| 1. |
- Birney, Ewan, et al.
(författare)
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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
- 2007
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 447:7146, s. 799-816
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Tidskriftsartikel (refereegranskat)abstract
- We report the generation and analysis of functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project. These data have been further integrated and augmented by a number of evolutionary and computational analyses. Together, our results advance the collective knowledge about human genome function in several major areas. First, our studies provide convincing evidence that the genome is pervasively transcribed, such that the majority of its bases can be found in primary transcripts, including non-protein-coding transcripts, and those that extensively overlap one another. Second, systematic examination of transcriptional regulation has yielded new understanding about transcription start sites, including their relationship to specific regulatory sequences and features of chromatin accessibility and histone modification. Third, a more sophisticated view of chromatin structure has emerged, including its inter-relationship with DNA replication and transcriptional regulation. Finally, integration of these new sources of information, in particular with respect to mammalian evolution based on inter- and intra-species sequence comparisons, has yielded new mechanistic and evolutionary insights concerning the functional landscape of the human genome. Together, these studies are defining a path for pursuit of a more comprehensive characterization of human genome function.
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| 2. |
- Ostrander, E. A., et al.
(författare)
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Dog10K : An international sequencing effort to advance studies of canine domestication, phenotypes and health
- 2019
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Ingår i: National Science Review. - : Oxford University Press (OUP). - 2095-5138 .- 2053-714X. ; 6:4, s. 810-824
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Tidskriftsartikel (refereegranskat)abstract
- Dogs are the most phenotypically diverse mammalian species, and they possess more known heritable disorders than any other non-human mammal. Efforts to catalog and characterize genetic variation across well-chosen populations of canines are necessary to advance our understanding of their evolutionary history and genetic architecture. To date, no organized effort has been undertaken to sequence the world's canid populations. The Dog10K Consortium (http://www.dog10kgenomes.org) is an international collaboration of researchers from across the globe who will generate 20× whole genomes from 10 000 canids in 5 years. This effort will capture the genetic diversity that underlies the phenotypic and geographical variability of modern canids worldwide. Breeds, village dogs, niche populations and extended pedigrees are currently being sequenced, and de novo assemblies of multiple canids are being constructed. This unprecedented dataset will address the genetic underpinnings of domestication, breed formation, aging, behavior and morphological variation. More generally, this effort will advance our understanding of human and canine health.
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| 3. |
- Berggren, Elin, et al.
(författare)
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Charge Transfer in the P(g42T-T) : BBL Organic Polymer Heterojunction Measured with Core-Hole Clock Spectroscopy
- 2023
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Ingår i: The Journal of Physical Chemistry C. - : American Chemical Society (ACS). - 1932-7447 .- 1932-7455. ; 127:49, s. 23733-23742
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Tidskriftsartikel (refereegranskat)abstract
- The conductivity of organic polymer heterojunction devices relies on the electron dynamics occurring along interfaces between the acceptor and donor moieties. To investigate these dynamics with chemical specificity, spectroscopic techniques are employed to obtain localized snapshots of the electron behavior at selected interfaces. In this study, charge transfer in blends (by weight 10, 50, 90, and 100%) of p-type polymer P(g(4)2T-T) (bithiophene-thiophene) and n-type polymer BBL (poly(benzimidazo-benzo-phenanthroline)) was measured by resonant Auger spectroscopy. Electron spectra emanating from the decay of core-excited states created upon X-ray absorption in the donor polymer P(g(4)2T-T) were measured in the sulfur KL2,3L2,3 Auger kinetic energy region as a function of the excitation energy. By tuning the photon energy across the sulfur K-absorption edge, it is possible to differentiate between decay paths in which the core-excited electron remained on the atom with the core-hole and those where it tunneled away. Analyzing the competing decay modes of these localized and delocalized (charge-transfer) processes facilitated the computation of charge-transfer times as a function of excitation energy using the core-hole clock method. The electron delocalization times derived from the measurements were found to be in the as/fs regime for all polymer blends, with the fastest charge transfer occurring in the sample with an equal amount of donor and acceptor polymer. These findings highlight the significance of core-hole clock spectroscopy as a chemically specific tool for examining the local charge tunneling propensity, which is fundamental to understanding macroscopic conductivity. Additionally, the X-ray absorption spectra near the sulfur K-edge in the P(g(4)2T-T) polymer for different polymer blends were analyzed to compare molecular structure, orientation, and ordering in the polymer heterojunctions. The 50% donor sample exhibited the most pronounced angular dependence of absorption, indicating a higher level of ordering compared to the other weight blends. Our studies on the electron dynamics of this type of all-polymer donor-acceptor systems, in which spontaneous ground-state electron transfer occurs, provide us with critical insights to further advance the next generation of organic conductors with mixed electron-hole conduction characteristics suitable for highly stable electrodes of relevance for electronic, electrochemical, and optoelectronic applications.
