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Protocol: a beginner's guide to the analysis of RNA-directed DNA methylation in plants.

Plant methods

Zhang H, Tang K, Wang B, Duan CG, Lang Z, Zhu JK.
PMID: 24955108
Plant Methods. 2014 Jun 14;10:18. doi: 10.1186/1746-4811-10-18. eCollection 2014.

BACKGROUND: DNA methylation is a conserved epigenetic mark that controls genome stability, development and environmental responses in many eukaryotes. DNA methylation can be guided by non-coding RNAs that include small interfering RNAs and scaffold RNAs. Although measurement of DNA...

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Zhang H, Tang K, Wang B, et al. Protocol: a beginner's guide to the analysis of RNA-directed DNA methylation in plants. Plant Methods. 2014;10:18doi: 10.1186/1746-4811-10-18.
Zhang, H., Tang, K., Wang, B., Duan, C. G., Lang, Z., & Zhu, J. K. (2014). Protocol: a beginner's guide to the analysis of RNA-directed DNA methylation in plants. Plant methods, 1018. https://doi.org/10.1186/1746-4811-10-18
Zhang, Huiming, et al. "Protocol: a beginner's guide to the analysis of RNA-directed DNA methylation in plants." Plant methods vol. 10 (2014): 18. doi: https://doi.org/10.1186/1746-4811-10-18
Zhang H, Tang K, Wang B, Duan CG, Lang Z, Zhu JK. Protocol: a beginner's guide to the analysis of RNA-directed DNA methylation in plants. Plant Methods. 2014 Jun 14;10:18. doi: 10.1186/1746-4811-10-18. eCollection 2014. PMID: 24955108; PMCID: PMC4065543.
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A Drug-Target Network-Based Approach to Evaluate the Efficacy of Medicinal Plants for Type II Diabetes Mellitus.

Evidence-based complementary and alternative medicine : eCAM

Gu J, Chen L, Yuan G, Xu X.
PMID: 24223610
Evid Based Complement Alternat Med. 2013;2013:203614. doi: 10.1155/2013/203614. Epub 2013 Oct 10.

The use of plants as natural medicines in the treatment of type II diabetes mellitus (T2DM) has long been of special interest. In this work, we developed a docking score-weighted prediction model based on drug-target network to evaluate the...

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Gu J, Chen L, Yuan G, et al. A Drug-Target Network-Based Approach to Evaluate the Efficacy of Medicinal Plants for Type II Diabetes Mellitus. Evid Based Complement Alternat Med. 2013;2013:203614doi: 10.1155/2013/203614.
Gu, J., Chen, L., Yuan, G., & Xu, X. (2013). A Drug-Target Network-Based Approach to Evaluate the Efficacy of Medicinal Plants for Type II Diabetes Mellitus. Evidence-based complementary and alternative medicine : eCAM, 2013203614. https://doi.org/10.1155/2013/203614
Gu, Jiangyong, et al. "A Drug-Target Network-Based Approach to Evaluate the Efficacy of Medicinal Plants for Type II Diabetes Mellitus." Evidence-based complementary and alternative medicine : eCAM vol. 2013 (2013): 203614. doi: https://doi.org/10.1155/2013/203614
Gu J, Chen L, Yuan G, Xu X. A Drug-Target Network-Based Approach to Evaluate the Efficacy of Medicinal Plants for Type II Diabetes Mellitus. Evid Based Complement Alternat Med. 2013;2013:203614. doi: 10.1155/2013/203614. Epub 2013 Oct 10. PMID: 24223610; PMCID: PMC3810496.
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Association of genotypes of rs671 within.

Cancer biology & medicine

Zhang LQ, Song X, Zhao XK, Huang J, Zhang P, Wang LW, Meng H, Ku JW, Kong GQ, Jiang T, Li XM, Lv XL, Ma T, Yuan G, Wu MJ, Hu SJ, Lv S, Zhang TJ, Ji LF, Fan ZM, Wang NC, Zhang YW, Zhou FY, Wang LD.
PMID: 28443204
Cancer Biol Med. 2017 Feb;14(1):60-65. doi: 10.20892/j.issn.2095-3941.2016.0089.

