-
1
-
-
79955622702
-
Epigenetic regulation of gene expression in physiological and pathological brain processes
-
Graff, J., Kim, D., Dobbin, M.M. and Tsai, L.H. (2011) Epigenetic regulation of gene expression in physiological and pathological brain processes. Physiol. Rev., 91, 603-649.
-
(2011)
Physiol. Rev
, vol.91
, pp. 603-649
-
-
Graff, J.1
Kim, D.2
Dobbin, M.M.3
Tsai, L.H.4
-
2
-
-
70449725209
-
Epigenetic mechanisms in neurological diseases: Genes, syndromes, and therapies
-
Urdinguio, R.G., Sanchez-Mut, J.V. and Esteller, M. (2009) Epigenetic mechanisms in neurological diseases: Genes, syndromes, and therapies. Lancet Neurol., 8, 1056-1072.
-
(2009)
Lancet Neurol
, vol.8
, pp. 1056-1072
-
-
Urdinguio, R.G.1
Sanchez-Mut, J.V.2
Esteller, M.3
-
3
-
-
79960276209
-
Balancing histone methylation activities in psychiatric disorders
-
Peter, C.J. and Akbarian, S. (2011) Balancing histone methylation activities in psychiatric disorders. Trends Mol. Med., 17, 372-379.
-
(2011)
Trends Mol. Med
, vol.17
, pp. 372-379
-
-
Peter, C.J.1
Akbarian, S.2
-
4
-
-
84864700183
-
Epigenetic mechanisms in neurological disease
-
Jakovcevski, M. and Akbarian, S. (2012) Epigenetic mechanisms in neurological disease. Nat. Med., 18, 1194-1204.
-
(2012)
Nat. Med
, vol.18
, pp. 1194-1204
-
-
Jakovcevski, M.1
Akbarian, S.2
-
5
-
-
0035839126
-
Epigenetic reprogramming in mammalian development
-
Reik, W., Dean, W. and Walter, J. (2001) Epigenetic reprogramming in mammalian development. Science, 293, 1089-1093.
-
(2001)
Science
, vol.293
, pp. 1089-1093
-
-
Reik, W.1
Dean, W.2
Walter, J.3
-
6
-
-
0036144048
-
DNA methylation patterns and epigenetic memory
-
Bird, A. (2002) DNA methylation patterns and epigenetic memory. Genes Dev., 16, 6-21.
-
(2002)
Genes Dev
, vol.16
, pp. 6-21
-
-
Bird, A.1
-
7
-
-
34249279527
-
Stability and flexibility of epigenetic gene regulation in mammalian development
-
Reik, W. (2007) Stability and flexibility of epigenetic gene regulation in mammalian development. Nature, 447, 425-432.
-
(2007)
Nature
, vol.447
, pp. 425-432
-
-
Reik, W.1
-
8
-
-
70450217879
-
Human DNA methylomes at base resolution show widespread epigenomic differences
-
Lister, R., Pelizzola, M., Dowen, R.H., Hawkins, R.D., Hon, G., Tonti-Filippini, J., Nery, J.R., Lee, L., Ye, Z., Ngo, Q.M. et al. (2009) Human DNA methylomes at base resolution show widespread epigenomic differences. Nature, 462, 315-322.
-
(2009)
Nature
, vol.462
, pp. 315-322
-
-
Lister, R.1
Pelizzola, M.2
Dowen, R.H.3
Hawkins, R.D.4
Hon, G.5
Tonti-Filippini, J.6
Nery, J.R.7
Lee, L.8
Ye, Z.9
Ngo, Q.M.10
-
9
-
-
84855281409
-
Genomic distribution and inter-sample variation of non-CpG methylation across human cell types
-
Ziller, M.J., Muller, F., Liao, J., Zhang, Y., Gu, H., Bock, C., Boyle, P., Epstein, C.B., Bernstein, B.E., Lengauer, T. et al. (2011) Genomic distribution and inter-sample variation of non-CpG methylation across human cell types. PLoS. Genet., 7, e1002389.
-
(2011)
PLoS. Genet
, vol.7
-
-
Ziller, M.J.1
Muller, F.2
Liao, J.3
Zhang, Y.4
Gu, H.5
Bock, C.6
Boyle, P.7
Epstein, C.B.8
Bernstein, B.E.9
Lengauer, T.10
-
10
-
-
84857331867
-
Base-resolution analyses of sequence and parent-of-origin dependent DNA methylation in the mouse genome
-
Xie, W., Barr, C.L., Kim, A., Yue, F., Lee, A.Y., Eubanks, J., Dempster, E.L. and Ren, B. (2012) Base-resolution analyses of sequence and parent-of-origin dependent DNA methylation in the mouse genome. Cell, 148, 816-831.
-
(2012)
Cell
, vol.148
, pp. 816-831
-
-
Xie, W.1
Barr, C.L.2
Kim, A.3
Yue, F.4
Lee, A.Y.5
Eubanks, J.6
Dempster, E.L.7
Ren, B.8
-
11
-
-
84874624739
-
Dynamic DNA methylation across diverse human cell lines and tissues
-
Varley, K.E., Gertz, J., Bowling, K.M., Parker, S.L., Reddy, T.E., Pauli-Behn, F., Cross, M.K., Williams, B.A., Stamatoyannopoulos, J.A., Crawford, G.E. et al. (2013) Dynamic DNA methylation across diverse human cell lines and tissues. Genome Res., 23, 555-567.
-
(2013)
Genome Res
, vol.23
, pp. 555-567
-
-
Varley, K.E.1
Gertz, J.2
Bowling, K.M.3
Parker, S.L.4
Reddy, T.E.5
Pauli-Behn, F.6
Cross, M.K.7
Williams, B.A.8
Stamatoyannopoulos, J.A.9
Crawford, G.E.10
-
12
-
-
0035656305
-
DNA methylation is a critical cell-intrinsic determinant of astrocyte differentiation in the fetal brain
-
Takizawa, T., Nakashima, K., Namihira, M., Ochiai, W., Uemura, A., Yanagisawa, M., Fujita, N., Nakao, M. and Taga, T. (2001) DNA methylation is a critical cell-intrinsic determinant of astrocyte differentiation in the fetal brain. Dev. Cell, 1, 749-758.
-
(2001)
Dev. Cell
, vol.1
, pp. 749-758
-
-
Takizawa, T.1
Nakashima, K.2
Namihira, M.3
Ochiai, W.4
Uemura, A.5
Yanagisawa, M.6
Fujita, N.7
Nakao, M.8
Taga, T.9
-
13
-
-
77950187447
-
Dnmt1 and Dnmt3a maintain DNA methylation and regulate synaptic function in adult forebrain neurons
-
Feng, J., Zhou, Y., Campbell, S.L., Le, T., Li, E., Sweatt, J.D., Silva, A.J. and Fan, G. (2010) Dnmt1 and Dnmt3a maintain DNA methylation and regulate synaptic function in adult forebrain neurons. Nat. Neurosci., 13, 423-430.
-
(2010)
Nat. Neurosci
, vol.13
, pp. 423-430
-
-
Feng, J.1
Zhou, Y.2
Campbell S.L. Le, T.3
Li, E.4
Sweatt, J.D.5
Silva, A.J.6
Fan, G.7
-
14
-
-
77956139754
-
Dnmt3a regulates emotional behavior and spine plasticity in the nucleus accumbens
-
LaPlant, Q., Vialou, V., Covington, H.E. III, Dumitriu, D., Feng, J., Warren, B.L., Maze, I., Dietz, D.M., Watts, E.L., Iniguez, S.D. et al. (2010) Dnmt3a regulates emotional behavior and spine plasticity in the nucleus accumbens. Nat. Neurosci., 13, 1137-1143.
