-
1
-
-
84908146265
-
Innate inflammation induced by the 8-oxoguanine DNA glycosylase-1-KRAS-NF-kappaB pathway
-
Aguilera-Aguirre L, Bacsi A, Radak Z, Hazra TK, Mitra S, Sur S, Brasier AR, Ba X, Boldogh I. Innate inflammation induced by the 8-oxoguanine DNA glycosylase-1-KRAS-NF-kappaB pathway. J Immunol 193: 4643-4653, 2014.
-
(2014)
J Immunol
, vol.193
, pp. 4643-4653
-
-
Aguilera-Aguirre, L.1
Bacsi, A.2
Radak, Z.3
Hazra, T.K.4
Mitra, S.5
Sur, S.6
Brasier, A.R.7
Ba, X.8
Boldogh, I.9
-
2
-
-
84863664040
-
Perinuclear mitochondrial clustering creates an oxidant-rich nuclear domain required for hypoxia-induced transcription
-
Al-Mehdi AB, Pastukh VM, Swiger BM, Reed DJ, Patel MR, Bardwell GC, Pastukh VV, Alexeyev MF, Gillespie MN. Perinuclear mitochondrial clustering creates an oxidant-rich nuclear domain required for hypoxia-induced transcription. Sci Signal 5: ra47, 2012.
-
(2012)
Sci Signal
, vol.5
-
-
Al-Mehdi, A.B.1
Pastukh, V.M.2
Swiger, B.M.3
Reed, D.J.4
Patel, M.R.5
Bardwell, G.C.6
Pastukh, V.V.7
Alexeyev, M.F.8
Gillespie, M.N.9
-
3
-
-
77952944359
-
Gene expression of the liver in response to chronic hypoxia
-
Baze MM, Schlauch K, Hayes JP. Gene expression of the liver in response to chronic hypoxia. Physiol Genomics 41: 275-288, 2010.
-
(2010)
Physiol Genomics
, vol.41
, pp. 275-288
-
-
Baze, M.M.1
Schlauch, K.2
Hayes, J.P.3
-
4
-
-
84862276530
-
Activation of ras signaling pathway by 8-oxoguanine DNA glycosylase bound to its excision product, 8-oxogua-nine
-
Boldogh I, Hajas G, Aguilera-Aguirre L, Hegde ML, Radak Z, Bacsi A, Sur S, Hazra TK, Mitra S. Activation of ras signaling pathway by 8-oxoguanine DNA glycosylase bound to its excision product, 8-oxogua-nine. J Biol Chem 287: 20769-20773, 2012.
-
(2012)
J Biol Chem
, vol.287
, pp. 20769-20773
-
-
Boldogh, I.1
Hajas, G.2
Aguilera-Aguirre, L.3
Hegde, M.L.4
Radak, Z.5
Bacsi, A.6
Sur, S.7
Hazra, T.K.8
Mitra, S.9
-
5
-
-
38049162235
-
Nuclear protein-induced bending and flexing of the hypoxic response element of the rat vascular endothelial growth factor promoter
-
Breit JF, Ault-Ziel K, Al-Mehdi AB, Gillespie MN. Nuclear protein-induced bending and flexing of the hypoxic response element of the rat vascular endothelial growth factor promoter. FASEB J 22: 19-29, 2008.
-
(2008)
FASEB J
, vol.22
, pp. 19-29
-
-
Breit, J.F.1
Ault-Ziel, K.2
Al-Mehdi, A.B.3
Gillespie, M.N.4
-
6
-
-
70549099970
-
The role of supercoiling in transcriptional control of MYC and its importance in molecular therapeutics
-
Brooks TA, Hurley LH. The role of supercoiling in transcriptional control of MYC and its importance in molecular therapeutics. Nat Rev Cancer 9: 849-861, 2009.
-
(2009)
Nat Rev Cancer
, vol.9
, pp. 849-861
-
-
Brooks, T.A.1
Hurley, L.H.2
-
7
-
-
77957688136
-
The impact of transcriptional cycling on gene regulation
-
Carlberg C. The impact of transcriptional cycling on gene regulation. Transcription 1: 13-16, 2010.