OBJECTIVE: : This study aimed to determine if gastric cardia adenocarcinoma (GCA) risk was associated with the lys (A or *2) allele at the rs671 (glu504lys) polymorphism within the aldehyde dehydrogenase 2 (METHODS: : We designed a case-control study...

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Zhang LQ, Song X, Zhao XK, et al. Association of genotypes of rs671 within. Cancer Biol Med. 2017;14(1):60-65doi: 10.20892/j.issn.2095-3941.2016.0089.
Zhang, L. Q., Song, X., Zhao, X. K., Huang, J., Zhang, P., Wang, L. W., Meng, H., Ku, J. W., Kong, G. Q., Jiang, T., Li, X. M., Lv, X. L., Ma, T., Yuan, G., Wu, M. J., Hu, S. J., Lv, S., Zhang, T. J., Ji, L. F., Fan, Z. M., Wang, N. C., Zhang, Y. W., Zhou, F. Y., & Wang, L. D. (2017). Association of genotypes of rs671 within. Cancer biology & medicine, 14(1), 60-65. https://doi.org/10.20892/j.issn.2095-3941.2016.0089
Zhang, Lian-Qun, et al. "Association of genotypes of rs671 within." Cancer biology & medicine vol. 14,1 (2017): 60-65. doi: https://doi.org/10.20892/j.issn.2095-3941.2016.0089
Zhang LQ, Song X, Zhao XK, Huang J, Zhang P, Wang LW, Meng H, Ku JW, Kong GQ, Jiang T, Li XM, Lv XL, Ma T, Yuan G, Wu MJ, Hu SJ, Lv S, Zhang TJ, Ji LF, Fan ZM, Wang NC, Zhang YW, Zhou FY, Wang LD. Association of genotypes of rs671 within. Cancer Biol Med. 2017 Feb;14(1):60-65. doi: 10.20892/j.issn.2095-3941.2016.0089. PMID: 28443204; PMCID: PMC5365177.
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Ocular Behcet's disease is associated with aberrant methylation of interferon regulatory factor 8 (IRF8) in monocyte-derived dendritic cells.

Oncotarget

Qiu Y, Zhu Y, Yu H, Yi S, Su W, Cao Q, Yuan G, Kijlstra A, Yang P.
PMID: 28881647
Oncotarget. 2017 Apr 19;8(31):51277-51287. doi: 10.18632/oncotarget.17235. eCollection 2017 Aug 01.

Aberrant methylation of interferon regulatory factor 8 (IRF8) has been noted in various tumors. IRF8 has also been reported to be involved in many autoimmune diseases, including Behcet's disease (BD). However, the methylation status of IRF8 in BD has...

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Qiu Y, Zhu Y, Yu H, et al. Ocular Behcet's disease is associated with aberrant methylation of interferon regulatory factor 8 (IRF8) in monocyte-derived dendritic cells. Oncotarget. 2017;8(31):51277-51287doi: 10.18632/oncotarget.17235.
Qiu, Y., Zhu, Y., Yu, H., Yi, S., Su, W., Cao, Q., Yuan, G., Kijlstra, A., & Yang, P. (2017). Ocular Behcet's disease is associated with aberrant methylation of interferon regulatory factor 8 (IRF8) in monocyte-derived dendritic cells. Oncotarget, 8(31), 51277-51287. https://doi.org/10.18632/oncotarget.17235
Qiu, Yiguo, et al. "Ocular Behcet's disease is associated with aberrant methylation of interferon regulatory factor 8 (IRF8) in monocyte-derived dendritic cells." Oncotarget vol. 8,31 (2017): 51277-51287. doi: https://doi.org/10.18632/oncotarget.17235
Qiu Y, Zhu Y, Yu H, Yi S, Su W, Cao Q, Yuan G, Kijlstra A, Yang P. Ocular Behcet's disease is associated with aberrant methylation of interferon regulatory factor 8 (IRF8) in monocyte-derived dendritic cells. Oncotarget. 2017 Apr 19;8(31):51277-51287. doi: 10.18632/oncotarget.17235. eCollection 2017 Aug 01. PMID: 28881647; PMCID: PMC5584248.
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Significantly Enhanced Breakdown Strength and Energy Density in Sandwich-Structured Barium Titanate/Poly(vinylidene fluoride) Nanocomposites.