-
(2010)
Nat. Neurosci
, vol.13
, pp. 1137-1143
-
-
LaPlant, Q.1
Vialou, V.2
Covington III, H.E.3
Dumitriu, D.4
Feng, J.5
Warren, B.L.6
Maze, I.7
Dietz, D.M.8
Watts, E.L.9
Iniguez, S.D.10
-
15
-
-
84855300158
-
Genome-wide epigenetic regulation by early-life trauma
-
Labonte, B., Suderman, M., Maussion, G., Navaro, L., Yerko, V., Mahar, I., Bureau, A., Mechawar, N., Szyf, M., Meaney, M.J. et al. (2012) Genome-wide epigenetic regulation by early-life trauma. Arch. Gen. Psychiatry, 69, 722-731.
-
(2012)
Arch. Gen. Psychiatry
, vol.69
, pp. 722-731
-
-
Labonte, B.1
Suderman, M.2
Maussion, G.3
Navaro, L.4
Yerko, V.5
Mahar, I.6
Bureau, A.7
Mechawar, N.8
Szyf, M.9
Meaney, M.J.10
-
16
-
-
84872236734
-
Conserved epigenetic sensitivity to early life experience in the rat and human hippocampus
-
Suderman, M., McGowan, P.O., Sasaki, A., Huang, T.C., Hallett, M.T., Meaney, M.J., Turecki, G. and Szyf, M. (2012) Conserved epigenetic sensitivity to early life experience in the rat and human hippocampus. Proc. Natl Acad. Sci. USA, 109(Suppl 2), 17266-17272.
-
(2012)
Proc. Natl Acad. Sci. USA
, vol.109
, Issue.SUPPL. 2
, pp. 17266-17272
-
-
Suderman, M.1
McGowan, P.O.2
Sasaki, A.3
Huang, T.C.4
Hallett, M.T.5
Meaney, M.J.6
Turecki, G.7
Szyf, M.8
-
17
-
-
36749052947
-
DNA methylation signatures within the human brain
-
Ladd-Acosta, C., Pevsner, J., Sabunciyan, S., Yolken, R.H., Webster, M.J., Dinkins, T., Callinan, P.A., Fan, J.B., Potash, J.B. and Feinberg, A.P. (2007) DNA methylation signatures within the human brain. Am. J Hum. Genet., 81, 1304-1315.
-
(2007)
Am J Hum. Genet
, vol.81
, pp. 1304-1315
-
-
Ladd-Acosta, C.1
Pevsner, J.2
Sabunciyan, S.3
Yolken, R.H.4
Webster, M.J.5
Dinkins, T.6
Callinan, P.A.7
Fan, J.B.8
Potash, J.B.9
Feinberg, A.P.10
-
18
-
-
59149084538
-
The human colon cancer methylome shows similar hypoand hypermethylation at conserved tissue-specific CpG island shores
-
Irizarry, R.A., Ladd-Acosta, C., Wen, B., Wu, Z., Montano, C., Onyango, P., Cui, H., Gabo, K., Rongione, M., Webster, M. et al. (2009) The human colon cancer methylome shows similar hypoand hypermethylation at conserved tissue-specific CpG island shores. Nat. Genet., 41, 178-186.
-
(2009)
Nat. Genet
, vol.41
, pp. 178-186
-
-
Irizarry, R.A.1
Ladd-Acosta, C.2
Wen, B.3
Wu, Z.4
Montano, C.5
Onyango, P.6
Cui, H.7
Gabo, K.8
Rongione, M.9
Webster, M.10
-
19
-
-
84857062545
-
DNA methylation signatures in development and aging of the human prefrontal cortex
-
Numata, S., Ye, T., Hyde, T.M., Guitart-Navarro, X., Tao, R., Wininger, M., Colantuoni, C., Weinberger, D.R., Kleinman, J.E. and Lipska, B.K. (2012) DNA methylation signatures in development and aging of the human prefrontal cortex. Am. J. Hum. Genet., 90, 260-272.
-
(2012)
Am. J. Hum. Genet
, vol.90
, pp. 260-272
-
-
Numata, S.1
Ye, T.2
Hyde, T.M.3
Guitart-Navarro, X.4
Tao, R.5
Wininger, M.6
Colantuoni, C.7
Weinberger, D.R.8
Kleinman, J.E.9
Lipska, B.K.10
-
20
-
-
84862210732
-
Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood
-
Davies, M.N., Volta, M., Pidsley, R., Lunnon, K., Dixit, A., Lovestone, S., Coarfa, C., Harris, R.A., Milosavljevic, A., Troakes, C. et al. (2012) Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood. Genome Biol., 13, R43.
-
(2012)
Genome Biol
, vol.13
-
-
Davies, M.N.1
Volta, M.2
Pidsley, R.3
Lunnon, K.4
Dixit, A.5
Lovestone, S.6
Coarfa, C.7
Harris, R.A.8
Milosavljevic, A.9
Troakes, C.10
-
21
-
-
77649204292
-
Genetic control of individual differences in gene-specific methylation in human brain
-
Zhang, D., Cheng, L., Badner, J.A., Chen, C., Chen, Q., Luo, W., Craig, D.W., Redman, M., Gershon, E.S. and Liu, C. (2010) Genetic control of individual differences in gene-specific methylation in human brain. Am. J. Hum. Genet., 86, 411-419.
-
(2010)
Am. J. Hum. Genet
, vol.86
, pp. 411-419
-
-
Zhang, D.1
Cheng, L.2
Badner, J.A.3
Chen, C.4
Chen, Q.5
Luo, W.6
Craig, D.W.7
Redman, M.8
Gershon, E.S.9
Liu, C.10
-
22
-
-
81055136668
-
Role of CpG context and content in evolutionary signatures of brain DNA methylation
-
Xin, Y., O'Donnell, A.H., Ge, Y., Chanrion, B., Milekic, M., Rosoklija, G., Stankov, A., Arango, V., Dwork, A.J., Gingrich, J.A. et al. (2011) Role of CpG context and content in evolutionary signatures of brain DNA methylation. Epigenetics, 6, 1308-1318.
-
(2011)
Epigenetics
, vol.6
, pp. 1308-1318
-
-
Xin, Y.1
O'Donnell, A.H.2
Ge, Y.3
Chanrion, B.4
Milekic, M.5
Rosoklija, G.6
Stankov, A.7
Arango, V.8
Dwork, A.J.9
Gingrich, J.A.10
-
23
-
-
77953223693
-
Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain
-
Gibbs, J.R., van der Brug, M.P., Hernandez, D.G., Traynor, B.J., Nalls, M.A., Lai, S.L., Arepalli, S., Dillman, A., Rafferty, I.P., Troncoso, J. et al. (2010) Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain. PLoS. Genet., 6, e1000952.
-
(2010)
PLoS. Genet
, vol.6
-
-
Gibbs, J.R.1
Van Der Brug, M.P.2
Hernandez, D.G.3
Traynor, B.J.4
Nalls, M.A.5
Lai, S.L.6
Arepalli, S.7
Dillman, A.8
Rafferty, I.P.9
Troncoso, J.10
-
24
-
-
77957372037
-
Tissue specific DNA methylation of CpG islands in normal human adult somatic tissues distinguishes neural from non-neural tissues
-
Ghosh, S., Yates, A.J., Fruhwald, M.C., Miecznikowski, J.C., Plass, C. and Smiraglia, D. (2010) Tissue specific DNA methylation of CpG islands in normal human adult somatic tissues distinguishes neural from non-neural tissues. Epigenetics, 5, 527-538.
-
(2010)
Epigenetics
, vol.5
, pp. 527-538
-
-
Ghosh, S.1
Yates, A.J.2
Fruhwald, M.C.3
Miecznikowski, J.C.4
Plass, C.5
Smiraglia, D.6
-
25
-
-
79955557706
-
Neurons show distinctive DNA methylation profile and higher interindividual variations compared with non-neurons
-
Iwamoto, K., Bundo, M., Ueda, J., Oldham, M.C., Ukai, W., Hashimoto, E., Saito, T., Geschwind, D.H. and Kato, T. (2011) Neurons show distinctive DNA methylation profile and higher interindividual variations compared with non-neurons. Genome Res., 21, 688-696.
