-
1
-
-
84892814234
-
Chromatin modifiers and remodellers: regulators of cellular differentiation
-
Chen, T. and Dent, S.Y. (2014) Chromatin modifiers and remodellers: regulators of cellular differentiation. Nat. Rev. Genet., 15, 93-106.
-
(2014)
Nat. Rev. Genet.
, vol.15
, pp. 93-106
-
-
Chen, T.1
Dent, S.Y.2
-
2
-
-
84901954135
-
LincRNA-p21 activates p21 in cis to promote Polycomb target gene expression and to enforce the G1/S checkpoint
-
Dimitrova, N., Zamudio, J.R., Jong, R.M., Soukup, D., Resnick, R., Sarma, K., Ward, A.J., Raj, A., Lee, J.T., Sharp, P.A. et al. (2014) LincRNA-p21 activates p21 in cis to promote Polycomb target gene expression and to enforce the G1/S checkpoint. Mol. Cell., 54, 777-790.
-
(2014)
Mol. Cell.
, vol.54
, pp. 777-790
-
-
Dimitrova, N.1
Zamudio, J.R.2
Jong, R.M.3
Soukup, D.4
Resnick, R.5
Sarma, K.6
Ward, A.J.7
Raj, A.8
Lee, J.T.9
Sharp, P.A.10
-
3
-
-
84873829893
-
The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse
-
Grote, P., Wittler, L., Hendrix, D., Koch, F., Wahrisch, S., Beisaw, A., Macura, K., Blass, G., Kellis, M., Werber, M. et al. (2013) The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse. Dev. Cell., 24, 206-214.
-
(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
-
4
-
-
79953748673
-
A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression
-
Wang, K.C., Yang, Y.W., Liu, B., Sanyal, A., Corces-Zimmerman, R., Chen, Y., Lajoie, B.R., Protacio, A., Flynn, R.A., Gupta, R.A. et al. (2011) A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature, 472, 120-124.
-
(2011)
Nature
, vol.472
, pp. 120-124
-
-
Wang, K.C.1
Yang, Y.W.2
Liu, B.3
Sanyal, A.4
Corces-Zimmerman, R.5
Chen, Y.6
Lajoie, B.R.7
Protacio, A.8
Flynn, R.A.9
Gupta, R.A.10
-
5
-
-
79955468280
-
Long non-coding RNA ANRIL is required for the PRC2 recruitment to and silencing of p15 (INK4B) tumor suppressor gene
-
Kotake, Y., Nakagawa, T., Kitagawa, K., Suzuki, S., Liu, N., Kitagawa, M. and Xiong, Y. (2011) Long non-coding RNA ANRIL is required for the PRC2 recruitment to and silencing of p15 (INK4B) tumor suppressor gene. Oncogene, 30, 1956-1962.
-
(2011)
Oncogene
, vol.30
, pp. 1956-1962
-
-
Kotake, Y.1
Nakagawa, T.2
Kitagawa, K.3
Suzuki, S.4
Liu, N.5
Kitagawa, M.6
Xiong, Y.7
-
6
-
-
80052972698
-
The noncoding RNA Mistral activates Hoxa6 and Hoxa7 expression and stem cell differentiation by recruiting MLL1 to chromatin
-
Bertani, S., Sauer, S., Bolotin, E. and Sauer, F. (2011) The noncoding RNA Mistral activates Hoxa6 and Hoxa7 expression and stem cell differentiation by recruiting MLL1 to chromatin. Mol. Cell., 43, 1040-1046.
-
(2011)
Mol. Cell.
, vol.43
, pp. 1040-1046
-
-
Bertani, S.1
Sauer, S.2
Bolotin, E.3
Sauer, F.4
-
7
-
-
67650921949
-
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
-
Khalil, A.M., Guttman, M., Huarte, M., Garber, M., Raj, A., Rivea Morales, D., Thomas, K., Presser, A., Bernstein, B.E., van Oudenaarden, A. et al. (2009) Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc. Natl Acad. Sci. USA, 106, 11667-11672.
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 11667-11672
-
-
Khalil, A.M.1
Guttman, M.2
Huarte, M.3
Garber, M.4
Raj, A.5
Rivea Morales, D.6
Thomas, K.7
Presser, A.8
Bernstein, B.E.9
van Oudenaarden, A.10
-
8
-
-
84873300214
-
Braveheart, a long noncoding RNA required for cardiovascular lineage commitment
-
Klattenhoff, C.A., Scheuermann, J.C., Surface, L.E., Bradley, R. K., Fields, P.A., Steinhauser, M.L., Ding, H., Butty, V.L., Torrey, L., Haas, S. et al. (2013) Braveheart, a long noncoding RNA required for cardiovascular lineage commitment. Cell, 152, 570-583.