Advanced materials (Deerfield Beach, Fla.)

Wang Y, Cui J, Yuan Q, Niu Y, Bai Y, Wang H.
PMID: 26403222
Adv Mater. 2015 Nov;27(42):6658-63. doi: 10.1002/adma.201503186. Epub 2015 Sep 25.

Sandwich-structured BaTiO3 /poly(vinylidene fluoride) (PVDF) nanocomposites are successfully prepared by the solution-casting method layer by layer. They possess both high breakdown strength and large dielectric polarization simultaneously. An ultra-high energy-storage density of 18.8 J cm(-3) can be achieved by...

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Wang Y, Cui J, Yuan Q, et al. Significantly Enhanced Breakdown Strength and Energy Density in Sandwich-Structured Barium Titanate/Poly(vinylidene fluoride) Nanocomposites. Adv Mater. 2015;27(42):6658-63doi: 10.1002/adma.201503186.
Wang, Y., Cui, J., Yuan, Q., Niu, Y., Bai, Y., & Wang, H. (2015). Significantly Enhanced Breakdown Strength and Energy Density in Sandwich-Structured Barium Titanate/Poly(vinylidene fluoride) Nanocomposites. Advanced materials (Deerfield Beach, Fla.), 27(42), 6658-63. https://doi.org/10.1002/adma.201503186
Wang, Yifei, et al. "Significantly Enhanced Breakdown Strength and Energy Density in Sandwich-Structured Barium Titanate/Poly(vinylidene fluoride) Nanocomposites." Advanced materials (Deerfield Beach, Fla.) vol. 27,42 (2015): 6658-63. doi: https://doi.org/10.1002/adma.201503186
Wang Y, Cui J, Yuan Q, Niu Y, Bai Y, Wang H. Significantly Enhanced Breakdown Strength and Energy Density in Sandwich-Structured Barium Titanate/Poly(vinylidene fluoride) Nanocomposites. Adv Mater. 2015 Nov;27(42):6658-63. doi: 10.1002/adma.201503186. Epub 2015 Sep 25. PMID: 26403222.
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Film Confinement Induced "Jump-Percolation" Wetting Transition in Amphiphilic Block Copolymer Films.

ACS applied materials & interfaces

Salunke N, Nallapaneni A, Yuan G, Stafford CM, Niu H, Shawkey MD, Weiss RA, Karim A.
PMID: 28925687
ACS Appl Mater Interfaces. 2017 Oct 11;9(40):35349-35359. doi: 10.1021/acsami.7b07245. Epub 2017 Oct 02.

We report a first-order like sharp surface wettability transition with varying film thickness dependent morphology in cast films of an amphiphilic triblock copolymer. Films composed of poly(2-(N-ethylperfluorooctanesulfonamido) ethyl methyl acrylate), poly(FOSM), and poly(N,N'-dimethyl acrylamide), poly(DMA), with thickness (h) in...

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Salunke N, Nallapaneni A, Yuan G, et al. Film Confinement Induced "Jump-Percolation" Wetting Transition in Amphiphilic Block Copolymer Films. ACS Appl Mater Interfaces. 2017;9(40):35349-35359doi: 10.1021/acsami.7b07245.
Salunke, N., Nallapaneni, A., Yuan, G., Stafford, C. M., Niu, H., Shawkey, M. D., Weiss, R. A., & Karim, A. (2017). Film Confinement Induced "Jump-Percolation" Wetting Transition in Amphiphilic Block Copolymer Films. ACS applied materials & interfaces, 9(40), 35349-35359. https://doi.org/10.1021/acsami.7b07245
Salunke, Namrata, et al. "Film Confinement Induced "Jump-Percolation" Wetting Transition in Amphiphilic Block Copolymer Films." ACS applied materials & interfaces vol. 9,40 (2017): 35349-35359. doi: https://doi.org/10.1021/acsami.7b07245
Salunke N, Nallapaneni A, Yuan G, Stafford CM, Niu H, Shawkey MD, Weiss RA, Karim A. Film Confinement Induced "Jump-Percolation" Wetting Transition in Amphiphilic Block Copolymer Films. ACS Appl Mater Interfaces. 2017 Oct 11;9(40):35349-35359. doi: 10.1021/acsami.7b07245. Epub 2017 Oct 02. PMID: 28925687.
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Photoelectron velocity-map imaging and theoretical studies of heteronuclear metal carbonyls MNi(CO)3(-) (M = Mg, Ca, Al).