-
(2010)
Transcription
, vol.1
, pp. 13-16
-
-
Carlberg, C.1
-
8
-
-
84861584060
-
Promoter G-quadruplex sequences are targets for base oxidation and strand cleavage during hypoxia-induced transcription
-
Clark DW, Phang T, Edwards MG, Geraci MW, Gillespie MN. Promoter G-quadruplex sequences are targets for base oxidation and strand cleavage during hypoxia-induced transcription. Free Radic Biol Med 53: 51-59, 2012.
-
(2012)
Free Radic Biol Med
, vol.53
, pp. 51-59
-
-
Clark, D.W.1
Phang, T.2
Edwards, M.G.3
Geraci, M.W.4
Gillespie, M.N.5
-
9
-
-
0037144396
-
Exposure of yeast cells to anoxia induces transient oxidative stress. Implications for the induction of hypoxic genes
-
Dirmeier R, O'Brien KM, Engle M, Dodd A, Spears E, Poyton RO. Exposure of yeast cells to anoxia induces transient oxidative stress. Implications for the induction of hypoxic genes. J Biol Chem 277: 34773-34784, 2002.
-
(2002)
J Biol Chem
, vol.277
, pp. 34773-34784
-
-
Dirmeier, R.1
O'brien, K.M.2
Engle, M.3
Dodd, A.4
Spears, E.5
Poyton, R.O.6
-
11
-
-
84879421049
-
Transcription-coupled DNA supercoiling in defined protein systems and in E. Coli topA mutant strains
-
Fulcrand G, Zhi X, Leng F. Transcription-coupled DNA supercoiling in defined protein systems and in E. coli topA mutant strains. IUBMB Life 65: 615-622, 2013.
-
(2013)
IUBMB Life
, vol.65
, pp. 615-622
-
-
Fulcrand, G.1
Zhi, X.2
Leng, F.3
-
12
-
-
84885376540
-
Activation of cellular signaling by 8-oxoguanine DNA glycosylase-1-initiated DNA base excision repair
-
German P, Szaniszlo P, Hajas G, Radak Z, Bacsi A, Hazra TK, Hegde ML, Ba X, Boldogh I. Activation of cellular signaling by 8-oxoguanine DNA glycosylase-1-initiated DNA base excision repair. DNA Repair (Amst) 12: 856-863, 2013.
-
(2013)
DNA Repair (Amst)
, vol.12
, pp. 856-863
-
-
German, P.1
Szaniszlo, P.2
Hajas, G.3
Radak, Z.4
Bacsi, A.5
Hazra, T.K.6
Hegde, M.L.7
Ba, X.8
Boldogh, I.9
-
13
-
-
33846240499
-
Bending and breaking the code: Dynamic changes in promoter integrity may underlie a new mechanism regulating gene expression
-
Gillespie MN, Wilson GL. Bending and breaking the code: dynamic changes in promoter integrity may underlie a new mechanism regulating gene expression. Am J Physiol Lung Cell Mol Physiol 292: L1-L3, 2007.
-
(2007)
Am J Physiol Lung Cell Mol Physiol
, vol.292
, pp. L1-L3
-
-
Gillespie, M.N.1
Wilson, G.L.2
-
14
-
-
0035348181
-
Hypoxia promotes oxidative base modifications in the pulmonary artery endothelial cell VEGF gene
-
Grishko V, Solomon M, Breit JF, Killilea DW, Ledoux SP, Wilson GL, Gillespie MN. Hypoxia promotes oxidative base modifications in the pulmonary artery endothelial cell VEGF gene. FASEB J 15: 1267-1269, 2001.
-
(2001)
FASEB J
, vol.15
, pp. 1267-1269
-
-
Grishko, V.1
Solomon, M.2
Breit, J.F.3
Killilea, D.W.4
Ledoux, S.P.5
Wilson, G.L.6
Gillespie, M.N.7
-
15
-
-
84860717980
-
Topoisomerase Ilbeta regulates base excision repair capacity of neurons
-
Gupta KP, Swain U, Rao KS, Kondapi AK. Topoisomerase Ilbeta regulates base excision repair capacity of neurons. Mech Ageing Dev 133: 203-213, 2012.
-
(2012)
Mech Ageing Dev
, vol.133
, pp. 203-213
-
-
Gupta, K.P.1
Swain, U.2
Rao, K.S.3
Kondapi, A.K.4
-
16
-
-
33745255099
-
A topoisomerase IIbeta-mediated dsDNA break required for regulated transcription
-
Ju BG, Lunyak VV, Perissi V, Garcia-Bassets I, Rose DW, Glass CK, Rosenfeld MG. A topoisomerase IIbeta-mediated dsDNA break required for regulated transcription. Science 312: 1798-1802, 2006.