-
(2011)
Genome Res
, vol.21
, pp. 688-696
-
-
Iwamoto, K.1
Bundo, M.2
Ueda, J.3
Oldham, M.C.4
Ukai, W.5
Hashimoto, E.6
Saito, T.7
Geschwind, D.H.8
Kato, T.9
-
26
-
-
84875700729
-
A cell epigenotype specific model for the correction of brain cellular heterogeneity bias and its application to age, brain region and major depression
-
Guintivano, J., Aryee, M.J. and Kaminsky, Z.A. (2013) A cell epigenotype specific model for the correction of brain cellular heterogeneity bias and its application to age, brain region and major depression. Epigenetics, 8, 290-302.
-
(2013)
Epigenetics
, vol.8
, pp. 290-302
-
-
Guintivano, J.1
Aryee, M.J.2
Kaminsky, Z.A.3
-
27
-
-
33748712630
-
Orbitofrontal correlates of aggression and impulsivity in psychiatric patients
-
Antonucci, A.S., Gansler, D.A., Tan, S., Bhadelia, R., Patz, S. and Fulwiler, C. (2006) Orbitofrontal correlates of aggression and impulsivity in psychiatric patients. Psychiatry Res., 147, 213-220.
-
(2006)
Psychiatry Res
, vol.147
, pp. 213-220
-
-
Antonucci, A.S.1
Gansler, D.A.2
Tan, S.3
Bhadelia, R.4
Patz, S.5
Fulwiler, C.6
-
28
-
-
37549035914
-
Dissociable mechanisms of cognitive control in prefrontal and premotor cortex
-
Chambers, C.D., Bellgrove, M.A., Gould, I.C., English, T., Garavan, H., McNaught, E., Kamke, M. and Mattingley, J.B. (2007) Dissociable mechanisms of cognitive control in prefrontal and premotor cortex. J. Neurophysiol., 98, 3638-3647.
-
(2007)
J. Neurophysiol
, vol.98
, pp. 3638-3647
-
-
Chambers, C.D.1
Bellgrove, M.A.2
Gould, I.C.3
English, T.4
Garavan, H.5
McNaught, E.6
Kamke, M.7
Mattingley, J.B.8
-
29
-
-
77957304212
-
Neuropsychological assessment of the orbital and ventromedial prefrontal cortex
-
Zald, D.H. and Andreotti, C. (2010) Neuropsychological assessment of the orbital and ventromedial prefrontal cortex. Neuropsychologia, 48, 3377-3391.
-
(2010)
Neuropsychologia
, vol.48
, pp. 3377-3391
-
-
Zald, D.H.1
Andreotti, C.2
-
30
-
-
80053304450
-
High density DNA methylation array with single CpG site resolution
-
Bibikova, M., Barnes, B., Tsan, C., Ho, V., Klotzle, B., Le, J.M., Delano, D., Zhang, L., Schroth, G.P., Gunderson, K.L. et al. (2011) High density DNA methylation array with single CpG site resolution. Genomics, 98, 288-295.
-
(2011)
Genomics
, vol.98
, pp. 288-295
-
-
Bibikova, M.1
Barnes, B.2
Tsan, C.3
Ho, V.4
Klotzle, B.5
Le, J.M.6
Delano, D.7
Zhang, L.8
Schroth, G.P.9
Gunderson, K.L.10
-
31
-
-
84864031521
-
Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia
-
Akalin, A., Garrett-Bakelman, F.E., Kormaksson, M., Busuttil, J., Zhang, L., Khrebtukova, I., Milne, T.A., Huang, Y., Biswas, D., Hess, J.L. et al. (2012) Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia. PLoS Genet., 8, e1002781.
-
(2012)
PLoS Genet
, vol.8
-
-
Akalin, A.1
Garrett-Bakelman, F.E.2
Kormaksson, M.3
Busuttil, J.4
Zhang, L.5
Khrebtukova, I.6
Milne, T.A.7
Huang, Y.8
Biswas, D.9
Hess, J.L.10
-
32
-
-
84873310426
-
Genome-wide chromatin state transitions associated with developmental and environmental cues
-
Zhu, J., Adli, M., Zou, J.Y., Verstappen, G., Coyne, M., Zhang, X., Durham, T., Miri, M., Deshpande, V., De Jager, P.L. et al. (2013) Genome-wide chromatin state transitions associated with developmental and environmental cues. Cell, 152, 642-654.
-
(2013)
Cell
, vol.152
, pp. 642-654
-
-
Zhu, J.1
Adli, M.2
Zou, J.Y.3
Verstappen, G.4
Coyne, M.5
Zhang, X.6
Durham, T.7
Miri, M.8
Deshpande, V.9
De Jager, P.L.10
-
33
-
-
33644874573
-
The UCSC genome browser database: Update 2006
-
Hinrichs, A.S., Karolchik, D., Baertsch, R., Barber, G.P., Bejerano, G., Clawson, H., Diekhans, M., Furey, T.S., Harte, R.A., Hsu, F. et al. (2006) The UCSC Genome Browser Database: Update 2006. Nucleic Acids Res., 34, D590-D598.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Hinrichs, A.S.1
Karolchik, D.2
Baertsch, R.3
Barber, G.P.4
Bejerano, G.5
Clawson, H.6
Diekhans, M.7
Furey, T.S.8
Harte, R.A.9
Hsu, F.10
-
34
-
-
80055015161
-
Temporal dynamics and genetic control of transcription in the human prefrontal cortex
-
Colantuoni, C., Lipska, B.K., Ye, T., Hyde, T.M., Tao, R., Leek, J.T., Colantuoni, E.A., Elkahloun, A.G., Herman, M.M., Weinberger, D.R. et al. (2011) Temporal dynamics and genetic control of transcription in the human prefrontal cortex. Nature, 478, 519-523.
-
(2011)
Nature
, vol.478
, pp. 519-523
-
-
Colantuoni, C.1
Lipska, B.K.2
Ye, T.3
Hyde, T.M.4
Tao, R.5
Leek, J.T.6
Colantuoni, E.A.7
Elkahloun, A.G.8
Herman, M.M.9
Weinberger, D.R.10
-
35
-
-
60549111634
-
WGCNA: An R package for weighted correlation network analysis
-
Langfelder, P. and Horvath, S. (2008) WGCNA: An R package for weighted correlation network analysis. BMC Bioinformatics, 9, 559.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 559
-
-
Langfelder, P.1
Horvath, S.2
-
36
-
-
23944458138
-
A general framework for weighted gene co-expression network analysis
-
Article17
-
Zhang, B. and Horvath, S. (2005) A general framework for weighted gene co-expression network analysis. Stat. Appl. Genet. Mol. Biol., 4, Article17.
-
(2005)
Stat. Appl. Genet. Mol. Biol
, vol.4
-
-
Zhang, B.1
Horvath, S.2
-
37
-
-
40049099114
-
Defining clusters from a hierarchical cluster tree: The dynamic tree cut package for R
-
Langfelder, P., Zhang, B. and Horvath, S. (2008) Defining clusters from a hierarchical cluster tree: The dynamic tree cut package for R. Bioinformatics, 24, 719-720.
-
(2008)
Bioinformatics
, vol.24
, pp. 719-720
-
-
Langfelder, P.1
Zhang, B.2
Horvath, S.3
-
38
-
-
68949169222
-
Editing of serotonin 2C receptor mRNA in the prefrontal cortex characterizes high-novelty locomotor response behavioral trait
-
Dracheva, S., Lyddon, R., Barley, K., Marcus, S.M., Hurd, Y.L. and Byne, W.M. (2009) Editing of serotonin 2C receptor mRNA in the prefrontal cortex characterizes high-novelty locomotor response behavioral trait. Neuropsychopharmacology, 34, 2237-2251.
-
(2009)
Neuropsychopharmacology
, vol.34
, pp. 2237-2251
-
-
Dracheva, S.1
Lyddon, R.2
Barley, K.3
Marcus, S.M.4
Hurd, Y.L.5
Byne, W.M.6
-
39
-
-
37549068047
-
Definition of the orbital cortex in relation to specific connections with limbic and visceral structures and other cortical regions
-
Price, J.L. (2007) Definition of the orbital cortex in relation to specific connections with limbic and visceral structures and other cortical regions. Ann. N. Y. Acad. Sci., 1121, 54-71.