The Journal of chemical physics

Xie H, Zou J, Yuan Q, Fan H, Tang Z, Jiang L.
PMID: 27036444
J Chem Phys. 2016 Mar 28;144(12):124303. doi: 10.1063/1.4944529.

The heteronuclear metal carbonyl anions MNi(CO)3(-) (M = Mg, Ca, Al) have been investigated using photoelectron velocity-map imaging spectroscopy. Electron affinities of neutral MNi(CO)3 (M = Mg, Ca, Al) are measured from the photoelectron spectra to be 1.064 ±...

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Xie H, Zou J, Yuan Q, et al. Photoelectron velocity-map imaging and theoretical studies of heteronuclear metal carbonyls MNi(CO)3(-) (M = Mg, Ca, Al). J Chem Phys. 2016;144(12):124303doi: 10.1063/1.4944529.
Xie, H., Zou, J., Yuan, Q., Fan, H., Tang, Z., & Jiang, L. (2016). Photoelectron velocity-map imaging and theoretical studies of heteronuclear metal carbonyls MNi(CO)3(-) (M = Mg, Ca, Al). The Journal of chemical physics, 144(12), 124303. https://doi.org/10.1063/1.4944529
Xie, Hua, et al. "Photoelectron velocity-map imaging and theoretical studies of heteronuclear metal carbonyls MNi(CO)3(-) (M = Mg, Ca, Al)." The Journal of chemical physics vol. 144,12 (2016): 124303. doi: https://doi.org/10.1063/1.4944529
Xie H, Zou J, Yuan Q, Fan H, Tang Z, Jiang L. Photoelectron velocity-map imaging and theoretical studies of heteronuclear metal carbonyls MNi(CO)3(-) (M = Mg, Ca, Al). J Chem Phys. 2016 Mar 28;144(12):124303. doi: 10.1063/1.4944529. PMID: 27036444.
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Enhancement of superconductivity under pressure and the magnetic phase diagram of tantalum disulfide single crystals.

Scientific reports

Abdel-Hafiez M, Zhao XM, Kordyuk AA, Fang YW, Pan B, He Z, Duan CG, Zhao J, Chen XJ.
PMID: 27534898
Sci Rep. 2016 Aug 18;6:31824. doi: 10.1038/srep31824.

In low-dimensional electron systems, charge density waves (CDW) and superconductivity are two of the most fundamental collective quantum phenomena. For all known quasi-two-dimensional superconductors, the origin and exact boundary of the electronic orderings and superconductivity are still attractive problems....

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Abdel-Hafiez M, Zhao XM, Kordyuk AA, et al. Enhancement of superconductivity under pressure and the magnetic phase diagram of tantalum disulfide single crystals. Sci Rep. 2016;6:31824doi: 10.1038/srep31824.
Abdel-Hafiez, M., Zhao, X. M., Kordyuk, A. A., Fang, Y. W., Pan, B., He, Z., Duan, C. G., Zhao, J., & Chen, X. J. (2016). Enhancement of superconductivity under pressure and the magnetic phase diagram of tantalum disulfide single crystals. Scientific reports, 631824. https://doi.org/10.1038/srep31824
Abdel-Hafiez, M, et al. "Enhancement of superconductivity under pressure and the magnetic phase diagram of tantalum disulfide single crystals." Scientific reports vol. 6 (2016): 31824. doi: https://doi.org/10.1038/srep31824
Abdel-Hafiez M, Zhao XM, Kordyuk AA, Fang YW, Pan B, He Z, Duan CG, Zhao J, Chen XJ. Enhancement of superconductivity under pressure and the magnetic phase diagram of tantalum disulfide single crystals. Sci Rep. 2016 Aug 18;6:31824. doi: 10.1038/srep31824. PMID: 27534898; PMCID: PMC4989151.
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Establishment and characterization of arsenic trioxide resistant KB/ATO cells.