-
(2013)
Cell
, vol.152
, pp. 570-583
-
-
Klattenhoff, C.A.1
Scheuermann, J.C.2
Surface, L.E.3
Bradley, R.K.4
Fields, P.A.5
Steinhauser, M.L.6
Ding, H.7
Butty, V.L.8
Torrey, L.9
Haas, S.10
-
9
-
-
56549111129
-
The air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin
-
Nagano, T., Mitchell, J.A., Sanz, L.A., Pauler, F.M., Ferguson- Smith, A.C., Feil, R. and Fraser, P. (2008) The air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin. Science, 322, 1717-1720.
-
(2008)
Science
, vol.322
, pp. 1717-1720
-
-
Nagano, T.1
Mitchell, J.A.2
Sanz, L.A.3
Pauler, F.M.4
Ferguson-Smith, A.C.5
Feil, R.6
Fraser, P.7
-
10
-
-
54049138948
-
Kcnq1ot1 antisense noncoding RNA mediates lineage-specific transcriptional silencing through chromatin- level regulation
-
Pandey, R.R., Mondal, T., Mohammad, F., Enroth, S., Redrup, L., Komorowski, J., Nagano, T., Mancini-Dinardo, D. and Kanduri, C. (2008) Kcnq1ot1 antisense noncoding RNA mediates lineage-specific transcriptional silencing through chromatin- level regulation. Mol. Cell, 32, 232-246.
-
(2008)
Mol. Cell
, vol.32
, pp. 232-246
-
-
Pandey, R.R.1
Mondal, T.2
Mohammad, F.3
Enroth, S.4
Redrup, L.5
Komorowski, J.6
Nagano, T.7
Mancini-Dinardo, D.8
Kanduri, C.9
-
11
-
-
38049155825
-
Epigenetic silencing of tumour suppressor gene p15 by its antisense RNA
-
Yu, W., Gius, D., Onyango, P., Muldoon-Jacobs, K., Karp, J., Feinberg, A.P. and Cui, H. (2008) Epigenetic silencing of tumour suppressor gene p15 by its antisense RNA. Nature, 451, 202-206.
-
(2008)
Nature
, vol.451
, pp. 202-206
-
-
Yu, W.1
Gius, D.2
Onyango, P.3
Muldoon-Jacobs, K.4
Karp, J.5
Feinberg, A.P.6
Cui, H.7
-
12
-
-
77954572735
-
Long noncoding RNA as modular scaffold of histone modification complexes
-
Tsai, M.C., Manor, O., Wan, Y., Mosammaparast, N., Wang, J. K., Lan, F., Shi, Y., Segal, E. and Chang, H.Y. (2010) Long noncoding RNA as modular scaffold of histone modification complexes. Science, 329, 689-693.
-
(2010)
Science
, vol.329
, pp. 689-693
-
-
Tsai, M.C.1
Manor, O.2
Wan, Y.3
Mosammaparast, N.4
Wang, J.K.5
Lan, F.6
Shi, Y.7
Segal, E.8
Chang, H.Y.9
-
13
-
-
84865727393
-
The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression
-
Derrien, T., Johnson, R., Bussotti, G., Tanzer, A., Djebali, S., Tilgner, H., Guernec, G., Martin, D., Merkel, A., Knowles, D. G. et al. (2012) The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res., 22, 1775-1789.
-
(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
-
14
-
-
80052978224
-
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
-
Cabili, M.N., Trapnell, C., Goff, L., Koziol, M., Tazon-Vega, B., Regev, A. and Rinn, J.L. (2011) Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev., 25, 1915-1927.
-
(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
-
15
-
-
0142104045
-
Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs
-
Okazaki, Y., Furuno, M., Kasukawa, T., Adachi, J., Bono, H., Kondo, S., Nikaido, I., Osato, N., Saito, R., Suzuki, H. et al. (2002) Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature, 420, 563-573.
-
(2002)
Nature
, vol.420
, pp. 563-573
-
-
Okazaki, Y.1
Furuno, M.2
Kasukawa, T.3
Adachi, J.4
Bono, H.5
Kondo, S.6
Nikaido, I.7
Osato, N.8
Saito, R.9
Suzuki, H.10
-
16
-
-
33646473694
-
Complex Loci in human and mouse genomes
-
Engstrom, P.G., Suzuki, H., Ninomiya, N., Akalin, A., Sessa, L., Lavorgna, G., Brozzi, A., Luzi, L., Tan, S.L., Yang, L. et al. (2006) Complex Loci in human and mouse genomes. PLoS Genet., 2, e47.
-
(2006)
PLoS Genet.
, vol.2
-
-
Engstrom, P.G.1
Suzuki, H.2
Ninomiya, N.3
Akalin, A.4
Sessa, L.5
Lavorgna, G.6
Brozzi, A.7
Luzi, L.8
Tan, S.L.9
Yang, L.10
-
17
-
-
0033515637
-
A steroid receptor coactivator, SRA, functions as an RNA and is present in an SRC-1 complex
-
Lanz, R.B., McKenna, N.J., Onate, S.A., Albrecht, U., Wong, J., Tsai, S.Y., Tsai, M.J. and O'Malley, B.W. (1999) A steroid receptor coactivator, SRA, functions as an RNA and is present in an SRC-1 complex. Cell, 97, 17-27.
