| 1. |
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| 2. |
- Weinstein, John N., et al.
(författare)
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The cancer genome atlas pan-cancer analysis project
- 2013
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Ingår i: Nature Genetics. - : Springer Science and Business Media LLC. - 1546-1718 .- 1061-4036. ; 45:10, s. 1113-1120
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Tidskriftsartikel (refereegranskat)abstract
- The Cancer Genome Atlas (TCGA) Research Network has profiled and analyzed large numbers of human tumors to discover molecular aberrations at the DNA, RNA, protein and epigenetic levels. The resulting rich data provide a major opportunity to develop an integrated picture of commonalities, differences and emergent themes across tumor lineages. The Pan-Cancer initiative compares the first 12 tumor types profiled by TCGA. Analysis of the molecular aberrations and their functional roles across tumor types will teach us how to extend therapies effective in one cancer type to others with a similar genomic profile. © 2013 Nature America, Inc. All rights reserved.
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| 3. |
- Lee, Hyun-Seob, et al.
(författare)
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Foxa2 and Nurr1 Synergistically Yield A9 Nigral Dopamine Neurons Exhibiting Improved Differentiation, Function, and Cell Survival
- 2010
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Ingår i: Stem Cells. - : Oxford University Press (OUP). - 1549-4918 .- 1066-5099. ; 28:3, s. 501-512
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Tidskriftsartikel (refereegranskat)abstract
- Effective dopamine (DA) neuron differentiation from neural precursor cells (NPCs) is prerequisite for precursor/stem cell-based therapy of Parkinson's disease (PD). Nurr1, an orphan nuclear receptor, has been reported as a transcription factor that can drive DA neuron differentiation from non-dopaminergic NPCs in vitro. However, Nurr1 alone neither induces full neuronal maturation nor expression of proteins found specifically in midbrain DA neurons. In addition, Nurr1 expression is inefficient in inducing DA phenotype expression in NPCs derived from certain species such as mouse and human. We show here that Foxa2, a forkhead transcription factor whose role in midbrain DA neuron development was recently revealed, synergistically cooperates with Nurr1 to induce DA phenotype acquisition, midbrain-specific gene expression, and neuronal maturation. Thus, the combinatorial expression of Nurr1 and Foxa2 in NPCs efficiently yielded fully differentiated nigral (A9)-type midbrain neurons with clearly detectable DA neuronal activities. The effects of Foxa2 in DA neuron generation were observed regardless of the brain regions or species from which NPCs were derived. Furthermore, DA neurons generated by ectopic Foxa2 expression were more resistant to toxins. Importantly, Foxa2 expression resulted in a rapid cell cycle exit and reduced cell proliferation. Consistently, transplantation of NPCs transduced with Nurr1 and Foxa2 generated grafts enriched with midbrain-type DA neurons but reduced number of proliferating cells, and significantly reversed motor deficits in a rat PD model. Our findings can be applied to ongoing attempts to develop an efficient and safe precursor/stem cell-based therapy for PD. STEM CELLS 2010; 28: 501-512
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| 4. |
- Yoo, Taekyeong, et al.
(författare)
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Disease-specific eQTL screening reveals an anti-fibrotic effect of AGXT2 in non-alcoholic fatty liver disease.