Acta pharmaceutica Sinica. B

Zhang YK, Dai C, Yuan CG, Wu HC, Xiao Z, Lei ZN, Yang DH, Le XC, Fu L, Chen ZS.
PMID: 28924550
Acta Pharm Sin B. 2017 Sep;7(5):564-570. doi: 10.1016/j.apsb.2017.04.001. Epub 2017 Apr 28.

Arsenic trioxide (ATO) is used as a chemotherapeutic agent for the treatment of acute promyelocytic leukemia. However, increasing drug resistance is reducing its efficacy. Therefore, a better understanding of ATO resistance mechanism is required. In this study, we established...

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Zhang YK, Dai C, Yuan CG, et al. Establishment and characterization of arsenic trioxide resistant KB/ATO cells. Acta Pharm Sin B. 2017;7(5):564-570doi: 10.1016/j.apsb.2017.04.001.
Zhang, Y. K., Dai, C., Yuan, C. G., Wu, H. C., Xiao, Z., Lei, Z. N., Yang, D. H., Le, X. C., Fu, L., & Chen, Z. S. (2017). Establishment and characterization of arsenic trioxide resistant KB/ATO cells. Acta pharmaceutica Sinica. B, 7(5), 564-570. https://doi.org/10.1016/j.apsb.2017.04.001
Zhang, Yun-Kai, et al. "Establishment and characterization of arsenic trioxide resistant KB/ATO cells." Acta pharmaceutica Sinica. B vol. 7,5 (2017): 564-570. doi: https://doi.org/10.1016/j.apsb.2017.04.001
Zhang YK, Dai C, Yuan CG, Wu HC, Xiao Z, Lei ZN, Yang DH, Le XC, Fu L, Chen ZS. Establishment and characterization of arsenic trioxide resistant KB/ATO cells. Acta Pharm Sin B. 2017 Sep;7(5):564-570. doi: 10.1016/j.apsb.2017.04.001. Epub 2017 Apr 28. PMID: 28924550; PMCID: PMC5595296.
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Vitamin D deficiency causes insulin resistance by provoking oxidative stress in hepatocytes.

Oncotarget

Tao S, Yuan Q, Mao L, Chen FL, Ji F, Cui ZH.
PMID: 28978056
Oncotarget. 2017 Jun 28;8(40):67605-67613. doi: 10.18632/oncotarget.18754. eCollection 2017 Sep 15.

Vitamin D deficiency could cause insulin resistance. However, the underlying mechanisms are unclear. The 1α-Hydroxylase ["1α(OH)ase"] is a key enzyme for activate vitamin D3 synthesis. Here, we show that 1α(OH)ase stable knockdown by targeted shRNA led to vitamin D3...

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Tao S, Yuan Q, Mao L, et al. Vitamin D deficiency causes insulin resistance by provoking oxidative stress in hepatocytes. Oncotarget. 2017;8(40):67605-67613doi: 10.18632/oncotarget.18754.
Tao, S., Yuan, Q., Mao, L., Chen, F. L., Ji, F., & Cui, Z. H. (2017). Vitamin D deficiency causes insulin resistance by provoking oxidative stress in hepatocytes. Oncotarget, 8(40), 67605-67613. https://doi.org/10.18632/oncotarget.18754
Tao, Sha, et al. "Vitamin D deficiency causes insulin resistance by provoking oxidative stress in hepatocytes." Oncotarget vol. 8,40 (2017): 67605-67613. doi: https://doi.org/10.18632/oncotarget.18754
Tao S, Yuan Q, Mao L, Chen FL, Ji F, Cui ZH. Vitamin D deficiency causes insulin resistance by provoking oxidative stress in hepatocytes. Oncotarget. 2017 Jun 28;8(40):67605-67613. doi: 10.18632/oncotarget.18754. eCollection 2017 Sep 15. PMID: 28978056; PMCID: PMC5620196.
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Directed Self-Assembly of Block Copolymers for High Breakdown Strength Polymer Film Capacitors.