-
(2007)
Ann. N. Y. Acad. Sci
, vol.1121
, pp. 54-71
-
-
Price, J.L.1
-
40
-
-
44649111951
-
Neurobehavioral mechanisms of impulsivity: Fronto-striatal systems and functional neurochemistry
-
Dalley, J.W., Mar, A.C., Economidou, D. and Robbins, T.W. (2008) Neurobehavioral mechanisms of impulsivity: Fronto-striatal systems and functional neurochemistry. Pharmacol. Biochem. Behav., 90, 250-260.
-
(2008)
Pharmacol. Biochem. Behav
, vol.90
, pp. 250-260
-
-
Dalley, J.W.1
Mar, A.C.2
Economidou, D.3
Robbins, T.W.4
-
41
-
-
43549109877
-
Isolation of neuronal chromatin from brain tissue
-
Jiang, Y., Matevossian, A., Huang, H.S., Straubhaar, J. and Akbarian, S. (2008) Isolation of neuronal chromatin from brain tissue. BMC Neurosci., 9, 42.
-
(2008)
BMC Neurosci
, vol.9
, pp. 42
-
-
Jiang, Y.1
Matevossian, A.2
Huang, H.S.3
Straubhaar, J.4
Akbarian, S.5
-
42
-
-
78649642465
-
Flow cytometric sorting of neuronal and glial nuclei from central nervous system tissue
-
Okada, S., Saiwai, H., Kumamaru, H., Kubota, K., Harada, A., Yamaguchi, M., Iwamoto, Y. and Ohkawa, Y. (2011) Flow cytometric sorting of neuronal and glial nuclei from central nervous system tissue. J. Cell Physiol., 226, 552-558.
-
(2011)
J. Cell Physiol
, vol.226
, pp. 552-558
-
-
Okada, S.1
Saiwai, H.2
Kumamaru, H.3
Kubota, K.4
Harada, A.5
Yamaguchi, M.6
Iwamoto, Y.7
Ohkawa, Y.8
-
43
-
-
65149106589
-
FANTOM4 EdgeExpressDB: An integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions
-
Severin, J., Waterhouse, A.M., Kawaji, H., Lassmann, T., van, N.E., Balwierz, P.J., de Hoon, M.J., Hume, D.A., Carninci, P., Hayashizaki, Y. et al. (2009) FANTOM4 EdgeExpressDB: An integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions. Genome Biol., 10, R39.
-
(2009)
Genome Biol
, vol.10
-
-
Severin, J.1
Waterhouse, A.M.2
Kawaji, H.3
Lassmann, T.4
Van, N.E.5
Balwierz, P.J.6
De Hoon, M.J.7
Hume, D.A.8
Carninci, P.9
Hayashizaki, Y.10
-
44
-
-
34250305146
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
Birney, E., Stamatoyannopoulos, J.A., Dutta, A., Guigo, R., Gingeras, T.R., Margulies, E.H., Weng, Z., Snyder, M., Dermitzakis, E.T., Thurman, R.E. et al. (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447, 799-816.
-
(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
-
45
-
-
33847334699
-
Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
-
Heintzman, N.D., Stuart, R.K., Hon, G., Fu, Y., Ching, C.W., Hawkins, R.D., Barrera, L.O., Van, C.S., Qu, C., Ching, K.A. et al. (2007) Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome. Nat. Genet., 39, 311-318.
-
(2007)
Nat. Genet
, vol.39
, pp. 311-318
-
-
Heintzman, N.D.1
Stuart, R.K.2
Hon, G.3
Fu, Y.4
Ching, C.W.5
Hawkins, R.D.6
Barrera, L.O.7
Van, C.S.8
Qu, C.9
Ching, K.A.10
-
46
-
-
65549104157
-
Histone modifications at human enhancers reflect global cell-Type-specific gene expression
-
Heintzman, N.D., Hon, G.C., Hawkins, R.D., Kheradpour, P., Stark, A., Harp, L.F., Ye, Z., Lee, L.K., Stuart, R.K., Ching, C.W. et al. (2009) Histone modifications at human enhancers reflect global cell-Type-specific gene expression. Nature, 459, 108-112.
-
(2009)
Nature
, vol.459
, pp. 108-112
-
-
Heintzman, N.D.1
Hon, G.C.2
Hawkins, R.D.3
Kheradpour, P.4
Stark, A.5
Harp, L.F.6
Ye, Z.7
Lee, L.K.8
Stuart, R.K.9
Ching, C.W.10
-
47
-
-
49649125042
-
Genome-scale DNA methylation maps of pluripotent and differentiated cells
-
Meissner, A., Mikkelsen, T.S., Gu, H., Wernig, M., Hanna, J., Sivachenko, A., Zhang, X., Bernstein, B.E., Nusbaum, C., Jaffe, D.B. et al. (2008) Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature, 454, 766-770.
-
(2008)
Nature
, vol.454
, pp. 766-770
-
-
Meissner, A.1
Mikkelsen, T.S.2
Gu, H.3
Wernig, M.4
Hanna, J.5
Sivachenko, A.6
Zhang, X.7
Bernstein, B.E.8
Nusbaum, C.9
Jaffe, D.B.10
-
48
-
-
84355163093
-
DNA-binding factors shape the mouse methylome at distal regulatory regions
-
Stadler, M.B., Murr, R., Burger, L., Ivanek, R., Lienert, F., Scholer, A., van, N.E., Wirbelauer, C., Oakeley, E.J., Gaidatzis, D. et al. (2011) DNA-binding factors shape the mouse methylome at distal regulatory regions. Nature, 480, 490-495.
-
(2011)
Nature
, vol.480
, pp. 490-495
-
-
Stadler, M.B.1
Murr, R.2
Burger, L.3
Ivanek, R.4
Lienert, F.5
Scholer, A.6
Van, N.E.7
Wirbelauer, C.8
Oakeley, E.J.9
Gaidatzis, D.10
-
49
-
-
80555156105
-
In embryonic stem cells, ZFP57/KAP1 recognize a methylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions
-
Quenneville, S., Verde, G., Corsinotti, A., Kapopoulou, A., Jakobsson, J., Offner, S., Baglivo, I., Pedone, P.V., Grimaldi, G., Riccio, A. et al. (2011) In embryonic stem cells, ZFP57/KAP1 recognize a methylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions. Mol. Cell, 44, 361-372.
-
(2011)
Mol. Cell
, vol.44
, pp. 361-372
-
-
Quenneville, S.1
Verde, G.2
Corsinotti, A.3
Kapopoulou, A.4
Jakobsson, J.5
Offner, S.6
Baglivo, I.7
Pedone, P.V.8
Grimaldi, G.9
Riccio, A.10
-
50
-
-
77952695371
-
Dnmt3b recruitment through E2F6 transcriptional repressor mediates germ-line gene silencing in murine somatic tissues
-
Velasco, G., Hube, F., Rollin, J., Neuillet, D., Philippe, C., Bouzinba- Segard, H., Galvani, A., Viegas-Pequignot, E. and Francastel, C. (2010) Dnmt3b recruitment through E2F6 transcriptional repressor mediates germ-line gene silencing in murine somatic tissues. Proc. Natl Acad. Sci. USA, 107, 9281-9286.
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 9281-9286
-
-
Velasco, G.1
Hube, F.2
Rollin, J.3
Neuillet, D.4
Philippe, C.5
Bouzinba- Segard, H.6
Galvani, A.7
Viegas-Pequignot, E.8
Francastel, C.9
-
51
-
-
78649459828
-
Targets and dynamics of promoter DNA methylation during early mouse development
-
Borgel, J., Guibert, S., Li, Y., Chiba, H., Schubeler, D., Sasaki, H., Forne, T. and Weber, M. (2010) Targets and dynamics of promoter DNA methylation during early mouse development. Nat. Genet., 42, 1093-1100.
