-
1
-
-
0029588403
-
MRNA retroposition in human cells: Processed pseudogene formation
-
J. Maestre, T. Tchénio, O. Dhellin, and T. Heidmann, "mRNA retroposition in human cells: processed pseudogene formation, " The EMBO Journal, vol. 14, no. 24, pp. 6333-6338, 1995.
-
(1995)
The EMBO Journal
, vol.14
, Issue.24
, pp. 6333-6338
-
-
Maestre, J.1
Tchénio, T.2
Dhellin, O.3
Heidmann, T.4
-
2
-
-
0346155809
-
Pseudogenes: Are they " junk" or functional DNA?
-
E. S. Balakirev and F. J. Ayala, "Pseudogenes: are they "junk" or functional DNA?" Annual Review of Genetics, vol. 37, pp. 123-151, 2003.
-
(2003)
Annual Review of Genetics
, vol.37
, pp. 123-151
-
-
Balakirev, E.S.1
Ayala, F.J.2
-
3
-
-
0034079713
-
Human LINE retrotransposons generate processed pseudogenes
-
C. Esnault, J. Maestre, and T. Heidmann, "Human LINE retrotransposons generate processed pseudogenes, " Nature Genetics, vol. 24, no. 4, pp. 363-367, 2000.
-
(2000)
Nature Genetics
, vol.24
, Issue.4
, pp. 363-367
-
-
Esnault, C.1
Maestre, J.2
Heidmann, T.3
-
4
-
-
1542513556
-
Mobile elements: Drivers of genome evolution
-
H. H. Kazazian Jr. , "Mobile elements: drivers of genome evolution, " Science, vol. 303, no. 5664, pp. 1626-1632, 2004.
-
(2004)
Science
, vol.303
, Issue.5664
, pp. 1626-1632
-
-
Kazazian, H.H.1
-
5
-
-
0035253528
-
Digging for dead genes: An analysis of the characteristics of the pseudogene population in the Caenorhabditis elegans genome
-
P. M. Harrison, N. Echols, and M. B. Gerstein, "Digging for dead genes: an analysis of the characteristics of the pseudogene population in the Caenorhabditis elegans genome, " Nucleic Acids Research, vol. 29, no. 3, pp. 818-830, 2001.
-
(2001)
Nucleic Acids Research
, vol.29
, Issue.3
, pp. 818-830
-
-
Harrison, P.M.1
Echols, N.2
Gerstein, M.B.3
-
6
-
-
0346752110
-
Millions of years of evolution preserved: A comprehensive catalog of the processed pseudogenes in the human genome
-
Z. Zhang, P. M. Harrison, Y. Liu, and M. Gerstein, "Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome, " Genome Research, vol. 13, no. 12, pp. 2541-2558, 2003.
-
(2003)
Genome Research
, vol.13
, Issue.12
, pp. 2541-2558
-
-
Zhang, Z.1
Harrison, P.M.2
Liu, Y.3
Gerstein, M.4
-
7
-
-
0033568856
-
Neuronal expression of neural nitric oxide synthase (nNOS) protein is suppressed by an antisense RNA transcribed from an NOS pseudogene
-
S. A. Korneev, J.-H. Park, andM. O'Shea, "Neuronal expression of neural nitric oxide synthase (nNOS) protein is suppressed by an antisense RNA transcribed from an NOS pseudogene, " The Journal of Neuroscience, vol. 19, no. 18, pp. 7711-7720, 1999.
-
(1999)
The Journal of Neuroscience
, vol.19
, Issue.18
, pp. 7711-7720
-
-
Korneev, S.A.1
Park, J.-H.2
O'Shea, M.3
-
8
-
-
13944276686
-
Timed and targeted differential regulation of nitric oxide synthase (NOS) and anti-NOS genes by reward conditioning leading to long-term memory formation
-
S. A. Korneev, V. Straub, I. Kemenes et al. , "Timed and targeted differential regulation of nitric oxide synthase (NOS) and anti-NOS genes by reward conditioning leading to long-term memory formation, " The Journal of Neuroscience, vol. 25, no. 5, pp. 1188-1192, 2005.
-
(2005)
The Journal of Neuroscience
, vol.25
, Issue.5
, pp. 1188-1192
-
-
Korneev, S.A.1
Straub, V.2
Kemenes, I.3
-
9
-
-
0038414560
-
An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene
-
S. Hirotsune, N. Yoshida, A. Chen et al. , "An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene, " Nature, vol. 423, no. 6935, pp. 91-96, 2003.
-
(2003)
Nature
, vol.423
, Issue.6935
, pp. 91-96
-
-
Hirotsune, S.1
Yoshida, N.2
Chen, A.3
-
10
-
-
77953957633
-
A coding-independent function of gene and pseudogenemRNAs regulates tumour biology
-
L. Poliseno, L. Salmena, J. Zhang, B. Carver, W. J. Haveman, and P. P. Pandolfi, "A coding-independent function of gene and pseudogenemRNAs regulates tumour biology, " Nature, vol. 465, no. 7301, pp. 1033-1038, 2010.