ACS applied materials & interfaces

Samant SP, Grabowski CA, Kisslinger K, Yager KG, Yuan G, Satija SK, Durstock MF, Raghavan D, Karim A.
PMID: 26942835
ACS Appl Mater Interfaces. 2016 Mar;8(12):7966-76. doi: 10.1021/acsami.5b11851. Epub 2016 Mar 18.

Emerging needs for fast charge/discharge yet high-power, lightweight, and flexible electronics requires the use of polymer-film-based solid-state capacitors with high energy densities. Fast charge/discharge rates of film capacitors on the order of microseconds are not achievable with slower charging...

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Samant SP, Grabowski CA, Kisslinger K, et al. Directed Self-Assembly of Block Copolymers for High Breakdown Strength Polymer Film Capacitors. ACS Appl Mater Interfaces. 2016;8(12):7966-76doi: 10.1021/acsami.5b11851.
Samant, S. P., Grabowski, C. A., Kisslinger, K., Yager, K. G., Yuan, G., Satija, S. K., Durstock, M. F., Raghavan, D., & Karim, A. (2016). Directed Self-Assembly of Block Copolymers for High Breakdown Strength Polymer Film Capacitors. ACS applied materials & interfaces, 8(12), 7966-76. https://doi.org/10.1021/acsami.5b11851
Samant, Saumil P, et al. "Directed Self-Assembly of Block Copolymers for High Breakdown Strength Polymer Film Capacitors." ACS applied materials & interfaces vol. 8,12 (2016): 7966-76. doi: https://doi.org/10.1021/acsami.5b11851
Samant SP, Grabowski CA, Kisslinger K, Yager KG, Yuan G, Satija SK, Durstock MF, Raghavan D, Karim A. Directed Self-Assembly of Block Copolymers for High Breakdown Strength Polymer Film Capacitors. ACS Appl Mater Interfaces. 2016 Mar;8(12):7966-76. doi: 10.1021/acsami.5b11851. Epub 2016 Mar 18. PMID: 26942835.
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Pioglitazone Improves Mitochondrial Function in the Remnant Kidney and Protects against Renal Fibrosis in 5/6 Nephrectomized Rats.

Frontiers in pharmacology

Sun L, Yuan Q, Xu T, Yao L, Feng J, Ma J, Wang L, Lu C, Wang D.
PMID: 28860994
Front Pharmacol. 2017 Aug 15;8:545. doi: 10.3389/fphar.2017.00545. eCollection 2017.

Pioglitazone is a type of peroxisome proliferator-activated receptor γ (PPARγ) agonist and has been demonstrated to be effective in chronic kidney diseases (CKD) treatment. However, the underlying mechanism involved in the renoprotection of pioglitazone has not been fully revealed....

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Sun L, Yuan Q, Xu T, et al. Pioglitazone Improves Mitochondrial Function in the Remnant Kidney and Protects against Renal Fibrosis in 5/6 Nephrectomized Rats. Front Pharmacol. 2017;8:545doi: 10.3389/fphar.2017.00545.
Sun, L., Yuan, Q., Xu, T., Yao, L., Feng, J., Ma, J., Wang, L., Lu, C., & Wang, D. (2017). Pioglitazone Improves Mitochondrial Function in the Remnant Kidney and Protects against Renal Fibrosis in 5/6 Nephrectomized Rats. Frontiers in pharmacology, 8545. https://doi.org/10.3389/fphar.2017.00545
Sun, Li, et al. "Pioglitazone Improves Mitochondrial Function in the Remnant Kidney and Protects against Renal Fibrosis in 5/6 Nephrectomized Rats." Frontiers in pharmacology vol. 8 (2017): 545. doi: https://doi.org/10.3389/fphar.2017.00545
Sun L, Yuan Q, Xu T, Yao L, Feng J, Ma J, Wang L, Lu C, Wang D. Pioglitazone Improves Mitochondrial Function in the Remnant Kidney and Protects against Renal Fibrosis in 5/6 Nephrectomized Rats. Front Pharmacol. 2017 Aug 15;8:545. doi: 10.3389/fphar.2017.00545. eCollection 2017. PMID: 28860994; PMCID: PMC5559534.
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Showing 1 to 12 of 1969 entries