-
(1999)
Cell
, vol.97
, pp. 17-27
-
-
Lanz, R.B.1
McKenna, N.J.2
Onate, S.A.3
Albrecht, U.4
Wong, J.5
Tsai, S.Y.6
Tsai, M.J.7
O'Malley, B.W.8
-
18
-
-
0025961771
-
A gene from the region of the human X inactivation centre is expressed exclusively from the inactive X chromosome
-
Brown, C.J., Ballabio, A., Rupert, J.L., Lafreniere, R.G., Grompe, M., Tonlorenzi, R. andWillard, H.F. (1991) A gene from the region of the human X inactivation centre is expressed exclusively from the inactive X chromosome. Nature, 349, 38-44.
-
(1991)
Nature
, vol.349
, pp. 38-44
-
-
Brown, C.J.1
Ballabio, A.2
Rupert, J.L.3
Lafreniere, R.G.4
Grompe, M.5
Tonlorenzi, R.6
Willard, H.F.7
-
19
-
-
0025727201
-
Conservation of position and exclusive expression of mouse Xist from the inactive X chromosome
-
Brockdorff, N., Ashworth, A., Kay, G.F., Cooper, P., Smith, S., McCabe, V.M., Norris, D.P., Penny, G.D., Patel, D. and Rastan, S. (1991) Conservation of position and exclusive expression of mouse Xist from the inactive X chromosome. Nature, 351, 329-331.
-
(1991)
Nature
, vol.351
, pp. 329-331
-
-
Brockdorff, N.1
Ashworth, A.2
Kay, G.F.3
Cooper, P.4
Smith, S.5
McCabe, V.M.6
Norris, D.P.7
Penny, G.D.8
Patel, D.9
Rastan, S.10
-
20
-
-
0037075032
-
The non-coding Air RNA is required for silencing autosomal imprinted genes
-
Sleutels, F., Zwart, R. and Barlow, D.P. (2002) The non-coding Air RNA is required for silencing autosomal imprinted genes. Nature, 415, 810-813.
-
(2002)
Nature
, vol.415
, pp. 810-813
-
-
Sleutels, F.1
Zwart, R.2
Barlow, D.P.3
-
21
-
-
33751277900
-
Identification of a novel non-coding RNA, MIAT, that confers risk of myocardial infarction
-
Ishii, N., Ozaki, K., Sato, H., Mizuno, H., Saito, S., Takahashi, A., Miyamoto, Y., Ikegawa, S., Kamatani, N., Hori, M. et al. (2006) Identification of a novel non-coding RNA, MIAT, that confers risk of myocardial infarction. J. Hum. Genet., 51, 1087-1099.
-
(2006)
J. Hum. Genet.
, vol.51
, pp. 1087-1099
-
-
Ishii, N.1
Ozaki, K.2
Sato, H.3
Mizuno, H.4
Saito, S.5
Takahashi, A.6
Miyamoto, Y.7
Ikegawa, S.8
Kamatani, N.9
Hori, M.10
-
22
-
-
61849113891
-
MEN varepsilon/beta nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles
-
Sunwoo, H., Dinger, M.E., Wilusz, J.E., Amaral, P.P., Mattick, J. S. and Spector, D.L. (2009) MEN varepsilon/beta nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles. Genome Res., 19, 347-359.
-
(2009)
Genome Res.
, vol.19
, pp. 347-359
-
-
Sunwoo, H.1
Dinger, M.E.2
Wilusz, J.E.3
Amaral, P.P.4
Mattick, J.S.5
Spector, D.L.6
-
23
-
-
84869088820
-
Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat
-
Carrieri, C., Cimatti, L., Biagioli, M., Beugnet, A., Zucchelli, S., Fedele, S., Pesce, E., Ferrer, I., Collavin, L., Santoro, C. et al. (2012) Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat. Nature, 491, 454-457.
-
(2012)
Nature
, vol.491
, 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
-
24
-
-
84891757415
-
Multiple knockout mouse models reveal lincRNAs are required for life and brain development
-
Sauvageau, M., Goff, L.A., Lodato, S., Bonev, B., Groff, A.F., Gerhardinger, C., Sanchez-Gomez, D.B., Hacisuleyman, E., Li, E. and Spence, M. et al. (2013) Multiple knockout mouse models reveal lincRNAs are required for life and brain development. eLife, 2, e01749.