-
(2010)
Nat. Genet
, vol.42
, pp. 1093-1100
-
-
Borgel, J.1
Guibert, S.2
Li, Y.3
Chiba, H.4
Schubeler, D.5
Sasaki, H.6
Forne, T.7
Weber, M.8
-
52
-
-
0023216891
-
CpG islands in vertebrate genomes
-
Gardiner-Garden, M. and Frommer, M. (1987) CpG islands in vertebrate genomes. J. Mol. Biol., 196, 261-282.
-
(1987)
J. Mol. Biol
, vol.196
, pp. 261-282
-
-
Gardiner-Garden, M.1
Frommer, M.2
-
53
-
-
31944432339
-
A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters
-
Saxonov, S., Berg, P. and Brutlag, D.L. (2006) A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters. Proc. Natl Acad. Sci. USA, 103, 1412-1417.
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 1412-1417
-
-
Saxonov, S.1
Berg, P.2
Brutlag, D.L.3
-
54
-
-
67349255210
-
CpG islands - A rough guide
-
Illingworth, R.S and Bird, A.P. (2009) CpG islands - 'a rough guide'. FEBS Lett., 583, 1713-1720.
-
(2009)
FEBS Lett
, vol.583
, pp. 1713-1720
-
-
Illingworth, R.S.1
Bird, A.P.2
-
55
-
-
78651320424
-
The UCSC genome browser database: Update 2011
-
Fujita, P.A., Rhead, B., Zweig, A.S., Hinrichs, A.S., Karolchik, D., Cline, M.S., Goldman, M., Barber, G.P., Clawson, H., Coelho, A. et al. (2011) The UCSC genome browser database: Update 2011. Nucleic Acids Res., 39, D876-D882.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Fujita, P.A.1
Rhead, B.2
Zweig, A.S.3
Hinrichs, A.S.4
Karolchik, D.5
Cline, M.S.6
Goldman, M.7
Barber, G.P.8
Clawson, H.9
Coelho, A.10
-
56
-
-
34248358308
-
Hyperconserved CpG domains underlie Polycomb-binding sites
-
Tanay, A., O'Donnell, A.H., Damelin, M. and Bestor, T.H. (2007) Hyperconserved CpG domains underlie Polycomb-binding sites. Proc. Natl Acad. Sci. USA, 104, 5521-5526.
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 5521-5526
-
-
Tanay, A.1
O'Donnell, A.H.2
Damelin, M.3
Bestor, T.H.4
-
57
-
-
79955583542
-
Mapping and analysis of chromatin state dynamics in nine human cell types
-
Ernst, J., Kheradpour, P., Mikkelsen, T.S., Shoresh, N., Ward, L.D., Epstein, C.B., Zhang, X., Wang, L., Issner, R., Coyne, M. et al. (2011) Mapping and analysis of chromatin state dynamics in nine human cell types. Nature, 473, 43-49.
-
(2011)
Nature
, vol.473
, pp. 43-49
-
-
Ernst, J.1
Kheradpour, P.2
Mikkelsen, T.S.3
Shoresh, N.4
Ward, L.D.5
Epstein, C.B.6
Zhang, X.7
Wang, L.8
Issner, R.9
Coyne, M.10
-
58
-
-
34250307630
-
The landscape of histone modifications across 1% of the human genome in five human cell lines
-
Koch, C.M., Andrews, R.M., Flicek, P., Dillon, S.C., Karaoz, U., Clelland, G.K., Wilcox, S., Beare, D.M., Fowler, J.C., Couttet, P. et al. (2007) The landscape of histone modifications across 1% of the human genome in five human cell lines. Genome Res., 17, 691-707.
-
(2007)
Genome Res
, vol.17
, pp. 691-707
-
-
Koch, C.M.1
Andrews, R.M.2
Flicek, P.3
Dillon, S.C.4
Karaoz, U.5
Clelland, G.K.6
Wilcox, S.7
Beare, D.M.8
Fowler, J.C.9
Couttet, P.10
-
59
-
-
34447098370
-
A chromatin landmark and transcription initiation at most promoters in human cells
-
Guenther, M.G., Levine, S.S., Boyer, L.A., Jaenisch, R. and Young, R.A. (2007) A chromatin landmark and transcription initiation at most promoters in human cells. Cell, 130, 77-88.
-
(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
-
60
-
-
23744458086
-
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
-
Siepel, A., Bejerano, G., Pedersen, J.S., Hinrichs, A.S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L.W., Richards, S. et al. (2005) Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res., 15, 1034-1050.
-
(2005)
Genome Res
, vol.15
, pp. 1034-1050
-
-
Siepel, A.1
Bejerano, G.2
Pedersen, J.S.3
Hinrichs, A.S.4
Hou, M.5
Rosenbloom, K.6
Clawson, H.7
Spieth, J.8
Hillier, L.W.9
Richards, S.10
-
61
-
-
38149129457
-
A transcriptome database for astrocytes, neurons, and oligodendrocytes: A new resource for understanding brain development and function
-
Cahoy, J.D., Emery, B., Kaushal, A., Foo, L.C., Zamanian, J.L., Christopherson, K.S., Xing, Y., Lubischer, J.L., Krieg, P.A., Krupenko, S.A. et al. (2008) A transcriptome database for astrocytes, neurons, and oligodendrocytes: A new resource for understanding brain development and function. J. Neurosci., 28, 264-278.
-
(2008)
J. Neurosci
, vol.28
, pp. 264-278
-
-
Cahoy, J.D.1
Emery, B.2
Kaushal, A.3
Foo, L.C.4
Zamanian, J.L.5
Christopherson, K.S.6
Xing, Y.7
Lubischer, J.L.8
Krieg, P.A.9
Krupenko, S.A.10
-
62
-
-
78651271733
-
Integrative genomics viewer
-
Robinson, J.T., Thorvaldsdottir, H., Winckler, W., Guttman, M., Lander, E.S., Getz, G. and Mesirov, J.P. (2011) Integrative genomics viewer. Nat. Biotechnol., 29, 24-26.
-
(2011)
Nat. Biotechnol
, vol.29
, pp. 24-26
-
-
Robinson, J.T.1
Thorvaldsdottir, H.2
Winckler, W.3
Guttman, M.4
Lander, E.S.5
Getz, G.6
Mesirov, J.P.7
-
63
-
-
33751208636
-
Analysis of oncogenic signaling networks in glioblastoma identifies ASPM as a molecular target
-
Horvath, S., Zhang, B., Carlson, M., Lu, K.V., Zhu, S., Felciano, R.M., Laurance, M.F., Zhao, W., Qi, S., Chen, Z. et al. (2006) Analysis of oncogenic signaling networks in glioblastoma identifies ASPM as a molecular target. Proc. Natl Acad. Sci. USA, 103, 17402-17407.
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 17402-17407
-
-
Horvath, S.1
Zhang, B.2
Carlson, M.3
Lu, K.V.4
Zhu, S.5
Felciano, R.M.6
Laurance, M.F.7
Zhao, W.8
Qi, S.9
Chen, Z.10
-
64
-
-
54949113578
-
Functional organization of the transcriptome in human brain
-
Oldham, M.C., Konopka, G., Iwamoto, K., Langfelder, P., Kato, T., Horvath, S. and Geschwind, D.H. (2008) Functional organization of the transcriptome in human brain. Nat. Neurosci., 11, 1271-1282.
-
(2008)
Nat. Neurosci
, vol.11
, pp. 1271-1282
-
-
Oldham, M.C.1
Konopka, G.2
Iwamoto, K.3
Langfelder, P.4
Kato, T.5
Horvath, S.6
Geschwind, D.H.7
-
65
-
-
29444452573
-
Molecular taxonomy of major neuronal classes in the adult mouse forebrain
-
Sugino, K., Hempel, C.M., Miller, M.N., Hattox, A.M., Shapiro, P., Wu, C., Huang, Z.J. and Nelson, S.B. (2006) Molecular taxonomy of major neuronal classes in the adult mouse forebrain. Nat. Neurosci., 9, 99-107.