- 2021
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Ingår i: Journal of hepatology. - : Elsevier BV. - 1600-0641 .- 0168-8278. ; 75:3, s. 514-523
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Tidskriftsartikel (refereegranskat)abstract
- Nonalcoholic fatty liver disease (NAFLD) poses an impending clinical burden. Genome-wide association studies have revealed a limited contribution of genomic variants to the disease, requiring alternative but robust approaches to identify disease-associated variants and genes. We carried out a disease-specific expression quantitative trait loci (eQTL) screen to identify novel genetic factors that specifically act on NAFLD progression on the basis of genotype.We recruited 125 Korean biopsy-proven NAFLD patients and healthy individuals and performed eQTL analyses using 21,272 transcripts and 3,234,941 genotyped and imputed SNPs. We then selected eQTLs that were detected only in the NAFLD group, but not in the control group (i.e., NAFLD-eQTLs). An additional cohort of 162 Korean NAFLD individuals was used for replication. The function of the selected eQTL toward NAFLD development was validated using HepG2, primary hepatocytes and NAFLD mouse models.The NAFLD-specific eQTL screening yielded 242 loci. Among them, AGXT2, encoding alanine-glyoxylate aminotransferase 2, displayed decreased expression in NAFLD patients homozygous for the non-reference allele of rs2291702, compared to no-NAFLD subjects with the same genotype (P = 4.79 × 10-6). This change was replicated in an additional 162 individuals, yielding a combined P-value of 8.05 × 10-8 from a total of 245 NAFLD patients and 48 controls. Knockdown of AGXT2 induced palmitate-overloaded hepatocyte death by increasing ER stress, and exacerbated NAFLD diet-induced liver fibrosis in mice. However, overexpression of AGXT2 reversely attenuated liver fibrosis and steatosis as well.We implicate a new molecular role of AGXT2 in NAFLD. Our overall approach will serve as an efficient tool for uncovering novel genetic factors that contribute to liver steatosis and fibrosis in patients with NAFLD.Elucidating causal genes for NAFLD has been challenging due to limited tissue availability and the polygenic nature of the disease. Using liver and blood samples from 125 biopsy-proven NAFLD and no-NAFLD Korean individuals and an additional 162 individuals for replication, we devised a new analytic method to identify causal genes. Among the candidates, we found that AGXT2-rs2291702 protects against liver fibrosis in a genotype-dependent manner with the potential for therapeutic interventions. Our approach enables the discovery of NAFLD causal genes that act on the basis of genotype.
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| 5. |
- Jeon, So-hyoun, et al.
(författare)
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Selective control of wetting on various substrates
- 2014
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Ingår i: Materials research bulletin. - : Elsevier Ltd. - 0025-5408 .- 1873-4227. ; 58, s. 32-34
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Tidskriftsartikel (refereegranskat)abstract
- Selective control of wetting is highly demanded for a broad window of applications. To selectively control wetting a surface should be locally modified by structuring surfaces or modulating surface chemistry. However, the local modifications are still challenging due to their complex and expensive processes. In this report we demonstrate the development of a facile approach for selective control of wetting on various substrates. Taking superhydrophobic polypropylene particles and hydrophilic silica nanoparticles, we here show that the locally controlled wetting can be achieved by coating the particles on a wide range of substrates including metal and paper and be applied to microfluidic channels. Furthermore, we represent that the coating method can be applied to any surfaces regardless of compositions and geometries.
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| 6. |
- Gabrielsson, Erik, et al.
(författare)
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Autonomous Microcapillary Drug Delivery System Self-Powered by a Flexible Energy Harvester
- 2021
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Ingår i: Advanced Materials Technologies. - : Wiley-Blackwell. - 2365-709X. ; 6:11
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Tidskriftsartikel (refereegranskat)abstract
- Implantable bioelectronic devices pave the way for novel biomedical applications operating at high spatiotemporal resolution, which is crucial for neural recording and stimulation, drug delivery, and brain-machine interfaces. Before successful long-term implantation and clinical applications, these devices face a number of challenges, such as mechanical and operational stability, biocompatibility, miniaturization, and powering. To address two of these crucial challenges-miniaturization and powering-the development and characterization of an electrophoretic drug delivery device, manufactured inside fused quartz fibers (outer diameter of 125 mu m), which is self-powered by a flexible piezoelectric energy harvester, are reported. The resulting device-the first integration of piezoelectric charging with "iontronic" delivery-exhibits a high delivery efficiency (number of neurotransmitters delivered per charges applied) and a direct correlation between the piezoelectric charging and the amount delivered (number of dynamic bends versus pmols delivered).
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| 7. |
- Jung, Chang Hoon, et al.