-
(2013)
eLife
, vol.2
-
-
Sauvageau, M.1
Goff, L.A.2
Lodato, S.3
Bonev, B.4
Groff, A.F.5
Gerhardinger, C.6
Sanchez-Gomez, D.B.7
Hacisuleyman, E.8
Li, E.9
Spence, M.10
-
25
-
-
84455206362
-
Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution
-
Ulitsky, I., Shkumatava, A., Jan, C.H., Sive, H. and Bartel, D.P. (2011) Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. Cell, 147, 1537-1550.
-
(2011)
Cell
, vol.147
, pp. 1537-1550
-
-
Ulitsky, I.1
Shkumatava, A.2
Jan, C.H.3
Sive, H.4
Bartel, D.P.5
-
26
-
-
77953957633
-
A coding-independent function of gene and pseudogene mRNAs regulates tumour biology
-
Poliseno, L., Salmena, L., Zhang, J., Carver, B., Haveman, W.J. and Pandolfi, P.P. (2010) A coding-independent function of gene and pseudogene mRNAs regulates tumour biology. Nature, 465, 1033-1038.
-
(2010)
Nature
, vol.465
, pp. 1033-1038
-
-
Poliseno, L.1
Salmena, L.2
Zhang, J.3
Carver, B.4
Haveman, W.J.5
Pandolfi, P.P.6
-
27
-
-
80054715378
-
A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA
-
Cesana, M., Cacchiarelli, D., Legnini, I., Santini, T., Sthandier, O., Chinappi, M., Tramontano, A. and Bozzoni, I. (2011) A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell, 147, 358-369.
-
(2011)
Cell
, vol.147
, pp. 358-369
-
-
Cesana, M.1
Cacchiarelli, D.2
Legnini, I.3
Santini, T.4
Sthandier, O.5
Chinappi, M.6
Tramontano, A.7
Bozzoni, I.8
-
28
-
-
84876177255
-
A pseudogene long-noncoding-RNA network regulates PTEN transcription and translation in human cells
-
Johnsson, P., Ackley, A., Vidarsdottir, L., Lui, W.O., Corcoran, M., Grander, D. and Morris, K.V. (2013) A pseudogene long-noncoding-RNA network regulates PTEN transcription and translation in human cells. Nat. Struct. Mol. Biol., 20, 440-446.
-
(2013)
Nat. Struct. Mol. Biol.
, vol.20
, pp. 440-446
-
-
Johnsson, P.1
Ackley, A.2
Vidarsdottir, L.3
Lui, W.O.4
Corcoran, M.5
Grander, D.6
Morris, K.V.7
-
29
-
-
79951495822
-
lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3' UTRs via Alu elements
-
Gong, C. and Maquat, L.E. (2011) lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3' UTRs via Alu elements. Nature, 470, 284-288.
-
(2011)
Nature
, vol.470
, pp. 284-288
-
-
Gong, C.1
Maquat, L.E.2
-
30
-
-
84856782922
-
Decapping of long noncoding RNAs regulates inducible genes
-
Geisler, S., Lojek, L., Khalil, A.M., Baker, K.E. and Coller, J. (2012) Decapping of long noncoding RNAs regulates inducible genes. Mol. Cell, 45, 279-291.
-
(2012)
Mol. Cell
, vol.45
, pp. 279-291
-
-
Geisler, S.1
Lojek, L.2
Khalil, A.M.3
Baker, K.E.4
Coller, J.5
-
31
-
-
77951638287
-
Noncoding RNA gas5 is a growth arrest- and starvation- associated repressor of the glucocorticoid receptor
-
Kino, T., Hurt, D.E., Ichijo, T., Nader, N. and Chrousos, G.P. (2010) Noncoding RNA gas5 is a growth arrest- and starvation- associated repressor of the glucocorticoid receptor. Sci. Signal, 3, ra8.
-
(2010)
Sci. Signal
, vol.3
-
-
Kino, T.1
Hurt, D.E.2
Ichijo, T.3
Nader, N.4
Chrousos, G.P.5
-
33
-
-
78650253763
-
Genome-wide identification of polycomb-associated RNAs by RIP-seq
-
Zhao, J., Ohsumi, T.K., Kung, J.T., Ogawa, Y., Grau, D.J., Sarma, K., Song, J.J., Kingston, R.E., Borowsky, M. and Lee, J.T. (2010) Genome-wide identification of polycomb-associated RNAs by RIP-seq. Mol. Cell, 40, 939-953.
-
(2010)
Mol. Cell
, vol.40
, pp. 939-953
-
-
Zhao, J.1
Ohsumi, T.K.2
Kung, J.T.3
Ogawa, Y.4
Grau, D.J.5
Sarma, K.6
Song, J.J.7
Kingston, R.E.8
Borowsky, M.9
Lee, J.T.10
-
34
-
-
84924063355
-
The landscape of long noncoding RNAs in the human transcriptome
-
Iyer, M.K., Niknafs, Y.S., Malik, R., Singhal, U., Sahu, A., Hosono, Y., Barrette, T.R., Prensner, J.R., Evans, J.R., Zhao, S. et al. (2015) The landscape of long noncoding RNAs in the human transcriptome. Nat. Genet., 47, 199-208.