-
(2006)
Nat. Neurosci
, vol.9
, pp. 99-107
-
-
Sugino, K.1
Hempel, C.M.2
Miller, M.N.3
Hattox, A.M.4
Shapiro, P.5
Wu, C.6
Huang, Z.J.7
Nelson, S.B.8
-
66
-
-
33846252240
-
Genome-wide atlas of gene expression in the adult mouse brain
-
Lein, E.S., Hawrylycz, M.J., Ao, N., Ayres, M., Bensinger, A., Bernard, A., Boe, A.F., Boguski, M.S., Brockway, K.S., Byrnes, E.J. et al. (2007) Genome-wide atlas of gene expression in the adult mouse brain. Nature, 445, 168-176.
-
(2007)
Nature
, vol.445
, pp. 168-176
-
-
Lein, E.S.1
Hawrylycz, M.J.2
Ao, N.3
Ayres, M.4
Bensinger, A.5
Bernard, A.6
Boe, A.F.7
Boguski, M.S.8
Brockway, K.S.9
Byrnes, E.J.10
-
67
-
-
68749092138
-
The organization of the transcriptional network in specific neuronal classes
-
Winden, K.D., Oldham, M.C., Mirnics, K., Ebert, P.J., Swan, C.H., Levitt, P., Rubenstein, J.L., Horvath, S. and Geschwind, D.H. (2009) The organization of the transcriptional network in specific neuronal classes. Mol. Syst. Biol., 5, 291.
-
(2009)
Mol. Syst. Biol
, vol.5
, pp. 291
-
-
Winden, K.D.1
Oldham, M.C.2
Mirnics, K.3
Ebert, P.J.4
Swan, C.H.5
Levitt, P.6
Rubenstein, J.L.7
Horvath, S.8
Geschwind, D.H.9
-
68
-
-
77955454185
-
Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways
-
Miller, J.A., Horvath, S. and Geschwind, D.H. (2010) Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways. Proc. Natl Acad. Sci. USA, 107, 12698-12703.
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 12698-12703
-
-
Miller, J.A.1
Horvath, S.2
Geschwind, D.H.3
-
69
-
-
84866518216
-
An anatomically comprehensive atlas of the adult human brain transcriptome
-
Hawrylycz, M.J., Lein, E.S., Guillozet-Bongaarts, A.L., Shen, E.H., Ng, L., Miller, J.A., van de Lagemaat, L.N., Smith, K.A., Ebbert, A., Riley, Z.L. et al. (2012) An anatomically comprehensive atlas of the adult human brain transcriptome. Nature, 489, 391-399.
-
(2012)
Nature
, vol.489
, pp. 391-399
-
-
Hawrylycz, M.J.1
Lein, E.S.2
Guillozet-Bongaarts, A.L.3
Shen, E.H.4
Ng, L.5
Miller, J.A.6
Van De Lagemaat, L.N.7
Smith, K.A.8
Ebbert, A.9
Riley, Z.L.10
-
70
-
-
79959262465
-
Transcriptomic analysis of autistic brain reveals convergent molecular pathology
-
Voineagu, I., Wang, X., Johnston, P., Lowe, J.K., Tian, Y., Horvath, S., Mill, J., Cantor, R.M., Blencowe, B.J. and Geschwind, D.H. (2011) Transcriptomic analysis of autistic brain reveals convergent molecular pathology. Nature, 474, 380-384.
-
(2011)
Nature
, vol.474
, pp. 380-384
-
-
Voineagu, I.1
Wang, X.2
Johnston, P.3
Lowe, J.K.4
Tian, Y.5
Horvath, S.6
Mill, J.7
Cantor, R.M.8
Blencowe, B.J.9
Geschwind, D.H.10
-
71
-
-
34047118042
-
Overlapping probabilities of top ranking gene lists, hypergeometric distribution, and stringency of gene selection criterion
-
Fury, W., Batliwalla, F., Gregersen, P.K. and Li, W. (2006) Overlapping probabilities of top ranking gene lists, hypergeometric distribution, and stringency of gene selection criterion. Conf. Proc. IEEE Eng. Med. Biol. Soc., 1, 5531-5534.
-
(2006)
Conf. Proc IEEE Eng. Med. Biol. Soc
, vol.1
, pp. 5531-5534
-
-
Fury, W.1
Batliwalla, F.2
Gregersen, P.K.3
Li, W.4
-
72
-
-
77949658324
-
Distinct functions of egr gene family members in cognitive processes
-
Poirier, R., Cheval, H., Mailhes, C., Garel, S., Charnay, P., Davis, S. and Laroche, S. (2008) Distinct functions of egr gene family members in cognitive processes. Front. Neurosci., 2, 47-55.
-
(2008)
Front. Neurosci
, vol.2
, pp. 47-55
-
-
Poirier, R.1
Cheval, H.2
Mailhes, C.3
Garel, S.4
Charnay, P.5
Davis, S.6
Laroche, S.7
-
73
-
-
84866253260
-
Members of the myocyte enhancer factor 2 transcription factor family differentially regulate Bdnf transcription in response to neuronal depolarization
-
Lyons, M.R., Schwarz, C.M. and West, A.E. (2012) Members of the myocyte enhancer factor 2 transcription factor family differentially regulate Bdnf transcription in response to neuronal depolarization. J. Neurosci., 32, 12780-12785.
-
(2012)
J. Neurosci
, vol.32
, pp. 12780-12785
-
-
Lyons, M.R.1
Schwarz, C.M.2
West, A.E.3
-
74
-
-
33750447322
-
SoxD proteins influence multiple stages of oligodendrocyte development and modulate SoxE protein function
-
Stolt, C.C., Schlierf, A., Lommes, P., Hillgartner, S., Werner, T., Kosian, T., Sock, E., Kessaris, N., Richardson, W.D., Lefebvre, V. et al. (2006) SoxD proteins influence multiple stages of oligodendrocyte development and modulate SoxE protein function. Dev. Cell, 11, 697-709.
-
(2006)
Dev. Cell
, vol.11
, pp. 697-709
-
-
Stolt, C.C.1
Schlierf, A.2
Lommes, P.3
Hillgartner, S.4
Werner, T.5
Kosian, T.6
Sock, E.7
Kessaris, N.8
Richardson, W.D.9
Lefebvre, V.10
-
75
-
-
51649112751
-
Identification and characterization of novel human tissue-specific RFX transcription factors
-
Aftab, S., Semenec, L., Chu, J.S. and Chen, N. (2008) Identification and characterization of novel human tissue-specific RFX transcription factors. BMC. Evol. Biol., 8, 226.
-
(2008)
BMC. Evol. Biol
, vol.8
, pp. 226
-
-
Aftab, S.1
Semenec, L.2
Chu, J.S.3
Chen, N.4
-
76
-
-
84864462544
-
A map of the cis-regulatory sequences in the mouse genome
-
Shen, Y., Yue, F., McCleary, D.F., Ye, Z., Edsall, L., Kuan, S., Wagner, U., Dixon, J., Lee, L., Lobanenkov, V.V. et al. (2012) A map of the cis-regulatory sequences in the mouse genome. Nature, 488, 116-120.
-
(2012)
Nature
, vol.488
, 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
-
77
-
-
46149096244
-
Signaling mechanisms linking neuronal activity to gene expression and plasticity of the nervous system
-
Flavell, S.W. and Greenberg, M.E. (2008) Signaling mechanisms linking neuronal activity to gene expression and plasticity of the nervous system. Annu. Rev. Neurosci., 31, 563-590.
-
(2008)
Annu. Rev. Neurosci
, vol.31
, pp. 563-590
-
-
Flavell, S.W.1
Greenberg, M.E.2
-
78
-
-
1642493720
-
A CaMKII-NeuroD signaling pathway specifies dendritic morphogenesis
-
Gaudilliere, B., Konishi, Y., de la Iglesia, N., Yao, G. and Bonni, A. (2004) A CaMKII-NeuroD signaling pathway specifies dendritic morphogenesis. Neuron, 41, 229-241.
