongation
-
10.1016/j.cell.2009.05.047, 2828818, 19596240
-
Hargreaves DC, Horng T, Medzhitov R. Control of inducible gene expression by signal-dependent transcriptional elongation. Cell 2009, 138:129-145. 10.1016/j.cell.2009.05.047, 2828818, 19596240.
-
(2009)
Cell
, vol.138
, pp. 129-145
-
-
Hargreaves, D.C.1
Horng, T.2
Medzhitov, R.3
-
68
-
-
44749094453
-
Genome-wide RNA polymerase II: not genes only!
-
10.1016/j.tibs.2008.04.006, 18467100
-
Koch F, Jourquin F, Ferrier P, Andrau JC. Genome-wide RNA polymerase II: not genes only!. Trends Biochem Sci 2008, 33:265-273. 10.1016/j.tibs.2008.04.006, 18467100.
-
(2008)
Trends Biochem Sci
, vol.33
, pp. 265-273
-
-
Koch, F.1
Jourquin, F.2
Ferrier, P.3
Andrau, J.C.4
-
69
-
-
79951801979
-
Antisense expression increases gene expression variability and locus interdependency
-
3063692, 21326235
-
Xu Z, Wei W, Gagneur J, Clauder-Munster S, Smolik M, Huber W, Steinmetz LM. Antisense expression increases gene expression variability and locus interdependency. Mol Syst Biol 2011, 7:468. 3063692, 21326235.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 468
-
-
Xu, Z.1
Wei, W.2
Gagneur, J.3
Clauder-Munster, S.4
Smolik, M.5
Huber, W.6
Steinmetz, L.M.7
-
70
-
-
47649125318
-
Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation
-
Lopez-Maury L, Marguerat S, Bahler J. Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation. Nat Rev Genet 2008, 9:583-593.
-
(2008)
Nat Rev Genet
, vol.9
, pp. 583-593
-
-
Lopez-Maury, L.1
Marguerat, S.2
Bahler, J.3
-
71
-
-
29244476917
-
Filtering transcriptional noise during development: concepts and mechanisms
-
10.1038/nrg1750, 16369570
-
Arias AM, Hayward P. Filtering transcriptional noise during development: concepts and mechanisms. Nat Rev Genet 2006, 7:34-44. 10.1038/nrg1750, 16369570.
-
(2006)
Nat Rev Genet
, vol.7
, pp. 34-44
-
-
Arias, A.M.1
Hayward, P.2
-
72
-
-
0026581936
-
RAG-2 deficient mice lack mature lymphocytes owing to inability to initiate V(D)J rearrangement
-
10.1016/0092-8674(92)90029-C, 1547487
-
Shinkai Y, Rathbun G, Lam KP, Oltz EM, Stewart V, Mendelsohn M, Charron J, Datta M, Young K, Stall AL, Alt FW. RAG-2 deficient mice lack mature lymphocytes owing to inability to initiate V(D)J rearrangement. Cell 1992, 68:855-867. 10.1016/0092-8674(92)90029-C, 1547487.
-
(1992)
Cell
, vol.68
, pp. 855-867
-
-
Shinkai, Y.1
Rathbun, G.2
Lam, K.P.3
Oltz, E.M.4
Stewart, V.5
Mendelsohn, M.6
Charron, J.7
Datta, M.8
Young, K.9
Stall, A.L.10
Alt, F.W.11
-
73
-
-
80054910846
-
H3K4 tri-methylation provides an epigenetic signature of active enhancers
-
10.1038/emboj.2011.295, 3199384, 21847099
-
Pekowska A, Benoukraf T, Zacarias-Cabeza J, Belhocine M, Koch F, Holota H, Imbert J, Andrau JC, Ferrier P, Spicuglia S. H3K4 tri-methylation provides an epigenetic signature of active enhancers. EMBO J 2011, 30:4198-4210. 10.1038/emboj.2011.295, 3199384, 21847099.
-
(2011)
EMBO J
, vol.30
, pp. 4198-4210
-
-
Pekowska, A.1
Benoukraf, T.2
Zacarias-Cabeza, J.3
Belhocine, M.4
Koch, F.5
Holota, H.6
Imbert, J.7
Andrau, J.C.8
Ferrier, P.9
Spicuglia, S.10
-
74
-
-
77951770756
-
BEDTools: a flexible suite of utilities for comparing genomic features
-
10.1093/bioinformatics/btq033, 2832824, 20110278
-
Quinlan AR, Hall IM. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 2010, 26:841-842. 10.1093/bioinformatics/btq033, 2832824, 20110278.
-
(2010)
Bioinformatics
, vol.26
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
75
-
-
11144358198
-
A gene atlas of the mouse and human protein-encoding transcriptomes
-
10.1073/pnas.0400782101, 395923, 15075390
-
Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G, et al. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci U S A 2004, 101:6062-6067. 10.1073/pnas.0400782101, 395923, 15075390.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 6062-6067
-
-
Su, A.I.1
Wiltshire, T.2
Batalov, S.3
Lapp, H.4
Ching, K.A.5
Block, D.6
Zhang, J.7
Soden, R.8
Hayakawa, M.9
Kreiman, G.10
-
76
-
-
77952567987
-
Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities
-
10.1016/j.molcel.2010.05.004, 2898526, 20513432
-
Heinz S, Benner C, Spann N, Bertolino E, Lin YC, Laslo P, Cheng JX, Murre C, Singh H, Glass CK. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol Cell 2010, 38:576-589. 10.1016/j.molcel.2010.05.004, 2898526, 20513432.
-
(2010)
Mol Cell
, vol.38
, pp. 576-589
-
-
Heinz, S.1
Benner, C.2
Spann, N.3
Bertolino, E.4
Lin, Y.C.5
Laslo, P.6
Cheng, J.X.7
Murre, C.8
Singh, H.9
Glass, C.K.10
-
77
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
da Huang W, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 2009, 4:44-57.
-
(2009)
Nat Protoc
, vol.4
, pp. 44-57
-
-
da Huang, W.1
Sherman, B.T.2
Lempicki, R.A.3
-
78
-
-
84856340032
-
TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks
-
Lepoivre C, Bergon A, Lopez F, Perumal NB, Nguyen C, Imbert J, Puthier D. TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks. BMC Bioinf 2012, 13:19.
-
(2012)
BMC Bioinf
, vol.13
, pp. 19
-
-
Lepoivre, C.1
Bergon, A.2
Lopez, F.3
Perumal, N.B.4
Nguyen, C.5
Imbert, J.6
Puthier, D.7
|