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| 4. |
- Cappel, Ute B., et al.
(författare)
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Electronic Structure Characterization of Cross-Linked Sulfur Polymers
- 2018
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Ingår i: ChemPhysChem. - : WILEY-V C H VERLAG GMBH. - 1439-4235 .- 1439-7641. ; 19:9, s. 1041-1047
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Tidskriftsartikel (refereegranskat)abstract
- Cross-linked polymers of elemental sulfur are of potential interest for electronic applications as they enable facile thin-film processing of an abundant and inexpensive starting material. Here, we characterize the electronic structure of a cross-linked sulfur/diisopropenyl benzene (DIB) polymer by a combination of soft and hard X-ray photoelectron spectroscopy (SOXPES and HAXPES). Two different approaches for enhancing the conductivity of the polymer are compared: the addition of selenium in the polymer synthesis and the addition of lithium bis(trifluoromethanesulfonyl)imide (LiTFSI) during film preparation. For the former, we observe the incorporation of Se into the polymer structure resulting in a changed valence-band structure. For the latter, a Fermi level shift in agreement with p-type doping of the polymer is observed and also the formation of a surface layer consisting mostly of TFSI anions.
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| 5. |
- Cappel, Ute B, et al.
(författare)
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Partially Reversible Photoinduced Chemical Changes in a Mixed-Ion Perovskite Material for Solar Cells.
- 2017
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Ingår i: ACS Applied Materials and Interfaces. - : American Chemical Society (ACS). - 1944-8244 .- 1944-8252. ; 9:40, s. 34970-34978
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Tidskriftsartikel (refereegranskat)abstract
- ) with the element specificity and chemical sensitivity of core-level photoelectron spectroscopy. By carrying out measurements at a synchrotron beamline optimized for low X-ray fluxes, we are able to avoid sample changes due to X-ray illumination and are therefore able to monitor what sample changes are induced by visible illumination only. We find that laser illumination causes partially reversible chemistry in the surface region, including enrichment of bromide at the surface, which could be related to a phase separation into bromide- and iodide-rich phases. We also observe a partially reversible formation of metallic lead in the perovskite structure. These processes occur on the time scale of minutes during illumination. The presented methodology has a large potential for understanding light-induced chemistry in photoactive materials and could specifically be extended to systematically study the impact of morphology and composition on the photostability of metal halide perovskites.
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| 6. |
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| 7. |
- Couto, Rafael Carvalho, et al.
(författare)
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Breaking inversion symmetry by protonation : Experimental and theoretical NEXAFS study of the diazynium ion, N2H
- 2021
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Ingår i: Physical Chemistry, Chemical Physics - PCCP. - : Royal Society of Chemistry (RSC). - 1463-9076 .- 1463-9084. ; 23:32, s. 17166-17176
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Tidskriftsartikel (refereegranskat)abstract
- As an example of symmetry breaking in NEXAFS spectra of protonated species we present a high resolution NEXAFS spectrum of protonated dinitrogen, the diazynium ion N2H+. By ab initio calculations we show that the spectrum consists of a superposition of two nitrogen 1s absorption spectra, each including a π∗ band, and a nitrogen 1s to H+ charge transfer band followed by a weak irregular progression of high energy excitations. Calculations also show that, as an effect of symmetry breaking by protonation, the π∗ transitions are separated by 0.23 eV, only slightly exceeding the difference in the corresponding dark (symmetry forbidden) and bright (symmetry allowed) core excitations of neutral N2. By DFT and calculations and vibrational analysis, the complex π∗ excitation band of N2H+ is understood as due to the superposition of the significantly different vibrational progressions of excitations from terminal and central nitrogen atoms, both leading to bent final state geometries. We also show computationally that the electronic structure of the charge transfer excitation smoothly depends on the nitrogen-proton distance and that there is a clear extension of the spectra going from infinity to close nitrogen-proton distance where fine structures show some, although not fully detailed, similarities. An interesting feature of partial localization of the nitrogen core orbitals, with a strong, non-monotonous, variation with nitrogen-proton distance could be highlighted. Specific effects could be unraveled when comparing molecular cation NEXAFS spectra, as represented by recently recorded spectra of N2+ and CO+, and spectra of protonated molecules as represented here by the N2H+ ion. Both types containing rich physical effects not represented in NEXAFS of neutral molecules because of the positive charge, whereas protonation also breaks the symmetry. The effect of the protonation on dinitrogen can be separated in charge, which extends the high-energy part of the spectrum, and symmetry-breaking, which is most clearly seen in the low-energy π∗ transition.
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| 8. |
- Giangrisostomi, Erika, et al.