-
(2010)
Nature
, vol.465
, Issue.7301
, pp. 1033-1038
-
-
Poliseno, L.1
Salmena, L.2
Zhang, J.3
Carver, B.4
Haveman, W.J.5
Pandolfi, P.P.6
-
11
-
-
79960191759
-
A transcribed pseudogene of MYLK promotes cell proliferation
-
Y. J. Han, S. F. Ma, G. Yourek, Y.-D. Park, and J. G. N. Garcia, "A transcribed pseudogene of MYLK promotes cell proliferation, " The FASEB Journal, vol. 25, no. 7, pp. 2305-2312, 2011.
-
(2011)
The FASEB Journal
, vol.25
, Issue.7
, pp. 2305-2312
-
-
Han, Y.J.1
Ma, S.F.2
Yourek, G.3
Park, Y.-D.4
Garcia, J.G.N.5
-
12
-
-
44349159416
-
Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes
-
O. H. Tam, A. A. Aravin, P. Stein et al. , "Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes, " Nature, vol. 453, pp. 534-538, 2008.
-
(2008)
Nature
, vol.453
, pp. 534-538
-
-
Tam, O.H.1
Aravin, A.A.2
Stein, P.3
-
13
-
-
44349130233
-
Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes
-
T. Watanabe, Y. Totoki, A. Toyoda et al. , "Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes, " Nature, vol. 453, no. 7194, pp. 539-543, 2008.
-
(2008)
Nature
, vol.453
, Issue.7194
, pp. 539-543
-
-
Watanabe, T.1
Totoki, Y.2
Toyoda, A.3
-
14
-
-
68249084505
-
Small RNAs originated from pseudogenes: Cis-or trans-acting?"
-
X. Guo, Z. Zhang, M. B. Gerstein, and D. Zheng, "Small RNAs originated from pseudogenes: cis-or trans-acting?" PLoS Computational Biology, vol. 5, no. 7, Article ID e1000449, 2009.
-
(2009)
PLoS Computational Biology
, vol.5
, Issue.7
-
-
Guo, X.1
Zhang, Z.2
Gerstein, M.B.3
Zheng, D.4
-
15
-
-
79957741638
-
Pseudogene-derived small interference RNAs regulate gene expression in African Trypanosoma brucei
-
Y.-Z. Wen, L.-L. Zheng, J.-Y. Liao et al. , "Pseudogene-derived small interference RNAs regulate gene expression in African Trypanosoma brucei, " Proceedings of the National Academy of Sciences of the United States of America, vol. 108, no. 20, pp. 8345-8350, 2011.
-
(2011)
Proceedings of the National Academy of Sciences of the United States of America
, vol.108
, Issue.20
, pp. 8345-8350
-
-
Wen, Y.-Z.1
Zheng, L.-L.2
Liao, J.-Y.3
-
16
-
-
24644484023
-
A human-specific gene in microglia
-
T. Hayakawa, T. Angata, A. L. Lewis, T. S. Mikkelsen, N. M. Varki, and A. Varki, "A human-specific gene in microglia, " Science, vol. 309, no. 5741, p. 1693, 2005.
-
(2005)
Science
, vol.309
, Issue.5741
, pp. 1693
-
-
Hayakawa, T.1
Angata, T.2
Lewis, A.L.3
Mikkelsen, T.S.4
Varki, N.M.5
Varki, A.6
-
17
-
-
0027367396
-
Polymorphism of the functional immunoglobulin variable region genes in the chicken by exchange of sequence with donor pseudogenes
-
T. Benatar and M. J. H. Ratcliffe, "Polymorphism of the functional immunoglobulin variable region genes in the chicken by exchange of sequence with donor pseudogenes, " European Journal of Immunology, vol. 23, no. 10, pp. 2448-2453, 1993.
-
(1993)
European Journal of Immunology
, vol.23
, Issue.10
, pp. 2448-2453
-
-
Benatar, T.1
Ratcliffe, M.J.H.2
-
18
-
-
0037992395
-
The structure of DNA in the nucleosome core
-
T. J. Richmond and C. A. Davey, "The structure of DNA in the nucleosome core, " Nature, vol. 423, no. 6936, pp. 145-150, 2003.
-
(2003)
Nature
, vol.423
, Issue.6936
, pp. 145-150
-
-
Richmond, T.J.1
Davey, C.A.2
-
19
-
-
39749145198
-
Dynamic regulation of nucleosome positioning in the human genome
-
D. E. Schones, K. Cui, S. Cuddapah et al. , "Dynamic regulation of nucleosome positioning in the human genome, " Cell, vol. 132, no. 5, pp. 887-898, 2008.