-
(2006)
Science
, vol.312
, pp. 1798-1802
-
-
Ju, B.G.1
Lunyak, V.V.2
Perissi, V.3
Garcia-Bassets, I.4
Rose, D.W.5
Glass, C.K.6
Rosenfeld, M.G.7
-
17
-
-
84862970400
-
Overview of base excision repair biochemistry
-
Kim YJ, Wilson DM III. Overview of base excision repair biochemistry. Curr Mol Pharmacol 5: 3-13, 2012.
-
(2012)
Curr Mol Pharmacol
, vol.5
, pp. 3-13
-
-
Kim, Y.J.1
Wilson, D.M.2
-
18
-
-
77951939888
-
Microindel detection in short-read sequence data
-
Krawitz P, Rodelsperger C, Jager M, Jostins L, Bauer S, Robinson PN. Microindel detection in short-read sequence data. Bioinformatics 26: 722-729, 2010.
-
(2010)
Bioinformatics
, vol.26
, pp. 722-729
-
-
Krawitz, P.1
Rodelsperger, C.2
Jager, M.3
Jostins, L.4
Bauer, S.5
Robinson, P.N.6
-
19
-
-
33644878620
-
DBD: A transcription factor prediction database
-
Kummerfeld SK, Teichmann SA. DBD: a transcription factor prediction database. Nucleic Acids Res 34: D74-D81, 2006.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. D74-D81
-
-
Kummerfeld, S.K.1
Teichmann, S.A.2
-
20
-
-
9144219714
-
Supercoiling to transcription in defined protein systems
-
Leng F, Amado L, McMacken R. Coupling DNA supercoiling to transcription in defined protein systems. J Biol Chem 279: 47564-47571, 2004.
-
(2004)
J Biol Chem
, vol.279
, pp. 47564-47571
-
-
Leng, F.1
Amado, L.2
McMacken, R.3
Coupling, D.4
-
21
-
-
84905125583
-
Boldogh I. 8-Oxoguanine DNA glycosylase-1-medi-ated DNA repair is associated with Rho GTPase activation and alpha-smooth muscle actin polymerization
-
Luo J, Hosoki K, Bacsi A, Radak Z, Hegde ML, Sur S, Hazra TK, Brasier AR, Ba X, Boldogh I. 8-Oxoguanine DNA glycosylase-1-medi-ated DNA repair is associated with Rho GTPase activation and alpha-smooth muscle actin polymerization. Free Radic Biol Med 73: 430-438, 2014.
-
(2014)
Free Radic Biol Med
, vol.73
, pp. 430-438
-
-
Luo, J.1
Hosoki, K.2
Bacsi, A.3
Radak, Z.4
Hegde, M.L.5
Sur, S.6
Hazra, T.K.7
Brasier, A.R.8
Ba, X.9
-
22
-
-
84865822182
-
Systematic localization of common disease-associated variation in regulatory DNA
-
Maurano MT, Humbert R, Rynes E, Thurman RE, Haugen E, Wang H, Reynolds AP, Sandstrom R, Qu H, Brody J, Shafer A, Neri F, Lee K, Kutyavin T, Stehling-Sun S, Johnson AK, Canfield TK, Giste E, Diegel M, Bates D, Hansen RS, Neph S, Sabo PJ, Heimfeld S, Raubitschek A, Ziegler S, Cotsapas C, Sotoodehnia N, Glass I, Suny-aev SR, Kaul R, Stamatoyannopoulos JA. Systematic localization of common disease-associated variation in regulatory DNA. Science 337: 1190-1195, 2012.
-
(2012)
Science
, vol.337
, pp. 1190-1195
-
-
Maurano, M.T.1
Humbert, R.2
Rynes, E.3
Thurman, R.E.4
Haugen, E.5
Wang, H.6
Reynolds, A.P.7
Sandstrom, R.8
Qu, H.9
Brody, J.10
Shafer, A.11
Neri, F.12
Lee, K.13
Kutyavin, T.14
Stehling-Sun, S.15
Johnson, A.K.16
Canfield, T.K.17
Giste, E.18
Diegel, M.19
Bates, D.20
Hansen, R.S.21
Neph, S.22
Sabo, P.J.23
Heimfeld, S.24
Raubitschek, A.25
Ziegler, S.26
Cotsapas, C.27
Sotoodehnia, N.28
Glass, I.29
Suny-Aev, S.R.30
Kaul, R.31
Stamatoyannopoulos, J.A.32
more..