-
(2004)
Neuron
, vol.41
, pp. 229-241
-
-
Gaudilliere, B.1
Konishi, Y.2
De La Iglesia, N.3
Yao, G.4
Bonni, A.5
-
79
-
-
77952367798
-
Widespread transcription at neuronal activity-regulated enhancers
-
Kim, T.K., Hemberg, M., Gray, J.M., Costa, A.M., Bear, D.M., Wu, J., Harmin, D.A., Laptewicz, M., Barbara-Haley, K., Kuersten, S. et al. (2010) Widespread transcription at neuronal activity-regulated enhancers. Nature, 465, 182-187.
-
(2010)
Nature
, vol.465
, pp. 182-187
-
-
Kim, T.K.1
Hemberg, M.2
Gray, J.M.3
Costa, A.M.4
Bear, D.M.5
Wu, J.6
Harmin, D.A.7
Laptewicz, M.8
Barbara-Haley, K.9
Kuersten, S.10
-
80
-
-
2142738304
-
WebLogo: A sequence logo generator
-
Crooks, G.E., Hon, G., Chandonia, J.M. and Brenner, S.E. (2004) WebLogo: A sequence logo generator. Genome Res., 14, 1188-1190.
-
(2004)
Genome Res
, vol.14
, pp. 1188-1190
-
-
Crooks, G.E.1
Hon, G.2
Chandonia, J.M.3
Brenner, S.E.4
-
81
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
Dunham, I., Kundaje, A., Aldred, S.F., Collins, P.J., Davis, C.A., Doyle, F., Epstein, C.B., Frietze, S., Harrow, J., Kaul, R. et al. (2012) An integrated encyclopedia of DNA elements in the human genome. Nature, 489, 57-74.
-
(2012)
Nature
, vol.489
, pp. 57-74
-
-
Dunham, I.1
Kundaje, A.2
Aldred, S.F.3
Collins, P.J.4
Davis, C.A.5
Doyle, F.6
Epstein, C.B.7
Frietze, S.8
Harrow, J.9
Kaul, R.10
-
82
-
-
80053270332
-
Neuronal activity modifies the DNA methylation landscape in the adult brain
-
Guo, J.U., Ma, D.K., Mo, H., Ball, M.P., Jang, M.H., Bonaguidi, M.A., Balazer, J.A., Eaves, H.L., Xie, B., Ford, E. et al. (2011) Neuronal activity modifies the DNA methylation landscape in the adult brain. Nat. Neurosci, 14, 1345-1351.
-
(2011)
Nat. Neurosci
, vol.14
, pp. 1345-1351
-
-
Guo, J.U.1
Ma, D.K.2
Mo, H.3
Ball, M.P.4
Jang, M.H.5
Bonaguidi, M.A.6
Balazer, J.A.7
Eaves, H.L.8
Xie, B.9
Ford, E.10
-
83
-
-
84868538457
-
Molecular biology epigenetic islands in a genetic ocean
-
Schubeler, D. (2012) Molecular biology. Epigenetic islands in a genetic ocean. Science, 338, 756-757.
-
(2012)
Science
, vol.338
, pp. 756-757
-
-
Schubeler, D.1
-
84
-
-
84863996658
-
The CpG island shore of the GLT-1 gene acts as a methylation-sensitive enhancer
-
Perisic, T., Holsboer, F., Rein, T. and Zschocke, J. (2012) The CpG island shore of the GLT-1 gene acts as a methylation-sensitive enhancer. Glia, 60, 1345-1355.
-
(2012)
Glia
, vol.60
, pp. 1345-1355
-
-
Perisic, T.1
Holsboer, F.2
Rein, T.3
Zschocke, J.4
-
85
-
-
84871664677
-
Neuronal cell-Type specific DNA methylation patterns of the Cacna1c gene
-
Nishioka, M., Shimada, T., Bundo, M., Ukai, W., Hashimoto, E., Saito, T., Kano, Y., Sasaki, T., Kasai, K., Kato, T. et al. (2013) Neuronal cell-Type specific DNA methylation patterns of the Cacna1c gene. Int. J. Dev. Neurosci., 31, 89-95.
-
(2013)
Int. J. Dev. Neurosci
, vol.31
, pp. 89-95
-
-
Nishioka, M.1
Shimada, T.2
Bundo, M.3
Ukai, W.4
Hashimoto, E.5
Saito, T.6
Kano, Y.7
Sasaki, T.8
Kasai, K.9
Kato, T.10
-
86
-
-
84884588875
-
CpG island shore methylation regulates caveolin-1 expression in breast cancer
-
Rao, X., Evans, J., Chae, H., Pilrose, J., Kim, S., Yan, P., Huang, R.L., Lai, H.C., Lin, H., Liu, Y. et al. (2012) CpG island shore methylation regulates caveolin-1 expression in breast cancer. Oncogene, 32, 4519-4528.
-
(2012)
Oncogene
, vol.32
, pp. 4519-4528
-
-
Rao, X.1
Evans, J.2
Chae, H.3
Pilrose, J.4
Kim, S.5
Yan, P.6
Huang, R.L.7
Lai, H.C.8
Lin, H.9
Liu, Y.10
-
87
-
-
33847304609
-
Gene body-specific methylation on the active X chromosome
-
Hellman, A. and Chess, A. (2007) Gene body-specific methylation on the active X chromosome. Science, 315, 1141-1143.
-
(2007)
Science
, vol.315
, pp. 1141-1143
-
-
Hellman, A.1
Chess, A.2
-
88
-
-
64349091471
-
Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells
-
Ball, M.P., Li, J.B., Gao, Y., Lee, J.H., LeProust, E.M., Park, I.H., Xie, B., Daley, G.Q. and Church, G.M. (2009) Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells. Nat. Biotechnol., 27, 361-368.
-
(2009)
Nat. Biotechnol
, vol.27
, pp. 361-368
-
-
Ball, M.P.1
Li, J.B.2
Gao, Y.3
Lee, J.H.4
LeProust, E.M.5
Park, I.H.6
Xie, B.7
Daley, G.Q.8
Church, G.M.9
-
89
-
-
78751693154
-
Replication timing-related and gene body-specific methylation of active human genes
-
Aran, D., Toperoff, G., Rosenberg, M. and Hellman, A. (2011) Replication timing-related and gene body-specific methylation of active human genes. Hum. Mol. Genet., 20, 670-680.
-
(2011)
Hum. Mol. Genet
, vol.20
, pp. 670-680
-
-
Aran, D.1
Toperoff, G.2
Rosenberg, M.3
Hellman, A.4
-
90
-
-
16444381345
-
Dynamic expression of de novo DNA methyltransferases Dnmt3a and Dnmt3b in the central nervous system
-
Feng, J., Chang, H., Li, E. and Fan, G. (2005) Dynamic expression of de novo DNA methyltransferases Dnmt3a and Dnmt3b in the central nervous system. J. Neurosci. Res., 79, 734-746.
-
(2005)
J. Neurosci. Res
, vol.79
, pp. 734-746
-
-
Feng, J.1
Chang, H.2
Li, E.3
Fan, G.4
-
91
-
-
84875467145
-
Accumulation and loss of asymmetric non-CpG methylation during male germ-cell development
-
Ichiyanagi, T., Ichiyanagi, K., Miyake, M. and Sasaki, H. (2013) Accumulation and loss of asymmetric non-CpG methylation during male germ-cell development. Nucleic Acids Res., 41, 738-745.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. 738-745
-
-
Ichiyanagi, T.1
Ichiyanagi, K.2
Miyake, M.3
Sasaki, H.4
-
92
-
-
77956189495
-
Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification
-
Ito, S., D'Alessio, A.C., Taranova, O.V., Hong, K., Sowers, L.C. and Zhang, Y. (2010) Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification. Nature, 466, 1129-1133.
-
(2010)
Nature
, vol.466
, pp. 1129-1133
-
-
Ito, S.1
D'Alessio, A.C.2
Taranova, O.V.3
Hong, K.4
Sowers, L.C.5
Zhang, Y.6
-
93
-
-
83855163995
-
Uncovering the role of 5-hydroxymethylcytosine in the epigenome
-
Branco, M.R., Ficz, G. and Reik, W. (2012) Uncovering the role of 5-hydroxymethylcytosine in the epigenome. Nat. Rev. Genet., 13, 7-13.