-
(2008)
Cell
, vol.132
, Issue.5
, pp. 887-898
-
-
Schones, D.E.1
Cui, K.2
Cuddapah, S.3
-
20
-
-
46449112319
-
A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
-
T. N. Mavrich, I. P. Ioshikhes, B. J. Venters et al. , "A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome, " Genome Research, vol. 18, no. 7, pp. 1073-1083, 2008.
-
(2008)
Genome Research
, vol.18
, Issue.7
, pp. 1073-1083
-
-
Mavrich, T.N.1
Ioshikhes, I.P.2
Venters, B.J.3
-
21
-
-
68249142923
-
Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo
-
Y. Zhang, Z. Moqtaderi, B. P. Rattner et al. , "Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo, " Nature Structural and Molecular Biology, vol. 16, no. 8, pp. 847-852, 2009.
-
(2009)
Nature Structural and Molecular Biology
, vol.16
, Issue.8
, pp. 847-852
-
-
Zhang, Y.1
Moqtaderi, Z.2
Rattner, B.P.3
-
22
-
-
34250377325
-
Pseudogenes in the ENCODE regions: Consensus annotation, analysis of transcription, and evolution
-
D. Zheng, A. Frankish, R. Baertsch et al. , "Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution, " Genome Research, vol. 17, no. 6, pp. 839-851, 2007.
-
(2007)
Genome Research
, vol.17
, Issue.6
, pp. 839-851
-
-
Zheng, D.1
Frankish, A.2
Baertsch, R.3
-
23
-
-
17844396017
-
Transcribed processed pseudogenes in the human genome: An intermediate form of expressed retrosequence lacking protein-coding ability
-
P. M. Harrison, D. Zheng, Z. Zhang, N. Carriero, and M. Gerstein, "Transcribed processed pseudogenes in the human genome: an intermediate form of expressed retrosequence lacking protein-coding ability, " Nucleic Acids Research, vol. 33, no. 8, pp. 2374-2383, 2005.
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.8
, pp. 2374-2383
-
-
Harrison, P.M.1
Zheng, D.2
Zhang, Z.3
Carriero, N.4
Gerstein, M.5
-
24
-
-
0024609518
-
Definitions and nomenclature of nucleic acid structure parameters
-
R. E. Dickerson, "Definitions and nomenclature of nucleic acid structure parameters, " Journal of Biomolecular Structure & Dynamics, vol. 6, no. 4, pp. 627-634, 1989.
-
(1989)
Journal of Biomolecular Structure & Dynamics
, vol.6
, Issue.4
, pp. 627-634
-
-
Dickerson, R.E.1
-
25
-
-
68149108057
-
Using DNA mechanics to predict in vitro nucleosome positions and formation energies
-
A. V. Morozov, K. Fortney, D. A. Gaykalova, V. M. Studitsky, J. Widom, and E. D. Siggia, "Using DNA mechanics to predict in vitro nucleosome positions and formation energies, " Nucleic Acids Research, vol. 37, no. 14, pp. 4707-4722, 2009.
-
(2009)
Nucleic Acids Research
, vol.37
, Issue.14
, pp. 4707-4722
-
-
Morozov, A.V.1
Fortney, K.2
Gaykalova, D.A.3
Studitsky, V.M.4
Widom, J.5
Siggia, E.D.6
-
26
-
-
84875903186
-
Calculation of nucleosomal DNA deformation energy: Its implication for nucleosome positioning
-
J.-Y. Wang and G. Liu, "Calculation of nucleosomal DNA deformation energy: its implication for nucleosome positioning, " Chromosome Research, vol. 20, no. 7, pp. 889-902, 2012.
-
(2012)
Chromosome Research
, vol.20
, Issue.7
, pp. 889-902
-
-
Wang, J.-Y.1
Liu, G.2
-
27
-
-
0036796620
-
Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome
-
Z. Zhang, P. Harrison, andM. Gerstein, "Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome, " Genome Research, vol. 12, no. 10, pp. 1466-1482, 2002.
-
(2002)
Genome Research
, vol.12
, Issue.10
, pp. 1466-1482
-
-
Zhang, Z.1
Harrison, P.2
Gerstein, M.3
-
28
-
-
56649089682
-
Evolutionary footprints of nucleosome positions in yeast
-
S. Washietl, R. Machné, and N. Goldman, "Evolutionary footprints of nucleosome positions in yeast, " Trends in Genetics, vol. 24, no. 12, pp. 583-587, 2008.
-
(2008)
Trends in Genetics
, vol.24
, Issue.12
, pp. 583-587
-
-
Washietl, S.1
MacHné, R.2
Goldman, N.3
-
29
-
-
75149135277
-
G+C content dominates intrinsic nucleosome occupancy
-
D. Tillo and T. R. Hughes, "G+C content dominates intrinsic nucleosome occupancy, " BMC Bioinformatics, vol. 10, article 442, 2009.
-
(2009)
BMC Bioinformatics
, vol.10
-
-
Tillo, D.1
Hughes, T.R.2
|