-
23
-
-
0009775539
-
Acute hypoxia and hypoxic exercise induce DNA strand breaks and oxidative DNA damage in humans
-
Moller P, Loft S, Lundby C, Olsen NV. Acute hypoxia and hypoxic exercise induce DNA strand breaks and oxidative DNA damage in humans. FASEB J 15: 1181-1186, 2001.
-
(2001)
FASEB J
, vol.15
, pp. 1181-1186
-
-
Moller, P.1
Loft, S.2
Lundby, C.3
Olsen, N.V.4
-
24
-
-
4243073124
-
Genome-wide analysis of the endothelial transcriptome under short-term chronic hypoxia
-
Ning W, Chu TJ, Li CJ, Choi AM, Peters DG. Genome-wide analysis of the endothelial transcriptome under short-term chronic hypoxia. Physiol Genomics 18: 70-78, 2004.
-
(2004)
Physiol Genomics
, vol.18
, pp. 70-78
-
-
Ning, W.1
Chu, T.J.2
Li, C.J.3
Choi, A.M.4
Peters, D.G.5
-
25
-
-
36249010820
-
Sequence-specific oxidative base modifications in hypoxia-inducible genes
-
Pastukh V, Ruchko M, Gorodnya O, Wilson GL, Gillespie MN. Sequence-specific oxidative base modifications in hypoxia-inducible genes. Free Radic Biol Med 43: 1616-1626, 2007.
-
(2007)
Free Radic Biol Med
, vol.43
, pp. 1616-1626
-
-
Pastukh, V.1
Ruchko, M.2
Gorodnya, O.3
Wilson, G.L.4
Gillespie, M.N.5
-
26
-
-
80053502247
-
Oxidative DNA damage in lung tissue from patients with COPD is clustered in functionally significant sequences
-
Pastukh VM, Zhang L, Ruchko MV, Gorodnya O, Bardwell GC, Tuder RM, Gillespie MN. Oxidative DNA damage in lung tissue from patients with COPD is clustered in functionally significant sequences. Int J Chron Obstruct Pulmon Dis 6: 209-217, 2011.
-
(2011)
Int J Chron Obstruct Pulmon Dis
, vol.6
, pp. 209-217
-
-
Pastukh, V.M.1
Zhang, L.2
Ruchko, M.V.3
Gorodnya, O.4
Bardwell, G.C.5
Tuder, R.M.6
Gillespie, M.N.7
-
27
-
-
38149045693
-
DNA oxidation as triggered by H3K9me2 demethylation drives estrogen-induced gene expression
-
Perillo B, Ombra MN, Bertoni A, Cuozzo C, Sacchetti S, Sasso A, Chiariotti L, Malorni A, Abbondanza C, Avvedimento EV. DNA oxidation as triggered by H3K9me2 demethylation drives estrogen-induced gene expression. Science 319: 202-206, 2008.
-
(2008)
Science
, vol.319
, pp. 202-206
-
-
Perillo, B.1
Ombra, M.N.2
Bertoni, A.3
Cuozzo, C.4
Sacchetti, S.5
Sasso, A.6
Chiariotti, L.7
Malorni, A.8
Abbondanza, C.9
Avvedimento, E.V.10
-
28
-
-
77952923001
-
Intermittent and sustained hypoxia induce a similar gene expression profile in human aortic endothelial cells
-
Polotsky VY, Savransky V, Bevans-Fonti S, Reinke C, Li J, Grigoryev DN, Shimoda LA. Intermittent and sustained hypoxia induce a similar gene expression profile in human aortic endothelial cells. Physiol Genom-ics 41: 306-314, 2010.
-
(2010)
Physiol Genom-Ics
, vol.41
, pp. 306-314
-
-
Polotsky, V.Y.1
Savransky, V.2
Bevans-Fonti, S.3
Reinke, C.4
Li, J.5
Grigoryev, D.N.6
Shimoda, L.A.7
-
29
-
-
84922147486
-
Ligand-dependent enhancer activation regulated by topoisomerase-I activity
-
Puc J, Kozbial P, Li W, Tan Y, Liu Z, Suter T, Ohgi KA, Zhang J, Aggarwal AK, Rosenfeld MG. Ligand-dependent enhancer activation regulated by topoisomerase-I activity. Cell 160: 367-380, 2015.