(författare)
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The seasonal characteristics of cloud condensation nuclei (CCN) in the arctic lower troposphere
- 2018
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Ingår i: Tellus. Series B, Chemical and physical meteorology. - : Stockholm University Press. - 0280-6509 .- 1600-0889. ; 70:1, s. 1-13
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Tidskriftsartikel (refereegranskat)abstract
- Cloud Condensation Nuclei (CCN) concentration and aerosol size distributions in the Arctic were collected during the period 2007-2013 at the Zeppelin observatory (78.91 degrees N, 11.89 degrees E, 474 masl). Annual median CCN concentration at a supersaturation (SS) of 0.4% show the ranges of 45 approximate to 81cm(-3). The monthly median CCN number density varied between 17cm(-3) in October 2007 and 198cm(-3) in March, 2008. The CCN spectra parameters C (83cm(-3)) and k (0.23) were derived. In addition, calculated annual median value of hygroscopicity parameter is 0.46 at SS of 0.4%. Particle number concentration of accumulation mode from aerosol size distribution measurements are well correlated with CCN concentration. The CCN to CN>10 nm (particle number concentration larger than 10nm in diameter) ratio shows a maximum during March and minimum during July. The springtime high CCN concentration is attributed to high load of accumulation mode aerosol transported from the mid-latitudes, known as Arctic Haze. CCN concentration remains high also during Arctic summer due to the source of new CCN through particle formation followed by consecutive aerosol growth. Lowest aerosol as well as CCN number densities were observed during Arctic autumn and early winter when aerosol formation in the Arctic and long-range transport into the Arctic are not effective.
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| 8. |
- Lee, Jung Hoon, et al.
(författare)
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An assessment of density functionals for predicting CO 2 adsorption in diamine-functionalized metal-organic frameworks
- 2022
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Ingår i: Journal of Chemical Physics. - : AIP Publishing. - 1089-7690 .- 0021-9606. ; 156:15, s. 154113-
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Tidskriftsartikel (refereegranskat)abstract
- Diamine-functionalized M2(dobpdc) (M = Mg, Mn, Fe, Co, Zn) metal-organic frameworks (MOFs) are among a growing class of crystalline solids currently being intensively investigated for carbon capture as they exhibit a novel cooperative and selective CO2 adsorption mechanism and a step-shaped isotherm. To understand their CO2 adsorption behavior, ab initio calculations with near-chemical accuracy (∼6 kJ/mol, an average experimental error) are required. Here, we present density functional theory (DFT) calculations of CO2 adsorption in m-2-m-Zn2(dobpdc) (m-2-m = N,N'-dimethylethyle-nediamine and dobpdc4- = 4,4'-dioxidobiphenyl-3,3'-dicarboxylate) with different exchange-correlation functionals, including semilocal functionals [Perdew-Burke-Ernzerhof (PBE) and two revised PBE functionals], semiempirical pairwise corrections (D3 and Tkatchenko-Scheffler), nonlocal van der Waals (vdW) correlation functionals-vdW-optB88 (or vdW-DF-optB88), vdW-DF1, vdW-DF2, vdW-DF2-B86R (or rev-vdW-DF2), vdW-DF-cx (and vdW-DF-cx0), and revised VV10-and the strongly constrained and appropriately normed (SCAN) meta-generalized gradient approximation (GGA). Overall, we find that revPBE+D3 and RPBE+D3 show the best balance of performance for both the lattice parameters and the CO2 binding enthalpy of m-2-m-Zn2(dobpdc). revPBE+D3 and RPBE+D3 predict the m-2-m-Zn2(dobpdc) lattice parameters to within 1.4% of experiment and predict CO2 binding enthalpies of -68 kJ/mol, which compare reasonably well with the experiment (-57 kJ/mol). Although PBE (-57.7 kJ/mol), vdW-DF1 (-49.6 kJ/mol), and vdW-DF2 (-44.3 kJ/mol) are also found to predict the CO2 binding enthalpy with good accuracy, they overestimate lattice parameters and bond lengths. The other functionals considered predict the lattice parameters with the same accuracy as revPBE+D3 and RPBE+D3, but they overbind CO2 by around 26-50 kJ/mol. We find that the superior performance of revPBE+D3 and RPBE+D3 is sustained for the formation enthalpy and the lattice parameters of ammonium carbamate, a primary product of the cooperative CO2 insertion in diamine-functionalized M2(dobpdc) MOFs. Moreover, we find that their performance is derived from their larger repulsive exchange contributions to the CO2 binding enthalpy than the other functionals at the relevant range of the reduced density gradient value for the energetics of CO2 adsorption in the m-2-m-Zn2(dobpdc) MOF. A broader examination of the performance of RPBE+D3 for the structural parameters and CO2 binding enthalpies of 13 diamine-functionalized Mg2(dobpdc) MOFs further demonstrates that RPBE+D3 successfully reproduces experimental CO2 binding enthalpies and reveals a logarithmic relationship between the step pressure and the CO2 binding enthalpy of the diamine-functionalized Mg2(dobpdc) MOFs, consistent with experiments where available. The results of our benchmarking study can help guide the further development of versatile vdW-corrected DFT methods with predictive accuracy.