-
(2012)
Nat. Rev. Genet
, vol.13
, pp. 7-13
-
-
Branco, M.R.1
Ficz, G.2
Reik, W.3
-
94
-
-
84864129535
-
Distribution of 5- hydroxymethylcytosine in different human tissues
-
Li, W. and Liu, M. (2011) Distribution of 5- hydroxymethylcytosine in different human tissues. J. Nucleic Acids, 2011, 870726.
-
(2011)
J. Nucleic Acids
, vol.2011
, pp. 870726
-
-
Li, W.1
Liu, M.2
-
95
-
-
66149123748
-
The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain
-
Kriaucionis, S. and Heintz, N. (2009) The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain. Science, 324, 929-930.
-
(2009)
Science
, vol.324
, pp. 929-930
-
-
Kriaucionis, S.1
Heintz, N.2
-
96
-
-
82255192294
-
5-hmCmediated epigenetic dynamics during postnatal neurodevelopment and aging
-
Szulwach, K.E., Li, X., Li, Y., Song, C.X., Wu, H., Dai, Q., Irier, H., Upadhyay, A.K., Gearing, M., Levey, A.I. et al. (2011) 5-hmCmediated epigenetic dynamics during postnatal neurodevelopment and aging. Nat. Neurosci., 14, 1607-1616.
-
(2011)
Nat. Neurosci
, vol.14
, pp. 1607-1616
-
-
Szulwach, K.E.1
Li, X.2
Li, Y.3
Song, C.X.4
Wu, H.5
Dai, Q.6
Irier, H.7
Upadhyay, A.K.8
Gearing, M.9
Levey, A.I.10
-
97
-
-
84870620786
-
Tet-Assisted bisulfite sequencing of 5- hydroxymethylcytosine
-
Yu, M., Hon, G.C., Szulwach, K.E., Song, C.X., Jin, P., Ren, B. and He, C. (2012) Tet-Assisted bisulfite sequencing of 5- hydroxymethylcytosine. Nat. Protoc., 7, 2159-2170.
-
(2012)
Nat. Protoc
, vol.7
, pp. 2159-2170
-
-
Yu, M.1
Hon, G.C.2
Szulwach, K.E.3
Song, C.X.4
Jin, P.5
Ren, B.6
He, C.7
-
98
-
-
84861221693
-
Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
-
Booth, M.J., Branco, M.R., Ficz, G., Oxley, D., Krueger, F., Reik, W. and Balasubramanian, S. (2012) Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution. Science, 336, 934-937.
-
(2012)
Science
, vol.336
, pp. 934-937
-
-
Booth, M.J.1
Branco, M.R.2
Ficz, G.3
Oxley, D.4
Krueger, F.5
Reik, W.6
Balasubramanian, S.7
-
99
-
-
84879663784
-
Global epigenomic reconfiguration during mammalian brain development
-
Lister, R., Mukamel, E.A., Nery, J.R., Urich, M., Puddifoot, C.A., Johnson, N.D., Lucero, J., Huang, Y., Dwork, A.J., Schultz, M.D. et al. (2013) Global epigenomic reconfiguration during mammalian brain development. Science, 341, 1237905.
-
(2013)
Science
, vol.341
, pp. 1237905
-
-
Lister, R.1
Mukamel, E.A.2
Nery, J.R.3
Urich, M.4
Puddifoot, C.A.5
Johnson, N.D.6
Lucero, J.7
Huang, Y.8
Dwork, A.J.9
Schultz, M.D.10
-
100
-
-
33646729693
-
Mu opioid receptor A118G polymorphism in association with striatal opioid neuropeptide gene expression in heroin abusers
-
Drakenberg, K., Nikoshkov, A., Horvath, M.C., Fagergren, P., Gharibyan, A., Saarelainen, K., Rahman, S., Nylander, I., Bakalkin, G., Rajs, J. et al. (2006) Mu opioid receptor A118G polymorphism in association with striatal opioid neuropeptide gene expression in heroin abusers. Proc. Natl Acad. Sci. USA, 103, 7883-7888.
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 7883-7888
-
-
Drakenberg, K.1
Nikoshkov, A.2
Horvath, M.C.3
Fagergren, P.4
Gharibyan, A.5
Saarelainen, K.6
Rahman, S.7
Nylander, I.8
Bakalkin, G.9
Rajs, J.10
-
101
-
-
38649097175
-
Opioid neuropeptide genotypes in relation to heroin abuse: Dopamine tone contributes to reversed mesolimbic proenkephalin expression
-
Nikoshkov, A., Drakenberg, K., Wang, X., Horvath, M.C., Keller, E. and Hurd, Y.L. (2008) Opioid neuropeptide genotypes in relation to heroin abuse: Dopamine tone contributes to reversed mesolimbic proenkephalin expression. Proc. Natl Acad. Sci. USA, 105, 786-791.
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 786-791
-
-
Nikoshkov, A.1
Drakenberg, K.2
Wang, X.3
Horvath, M.C.4
Keller, E.5
Hurd, Y.L.6
-
102
-
-
34548292504
-
PLINK: A tool set for whole-genome association and populationbased linkage analyses
-
Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M.A., Bender, D., Maller, J., Sklar, P., de Bakker, P.I., Daly, M.J. et al. (2007) PLINK: A tool set for whole-genome association and populationbased linkage analyses. Am. J. Hum. Genet., 81, 559-575.
-
(2007)
Am. J. Hum. Genet
, vol.81
, pp. 559-575
-
-
Purcell, S.1
Neale, B.2
Todd-Brown, K.3
Thomas, L.4
Ferreira, M.A.5
Bender, D.6
Maller, J.7
Sklar, P.8
De Bakker, P.I.9
Daly, M.J.10
-
103
-
-
33846006923
-
Population structure and eigenanalysis
-
Patterson, N., Price, A.L. and Reich, D. (2006) Population structure and eigenanalysis. PLoS Genet., 2, e190.
-
(2006)
PLoS Genet
, vol.2
-
-
Patterson, N.1
Price, A.L.2
Reich, D.3
-
104
-
-
33746512512
-
Principal components analysis corrects for stratification in genome-wide association studies
-
Price, A.L., Patterson, N.J., Plenge, R.M., Weinblatt, M.E., Shadick, N.A. and Reich, D. (2006) Principal components analysis corrects for stratification in genome-wide association studies. Nat. Genet., 38, 904-909.
-
(2006)
Nat. Genet
, vol.38
, pp. 904-909
-
-
Price, A.L.1
Patterson, N.J.2
Plenge, R.M.3
Weinblatt, M.E.4
Shadick, N.A.5
Reich, D.6
-
105
-
-
79957868920
-
Bismark: A flexible aligner and methylation caller for Bisulfite-Seq applications
-
Krueger, F. and Andrews, S.R. (2011) Bismark: A flexible aligner and methylation caller for Bisulfite-Seq applications. Bioinformatics, 27, 1571-1572.
-
(2011)
Bioinformatics
, vol.27
, pp. 1571-1572
-
-
Krueger, F.1
Andrews, S.R.2
-
106
-
-
84866860221
-
Methylkit: A comprehensive R package for the analysis of genome-wide DNA methylation profiles
-
Akalin, A., Kormaksson, M., Li, S., Garrett-Bakelman, F.E., Figueroa, M.E., Melnick, A. and Mason, C.E. (2012) methylKit: A comprehensive R package for the analysis of genome-wide DNA methylation profiles. Genome Biol., 13, R87.
-
(2012)
Genome Biol
, vol.13
-
-
Akalin, A.1
Kormaksson, M.2
Li, S.3
Garrett-Bakelman, F.E.4
Figueroa, M.E.5
Melnick, A.6
Mason, C.E.7
-
107
-
-
0036856355
-
MethPrimer: Designing primers for methylation PCRs
-
Li, L.C. and Dahiya, R. (2002) MethPrimer: Designing primers for methylation PCRs. Bioinformatics, 18, 1427-1431.
-
(2002)
Bioinformatics
, vol.18
, pp. 1427-1431
-
-
Li, L.C.1
Dahiya, R.2
|