-
(2015)
Cell
, vol.160
, pp. 367-380
-
-
Puc, J.1
Kozbial, P.2
Li, W.3
Tan, Y.4
Liu, Z.5
Suter, T.6
Ohgi, K.A.7
Zhang, J.8
Aggarwal, A.K.9
Rosenfeld, M.G.10
-
30
-
-
58149094898
-
Hypoxia-induced oxidative base modifications in the VEGF hypoxia-response element are associated with tran-scriptionally active nucleosomes
-
Ruchko MV, Gorodnya OM, Pastukh VM, Swiger BM, Middleton NS, Wilson GL, Gillespie MN. Hypoxia-induced oxidative base modifications in the VEGF hypoxia-response element are associated with tran-scriptionally active nucleosomes. Free Radic Biol Med 46: 352-359, 2009.
-
(2009)
Free Radic Biol Med
, vol.46
, pp. 352-359
-
-
Ruchko, M.V.1
Gorodnya, O.M.2
Pastukh, V.M.3
Swiger, B.M.4
Middleton, N.S.5
Wilson, G.L.6
Gillespie, M.N.7
-
31
-
-
79953252754
-
The DNA glycosylase Ogg1 defends against oxidant-induced mtDNA damage and apoptosis in pulmonary artery endothelial cells
-
Ruchko MV, Gorodnya OM, Zuleta A, Pastukh VM, Gillespie MN. The DNA glycosylase Ogg1 defends against oxidant-induced mtDNA damage and apoptosis in pulmonary artery endothelial cells. Free Radic BiolMed 50: 1107-1113, 2011.
-
(2011)
Free Radic Biolmed
, vol.50
, pp. 1107-1113
-
-
Ruchko, M.V.1
Gorodnya, O.M.2
Zuleta, A.3
Pastukh, V.M.4
Gillespie, M.N.5
-
32
-
-
84901697863
-
Mitochondria in lung biology and pathology: More than just a powerhouse
-
Schumacker PT, Gillespie MN, Nakahira K, Choi AM, Crouser ED, Piantadosi CA, Bhattacharya J. Mitochondria in lung biology and pathology: more than just a powerhouse. Am J Physiol Lung Cell Mol Physiol 306: L962-L974, 2014.
-
(2014)
Am J Physiol Lung Cell Mol Physiol
, vol.306
, pp. L962-L974
-
-
Schumacker, P.T.1
Gillespie, M.N.2
Nakahira, K.3
Choi, A.M.4
Crouser, E.D.5
Piantadosi, C.A.6
Bhattacharya, J.7
-
33
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A 102: 15545-15550, 2005.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
Mukherjee, S.4
Ebert, B.L.5
Gillette, M.A.6
Paulovich, A.7
Pomeroy, S.L.8
Golub, T.R.9
Lander, E.S.10
Mesirov, J.P.11
-
34
-
-
6944236323
-
Ref-1/Ape is critical for formation of the hypoxia-inducible transcriptional complex on the hypoxic response element of the rat pulmonary artery endothelial cell VEGF gene
-
Ziel KA, Campbell CC, Wilson GL, Gillespie MN. Ref-1/Ape is critical for formation of the hypoxia-inducible transcriptional complex on the hypoxic response element of the rat pulmonary artery endothelial cell VEGF gene. FASEB J 18: 986-988, 2004.
-
(2004)
FASEB J
, vol.18
, pp. 986-988
-
-
Ziel, K.A.1
Campbell, C.C.2
Wilson, G.L.3
Gillespie, M.N.4
-
35
-
-
14644439800
-
Oxidants in signal transduction: Impact on DNA integrity and gene expression
-
Ziel KA, Grishko V, Campbell CC, Breit JF, Wilson GL, Gillespie MN. Oxidants in signal transduction: impact on DNA integrity and gene expression. FASEB J 19: 387-394, 2005.
-
(2005)
FASEB J
, vol.19
, pp. 387-394
-
-
Ziel, K.A.1
Grishko, V.2
Campbell, C.C.3
Breit, J.F.4
Wilson, G.L.5
Gillespie, M.N.6
|