-
(2015)
Nat. Genet.
, vol.47
, pp. 199-208
-
-
Iyer, M.K.1
Niknafs, Y.S.2
Malik, R.3
Singhal, U.4
Sahu, A.5
Hosono, Y.6
Barrette, T.R.7
Prensner, J.R.8
Evans, J.R.9
Zhao, S.10
-
35
-
-
84925388291
-
Integrative transcriptome- wide analyses reveal critical HER2-regulated mRNAs and lincRNAs in HER2+ breast cancer
-
Merry, C.R., McMahon, S., Thompson, C.L., Miskimen, K.L., Harris, L.N. and Khalil, A.M. (2015) Integrative transcriptome- wide analyses reveal critical HER2-regulated mRNAs and lincRNAs in HER2+ breast cancer. Breast Cancer Res. Treat., 150, 321-334.
-
(2015)
Breast Cancer Res. Treat.
, vol.150
, pp. 321-334
-
-
Merry, C.R.1
McMahon, S.2
Thompson, C.L.3
Miskimen, K.L.4
Harris, L.N.5
Khalil, A.M.6
-
36
-
-
84903785714
-
LincRNA-ROR induces epithelial- to-mesenchymal transition and contributes to breast cancer tumorigenesis and metastasis
-
Hou, P., Zhao, Y., Li, Z., Yao, R., Ma, M., Gao, Y., Zhao, L., Zhang, Y., Huang, B. and Lu, J. (2014) LincRNA-ROR induces epithelial- to-mesenchymal transition and contributes to breast cancer tumorigenesis and metastasis. Cell Death Dis., 5, e1287.
-
(2014)
Cell Death Dis.
, vol.5
-
-
Hou, P.1
Zhao, Y.2
Li, Z.3
Yao, R.4
Ma, M.5
Gao, Y.6
Zhao, L.7
Zhang, Y.8
Huang, B.9
Lu, J.10
-
37
-
-
84874053510
-
Xist RNA is a potent suppressor of hematologic cancer in mice
-
Yildirim, E., Kirby, J.E., Brown, D.E., Mercier, F.E., Sadreyev, R. I., Scadden, D.T. and Lee, J.T. (2013) Xist RNA is a potent suppressor of hematologic cancer in mice. Cell, 152, 727-742.
-
(2013)
Cell
, vol.152
, pp. 727-742
-
-
Yildirim, E.1
Kirby, J.E.2
Brown, D.E.3
Mercier, F.E.4
Sadreyev, R.I.5
Scadden, D.T.6
Lee, J.T.7
-
38
-
-
84901585322
-
Identification of mRNAs and lincRNAs associated with lung cancer progression using next-generation RNA sequencing from laser micro-dissected archival FFPE tissue specimens
-
Morton, M.L., Bai, X., Merry, C.R., Linden, P.A., Khalil, A.M., Leidner, R.S. and Thompson, C.L. (2014) Identification of mRNAs and lincRNAs associated with lung cancer progression using next-generation RNA sequencing from laser micro-dissected archival FFPE tissue specimens. Lung. Cancer, 85, 31-39.
-
(2014)
Lung. Cancer
, vol.85
, pp. 31-39
-
-
Morton, M.L.1
Bai, X.2
Merry, C.R.3
Linden, P.A.4
Khalil, A.M.5
Leidner, R.S.6
Thompson, C.L.7
-
39
-
-
84904744663
-
Differences in DNA methylation signatures reveal multiple pathways of progression from adenoma to colorectal cancer
-
Luo, Y., Wong, C.J., Kaz, A.M., Dzieciatkowski, S., Carter, K.T., Morris, S.M., Wang, J., Willis, J.E., Makar, K.W., Ulrich, C.M. et al. (2014) Differences in DNA methylation signatures reveal multiple pathways of progression from adenoma to colorectal cancer. Gastroenterology, 147, 418-429 e418.
-
(2014)
Gastroenterology
, vol.147
, pp. 418-429 e418
-
-
Luo, Y.1
Wong, C.J.2
Kaz, A.M.3
Dzieciatkowski, S.4
Carter, K.T.5
Morris, S.M.6
Wang, J.7
Willis, J.E.8
Makar, K.W.9
Ulrich, C.M.10
-
40
-
-
84882884517
-
Charting a dynamic DNA methylation landscape of the human genome
-
Ziller, M.J., Gu, H., Muller, F., Donaghey, J., Tsai, L.T., Kohlbacher, O., De Jager, P.L., Rosen, E.D., Bennett, D.A., Bernstein, B. E. et al. (2013) Charting a dynamic DNA methylation landscape of the human genome. Nature, 500, 477-481.