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| 9. |
- Shukla, Vivekanand, 1988, et al.
(författare)
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Accurate Nonempirical Range-Separated Hybrid van der Waals Density Functional for Complex Molecular Problems, Solids, and Surfaces
- 2022
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Ingår i: Physical Review X. - 2160-3308. ; 12:4
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Tidskriftsartikel (refereegranskat)abstract
- We introduce a new, general-purpose, range-separated hybrid van der Waals density functional termed vdW-DF2-ahbr within the nonempirical vdW-DF method [Hyldgaard, et al. J. Phys. Condens. Matter 32, 393001 (2020)]. It combines a correlation from vdW-DF2 with a screened Fock exchange that is fixed by a new model of exchange effects in the density-explicit vdW-DF-b86r or rev-vdW-DF2 functional [Hamada, Phys. Rev. B 89, 121103(R) (2014)]. The new vdW-DF2-ahbr prevents spurious exchange binding and has a small-density-gradient form set from many-body perturbation analysis. It is accurate for bulk as well as layered materials, and it systematically and significantly improves the performance of the present vdW-DFs for molecular problems. Importantly, vdW-DF2-ahbr also outperforms present-standard (dispersion-corrected) range-separated hybrids on a broad collection of noncovalent-interaction benchmark sets, while at the same time successfully mitigating the density-driven errors that often affect the description of molecular transition states and isomerization calculations. vdW-DF2-ahbr furthermore improves on state-of-the-art density-functional-theory approaches by succeeding at challenging problems. For example, it (1) correctly predicts both the substrate structure and the site preference for CO adsorption on Pt(111), (2) it outperforms existing nonempirical vdW-DFs for the description of CO2 adsorption in both a functionalized and in a simple metal-organic framework, and (3) it is highly accurate for the set of base-pair interactions in a model of DNA assembly.
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| 10. |
- Yu, Jung-Hoon, et al.
(författare)
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Structuring Poly(3,4-ethylenedioxythiophene) : Poly(styrenesulfonate) Towards Enhancing Hole Collection Efficiency
- 2014
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Ingår i: Journal of Nanoscience and Nanotechnology. - : American Scientific Publishers. - 1533-4880 .- 1533-4899. ; 14:12, s. 9489-9492
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Tidskriftsartikel (refereegranskat)abstract
- To date, organic photovoltaic devices (OPVs) have obtained relatively low power conversion efficiency, mostly because of the low charge carrier mobility of the polymers to be used. This limits the optimal film thickness for efficient absorption of the solar spectrum. The capability of efficient charge carrier collections is a main factor for utilizing thick OPVs, consequently enhancing the power conversion efficiency. In this report, we demonstrate a facile approach for enhancing the hole carrier collection by possibly shortening the hole collection path via structuring poly(3,4-ethylenedioxythiophene):poly(styrenesulfonate) (PEDOT:PSS), which is widely used as a hole collecting intermediate layer in OPVs. For structuring the PEDOT:PSS, the nanosphere lithographic method was used. Furthermore, the effects of the structuring of PEDOT:PSS on optical properties were also investigated.
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