(författare)
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Low Dose Photoelectron Spectroscopy at BESSY II : Electronic structure of matter in its native state
- 2018
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Ingår i: Journal of Electron Spectroscopy and Related Phenomena. - : Elsevier. - 0368-2048 .- 1873-2526. ; 224:SI, s. 68-78
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Tidskriftsartikel (refereegranskat)abstract
- The implementation of a high-transmission, angular-resolved time-of-Right electron spectrometer with a 1.25 MHz pulse selector at the PM4 soft X-ray dipole beamline of the synchrotron BESSY II creates unique capabilities to inquire electronic structure via photoelectron spectroscopy with a minimum of radiation dose. Solid-state samples can be prepared and characterized with standard UHV techniques and rapidly transferred from various preparation chambers to a 4-axis temperature-controlled measurement stage. A synchronized MHz laser system enables excited-state characterization and dynamical studies starting from the picosecond timescale. This article introduces the principal characteristics of the PM4 beamline and LowDosePES end-station. Recent results from graphene, an organic hole transport material for solar cells and the transition metal dichalcogenide MoS2 are presented to demonstrate the instrument performances. (C) 2017 The Authors. Published by Elsevier B.V.
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| 9. |
- JERRESTAM, D, et al.
(författare)
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COLLECTIVE EXCITATIONS IN CD-106
- 1994
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Ingår i: Nuclear Physics A. - : Elsevier BV. - 0375-9474 .- 1873-1554. ; 571:2, s. 393-412
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Tidskriftsartikel (refereegranskat)abstract
- High Spin states in 106Cd were populated by the reactions Zr-94(O-17, 5n) and Ge(S-32, 4n) at 80 MeV and at 148 MeV, respectively. The gamma-decay was studied by gamma-spectroscopic methods using the Nordball multi-detector army. Protons and alpha-particles were detected in particle detector system, thus selecting the neutron channel. The experiment included gamma-ray yields, gammagamma-coincidences and gamma-ray angular relation measurements. Collective bands extending up to spin 26+, 20- and 21-, have been observed in 106Cd. A new lifetime Of 11(-3)+6 ns for the 16+ state at 7118.7 keV has been found. Both total Routhian surfaces and spin diabatic surfaces have been calculated and used for assigning quasiparticle configurations to the bands. The (+, 0) band is assigned as a nuh11/2(2) configuration below I = 16+ and at higher spins suggested to be built on a pig9/2(2)nuh11/2(2) configuration. The large hindrance observed for the decay from the 16+ state supports the latter assignment. With the alignment of the nuh11/12(2) pair the deformation is predicted to change from (epsilon2,gamma) = (0.13,-2-degrees) to (0.17, 4-degrees). The configuration of the negative parity bands is assigned as either a nuh11/2(1)d5/2(1) or a nuh11/2(1)(g7/2xd5/2)1, With (epsilon2, gamma) = (0.14,9-degrees.
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| 10. |
- Johansson, Fredrik, et al.
(författare)
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Femtosecond and Attosecond Electron-Transfer Dynamics in PCPDTBT:PCBM Bulk Heterojunctions
- 2018
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Ingår i: The Journal of Physical Chemistry C. - : AMER CHEMICAL SOC. - 1932-7447 .- 1932-7455. ; 122:24, s. 12605-12614
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Tidskriftsartikel (refereegranskat)abstract
- Charge separation efficiency is a crucial parameter for photovoltaic devices-polymers consisting of alternating electron-rich and electron-deficient parts can achieve high such efficiencies, for instance, together with a fullerene electron acceptor. This offers a viable path toward solar cells with organic bulk heterojunctions. Here, we measured the charge-transfer times in the femtosecond and attosecond regimes via the decay of sulfur is X-ray core excited states (with the core-hole clock method) in blends of a low-band gap polymer {PCPDTBT [poly[2,6-(4,4-bis (2-ethylhexyl)-4H-cyclopenta [2,1-b;3,4-1/1 dithiophene)-alt-4,7- (2,1,3-benzothiadiazole)]]} consisting of a cyclopentadithiophene electron-rich part and a benzothiadiazole electron-deficient part. The constituting parts of the bulk heterojunction were varied by adding the fullerene derivative PCBM ([6,6]-phenyl-C-61-butyric acid methyl ester) (weight ratio of polymer/PCBM as 1:0, 1:1, 1:2, and 1:3). For low-energy excitations, the charge-transfer time varies to the largest extent for the thiophene donor part. The charge-transfer time in the 1:2 blend is reduced by 86% compared to that of pristine PCPDTBT. At higher energy excitations, the charge-transfer time does not vary with the chemical environment, as this regime is dominated by intramolecular conduction that yields ultrafast charge-transfer times for all blends, approaching 170 as. We thus demonstrate that the core-hole clock method applied to a series with changing composition can give information about local electron dynamics (with chemical specificity) at interfaces between the constituting parts the crucial part of a bulk heterojunction where the initial charge separation occurs.
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