-
(2013)
Nature
, vol.500
, pp. 477-481
-
-
Ziller, M.J.1
Gu, H.2
Muller, F.3
Donaghey, J.4
Tsai, L.T.5
Kohlbacher, O.6
De Jager, P.L.7
Rosen, E.D.8
Bennett, D.A.9
Bernstein, B.E.10
-
41
-
-
84878632825
-
Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues
-
Simmer, F., Brinkman, A.B., Assenov, Y., Matarese, F., Kaan, A., Sabatino, L., Villanueva, A., Huertas, D., Esteller, M., Lengauer, T. et al. (2012) Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues. Epigenetics, 7, 1355-1367.
-
(2012)
Epigenetics
, vol.7
, pp. 1355-1367
-
-
Simmer, F.1
Brinkman, A.B.2
Assenov, Y.3
Matarese, F.4
Kaan, A.5
Sabatino, L.6
Villanueva, A.7
Huertas, D.8
Esteller, M.9
Lengauer, T.10
-
42
-
-
77449153454
-
Genome- scale DNA methylation mapping of clinical samples at single-nucleotide resolution
-
Gu, H., Bock, C., Mikkelsen, T.S., Jager, N., Smith, Z.D., Tomazou, E., Gnirke, A., Lander, E.S. and Meissner, A. (2010) Genome- scale DNA methylation mapping of clinical samples at single-nucleotide resolution. Nat. Methods, 7, 133-136.
-
(2010)
Nat. Methods
, vol.7
, pp. 133-136
-
-
Gu, H.1
Bock, C.2
Mikkelsen, T.S.3
Jager, N.4
Smith, Z.D.5
Tomazou, E.6
Gnirke, A.7
Lander, E.S.8
Meissner, A.9
-
43
-
-
84892763878
-
Reversing DNA methylation: mechanisms, genomics, and biological functions
-
Wu, H. and Zhang, Y. (2014) Reversing DNA methylation: mechanisms, genomics, and biological functions. Cell, 156, 45-68.
-
(2014)
Cell
, vol.156
, pp. 45-68
-
-
Wu, H.1
Zhang, Y.2
-
44
-
-
77954661906
-
DNA hypomethylation in cancer cells
-
Ehrlich, M. (2009) DNA hypomethylation in cancer cells. Epigenomics, 1, 239-259.
-
(2009)
Epigenomics
, vol.1
, pp. 239-259
-
-
Ehrlich, M.1
-
45
-
-
74049141478
-
Epigenetics in cancer
-
Sharma, S., Kelly, T.K. and Jones, P.A. (2010) Epigenetics in cancer. Carcinogenesis, 31, 27-36.
-
(2010)
Carcinogenesis
, vol.31
, pp. 27-36
-
-
Sharma, S.1
Kelly, T.K.2
Jones, P.A.3
-
46
-
-
38749142157
-
Epitope tagging of endogenous proteins for genome-wide ChIP-chip studies
-
Zhang, X., Guo, C., Chen, Y., Shulha, H.P., Schnetz, M.P., La- Framboise, T., Bartels, C.F., Markowitz, S., Weng, Z., Scacheri, P.C. et al. (2008) Epitope tagging of endogenous proteins for genome-wide ChIP-chip studies. Nat. Methods, 5, 163-165.
-
(2008)
Nat. Methods
, vol.5
, pp. 163-165
-
-
Zhang, X.1
Guo, C.2
Chen, Y.3
Shulha, H.P.4
Schnetz, M.P.5
La-Framboise, T.6
Bartels, C.F.7
Markowitz, S.8
Weng, Z.9
Scacheri, P.C.10
-
47
-
-
84872198346
-
Differential analysis of gene regulation at transcript resolution with RNA-seq
-
Trapnell, C., Hendrickson, D.G., Sauvageau, M., Goff, L., Rinn, J.L. and Pachter, L. (2013) Differential analysis of gene regulation at transcript resolution with RNA-seq. Nat. Biotechnol., 31, 46-53.
-
(2013)
Nat. Biotechnol.
, vol.31
, pp. 46-53
-
-
Trapnell, C.1
Hendrickson, D.G.2
Sauvageau, M.3
Goff, L.4
Rinn, J.L.5
Pachter, L.6
-
48
-
-
0031964859
-
Smad6 inhibits BMP/Smad1 signaling by specifically competing with the Smad4 tumor suppressor
-
Hata, A., Lagna, G., Massague, J. and Hemmati-Brivanlou, A. (1998) Smad6 inhibits BMP/Smad1 signaling by specifically competing with the Smad4 tumor suppressor. Genes Dev., 12, 186-197.
-
(1998)
Genes Dev.
, vol.12
, pp. 186-197
-
-
Hata, A.1
Lagna, G.2
Massague, J.3
Hemmati-Brivanlou, A.4
-
49
-
-
42949160593
-
The bone morphogenetic protein pathway is inactivated in the majority of sporadic colorectal cancers
-
Kodach, L.L., Wiercinska, E., de Miranda, N.F., Bleuming, S. A., Musler, A.R., Peppelenbosch, M.P., Dekker, E., van den Brink, G.R., van Noesel, C.J., Morreau, H. et al. (2008) The bone morphogenetic protein pathway is inactivated in the majority of sporadic colorectal cancers. Gastroenterology, 134, 1332-1341.
-
(2008)
Gastroenterology
, vol.134
, pp. 1332-1341
-
-
Kodach, L.L.1
Wiercinska, E.2
de Miranda, N.F.3
Bleuming, S.A.4
Musler, A.R.5
Peppelenbosch, M.P.6
Dekker, E.7
van den Brink, G.R.8
van Noesel, C.J.9
Morreau, H.10
-
50
-
-
84893386128
-
Cystathionine beta-synthase (CBS) contributes to advanced ovarian cancer progression and drug resistance
-
Bhattacharyya, S., Saha, S., Giri, K., Lanza, I.R., Nair, K.S., Jennings, N.B., Rodriguez-Aguayo, C., Lopez-Berestein, G., Basal, E., Weaver, A.L. et al. (2013) Cystathionine beta-synthase (CBS) contributes to advanced ovarian cancer progression and drug resistance. PLoS One, 8, e79167.
-
(2013)
PLoS One
, vol.8
-
-
Bhattacharyya, S.1
Saha, S.2
Giri, K.3
Lanza, I.R.4
Nair, K.S.5
Jennings, N.B.6
Rodriguez-Aguayo, C.7
Lopez-Berestein, G.8
Basal, E.9
Weaver, A.L.10
-
51
-
-
84878520425
-
Asparagine synthetase: regulation by cell stress and involvement in tumor biology
-
Balasubramanian, M.N., Butterworth, E.A. and Kilberg, M.S. (2013) Asparagine synthetase: regulation by cell stress and involvement in tumor biology. Am. J. Physiol. Endocrinol. Metab., 304, E789-E799.
-
(2013)
Am. J. Physiol. Endocrinol. Metab.
, vol.304
, pp. E789-E799
-
-
Balasubramanian, M.N.1
Butterworth, E.A.2
Kilberg, M.S.3
-
52
-
-
80051923932
-
Functional genomics reveal that the serine synthesis pathway is essential in breast cancer
-
Possemato, R., Marks, K.M., Shaul, Y.D., Pacold, M.E., Kim, D., Birsoy, K., Sethumadhavan, S., Woo, H.K., Jang, H.G., Jha, A.K. et al. (2011) Functional genomics reveal that the serine synthesis pathway is essential in breast cancer. Nature, 476, 346-350.
-
(2011)
Nature
, vol.476
, pp. 346-350
-
-
Possemato, R.1
Marks, K.M.2
Shaul, Y.D.3
Pacold, M.E.4
Kim, D.5
Birsoy, K.6
Sethumadhavan, S.7
Woo, H.K.8
Jang, H.G.9
Jha, A.K.10
-
53
-
-
84897392385
-
Serine and glycine metabolism in cancer
-
Amelio, I., Cutruzzola, F., Antonov, A., Agostini, M. and Melino, G. (2014) Serine and glycine metabolism in cancer. Trends Biochem. Sci., 39, 191-198.
-
(2014)
Trends Biochem. Sci.
, vol.39
, pp. 191-198
-
-
Amelio, I.1
Cutruzzola, F.2
Antonov, A.3
Agostini, M.4
Melino, G.5
-
54
-
-
84881177291
-
Serine, glycine and one-carbon units: cancer metabolism in full circle
-
Locasale, J.W. (2013) Serine, glycine and one-carbon units: cancer metabolism in full circle. Nat. Rev. Cancer, 13, 572-583.
-
(2013)
Nat. Rev. Cancer
, vol.13
, pp. 572-583
-
-
Locasale, J.W.1
-
55
-
-
84869082905
-
Serine is a natural ligand and allosteric activator of pyruvate kinase M2
-
Chaneton, B., Hillmann, P., Zheng, L., Martin, A.C., Maddocks, O.D., Chokkathukalam, A., Coyle, J.E., Jankevics, A., Holding, F.P., Vousden, K.H. et al. (2012) Serine is a natural ligand and allosteric activator of pyruvate kinase M2. Nature, 491, 458-462.
-
(2012)
Nature
, vol.491
, pp. 458-462
-
-
Chaneton, B.1
Hillmann, P.2
Zheng, L.3
Martin, A.C.4
Maddocks, O.D.5
Chokkathukalam, A.6
Coyle, J.E.7
Jankevics, A.8
Holding, F.P.9
Vousden, K.H.10
-
56
-
-
80054756754
-
Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions
-
Chu, C., Qu, K., Zhong, F.L., Artandi, S.E. and Chang, H.Y. (2011) Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions. Mol. Cell., 44, 667-678.
-
(2011)
Mol. Cell.
, vol.44
, pp. 667-678
-
-
Chu, C.1
Qu, K.2
Zhong, F.L.3
Artandi, S.E.4
Chang, H.Y.5
-
57
-
-
79958269950
-
RNA-protein interactions in human health and disease
-
Khalil, A.M. and Rinn, J.L. (2011) RNA-protein interactions in human health and disease. Semin. Cell Dev. Biol., 22, 359-365.
-
(2011)
Semin. Cell Dev. Biol.
, vol.22
, pp. 359-365
-
-
Khalil, A.M.1
Rinn, J.L.2
-
58
-
-
84895908120
-
The evolution of lncRNA repertoires and expression patterns in tetrapods
-
Necsulea, A., Soumillon, M., Warnefors, M., Liechti, A., Daish, T., Zeller, U., Baker, J.C., Grutzner, F. and Kaessmann, H. (2014) The evolution of lncRNA repertoires and expression patterns in tetrapods. Nature, 505, 635-640.
-
(2014)
Nature
, vol.505
, pp. 635-640
-
-
Necsulea, A.1
Soumillon, M.2
Warnefors, M.3
Liechti, A.4
Daish, T.5
Zeller, U.6
Baker, J.C.7
Grutzner, F.8
Kaessmann, H.9
-
59
-
-
79957983437
-
Structural and functional differences in the long non-coding RNA hot air in mouse and human
-
Schorderet, P. and Duboule, D. (2011) Structural and functional differences in the long non-coding RNA hot air in mouse and human. PLoS Genet., 7, e1002071.
-
(2011)
PLoS Genet.
, vol.7
-
-
Schorderet, P.1
Duboule, D.2
-
60
-
-
84874889081
-
PKM2, a central point of regulation in cancer metabolism
-
Wong, N., De Melo, J. and Tang, D. (2013) PKM2, a central point of regulation in cancer metabolism. Int. J. Cell Biol., 2013, 242513.
-
(2013)
Int. J. Cell Biol.
, vol.2013
-
-
Wong, N.1
De Melo, J.2
Tang, D.3
-
61
-
-
40749099894
-
Pyruvate kinase M2 is a phosphotyrosinebinding protein
-
Christofk, H.R., Vander Heiden, M.G., Wu, N., Asara, J.M. and Cantley, L.C. (2008) Pyruvate kinase M2 is a phosphotyrosinebinding protein. Nature, 452, 181-186.
-
(2008)
Nature
, vol.452
, pp. 181-186
-
-
Christofk, H.R.1
Vander Heiden, M.G.2
Wu, N.3
Asara, J.M.4
Cantley, L.C.5
-
62
-
-
77955110979
-
Genome-wide computational identification and manual annotation of human long noncoding RNA genes
-
Jia, H., Osak, M., Bogu, G.K., Stanton, L.W., Johnson, R. and Lipovich, L. (2010) Genome-wide computational identification and manual annotation of human long noncoding RNA genes. RNA, 16, 1478-1487.
-
(2010)
RNA
, vol.16
, pp. 1478-1487
-
-
Jia, H.1
Osak, M.2
Bogu, G.K.3
Stanton, L.W.4
Johnson, R.5
Lipovich, L.6
-
63
-
-
84867489630
-
Co-Immunoprecipitation of long noncoding RNAs
-
Moran, V.A., Niland, C.N. and Khalil, A.M. (2012) Co-Immunoprecipitation of long noncoding RNAs. Methods Mol. Biol., 925, 219-228.
-
(2012)
Methods Mol. Biol.
, vol.925
, pp. 219-228
-
-
Moran, V.A.1
Niland, C.N.2
Khalil, A.M.3
-
64
-
-
0024421742
-
Direct, sequence-specific binding of the human U1-70K ribonucleoprotein antigen protein to loop I of U1 small nuclear RNA
-
Surowy, C.S., van Santen, V.L., Scheib-Wixted, S.M. and Spritz, R.A. (1989) Direct, sequence-specific binding of the human U1-70K ribonucleoprotein antigen protein to loop I of U1 small nuclear RNA. Mol. Cell Biol., 9, 4179-4186.
-
(1989)
Mol. Cell Biol.
, vol.9
, pp. 4179-4186
-
-
Surowy, C.S.1
van Santen, V.L.2
Scheib-Wixted, S.M.3
Spritz, R.A.4
-
65
-
-
84863205849
-
NIH Image to ImageJ: 25 years of image analysis
-
Schneider, C.A., Rasband, W.S. and Eliceiri, K.W. (2012) NIH Image to ImageJ: 25 years of image analysis. Nat. Methods, 9, 671-675.
-
(2012)
Nat. Methods
, vol.9
, pp. 671-675
-
-
Schneider, C.A.1
Rasband, W.S.2
Eliceiri, K.W.3
|