| 1. |
- Adcox, K, et al.
(author)
-
PHENIX detector overview
- 2003
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In: Nuclear Instruments & Methods in Physics Research. Section A: Accelerators, Spectrometers, Detectors, and Associated Equipment. - 0167-5087. ; 499:2-3, s. 469-479
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Journal article (peer-reviewed)abstract
- The PHENIX detector is designed to perform a broad study of A-A, p-A, and p-p collisions to investigate nuclear matter under extreme conditions. A wide variety of probes, sensitive to all timescales, are used to study systematic variations with species and energy as well as to measure the spin structure of the nucleon. Designing for the needs of the heavy-ion and polarized-proton programs has produced a detector with unparalleled capabilities. PHENIX measures electron and muon pairs, photons, and hadrons with excellent energy and momentum resolution. The detector consists of a large number of subsystems that are discussed in other papers in this volume. The overall design parameters of the detector are presented. (C) 2002 Elsevier Science B.V. All rights reserved.
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| 2. |
- Imanishi, T., et al.
(author)
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Integrative annotation of 21,037 human genes validated by full-length cDNA clones
- 2004
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In: PLoS biology. - : Public Library of Science (PLoS). - 1544-9173 .- 1545-7885. ; 2:6, s. 856-875
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Journal article (peer-reviewed)abstract
- The human genome sequence defines our inherent biological potential; the realization of the biology encoded therein requires knowledge of the function of each gene. Currently, our knowledge in this area is still limited. Several lines of investigation have been used to elucidate the structure and function of the genes in the human genome. Even so, gene prediction remains a difficult task, as the varieties of transcripts of a gene may vary to a great extent. We thus performed an exhaustive integrative characterization of 41,118 full-length cDNAs that capture the gene transcripts as complete functional cassettes, providing an unequivocal report of structural and functional diversity at the gene level. Our international collaboration has validated 21,037 human gene candidates by analysis of high-quality full-length cDNA clones through curation using unified criteria. This led to the identification of 5,155 new gene candidates. It also manifested the most reliable way to control the quality of the cDNA clones. We have developed a human gene database, called the H-Invitational Database (H-InvDB; http://www.h-invitational.jp/). It provides the following: integrative annotation of human genes, description of gene structures, details of novel alternative splicing isoforms, non-protein-coding RNAs, functional domains, subcellular localizations, metabolic pathways, predictions of protein three-dimensional structure, mapping of known single nucleotide polymorphisms (SNPs), identification of polymorphic microsatellite repeats within human genes, and comparative results with mouse full-length cDNAs. The H-InvDB analysis has shown that up to 4% of the human genome sequence (National Center for Biotechnology Information build 34 assembly) may contain misassembled or missing regions. We found that 6.5% of the human gene candidates (1,377 loci) did not have a good protein-coding open reading frame, of which 296 loci are strong candidates for non-protein-coding RNA genes. In addition, among 72,027 uniquely mapped SNPs and insertions/deletions localized within human genes, 13,215 nonsynonymous SNPs, 315 nonsense SNPs, and 452 indels occurred in coding regions. Together with 25 polymorphic microsatellite repeats present in coding regions, they may alter protein structure, causing phenotypic effects or resulting in disease. The H-InvDB platform represents a substantial contribution to resources needed for the exploration of human biology and pathology.
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| 3. |
- Adler, SS, et al.
(author)
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PHENIX on-line systems
- 2003
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In: Nuclear Instruments & Methods in Physics Research. Section A: Accelerators, Spectrometers, Detectors, and Associated Equipment. - 0167-5087. ; 499:2-3, s. 560-592
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Journal article (peer-reviewed)abstract
- The PHENIX On-Line system takes signals from the Front End Modules (FEM) on each detector subsystem for the purpose of generating events for physics analysis. Processing of event data begins when the Data Collection Modules (DCM) receive data via fiber-optic links from the FEMs. The DCMs format and zero suppress the data and generate data packets. These packets go to the Event Builders (EvB) that assemble the events in final form. The Level-1 trigger (LVL1) generates a decision for each beam crossing and eliminates uninteresting events. The FEMs carry out all detector processing of the data so that it is delivered to the DCMs using a standard format. The FEMs also provide buffering for LVL1 trigger processing and DCM data collection. This is carried out using an architecture that is pipelined and deadtimeless. All of this is controlled by the Master Timing System (MTS) that distributes the RHIC clocks. A Level-2 trigger (LVL2) gives additional discrimination. A description of the components and operation of the PHENIX On-Line system is given and the solution to a number of electronic infrastructure problems are discussed. (C) 2002 Elsevier Science B.V. All rights reserved.
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| 4. |
- Pfohl, J., et al.
(author)
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Highly deformed rotational structures in 136Pm
- 2000
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In: Physical Review C - Nuclear Physics. - 0556-2813. ; 62:3, s. 313041-313045
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Journal article (peer-reviewed)abstract
- Four highly deformed structures in the odd-odd nucleus 13661Pm75 were observed via the 105Pd(35Cl,2p2n) reaction at 180 and 173 MeV using the GAMMASPHERE γ-ray spectrometer and the Microball charged-particle detector array. Quadrupole moment measurements were performed on all of the bands. In contrast to lighter odd-Ζ Pm and Pr nuclei, bands based on the g9/2[404]9/2 proton orbital were not observed. Instead, the four observed sequences are assigned as a coupling of an i13/2 neutron with the low-Ω h11/2 and mixed d5/2g7/2 orbitals. Comparisons with neighboring highly deformed structures are discussed and cranked Nilsson-Strutinsky calculations for 136Pm are presented.
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| 5. |
- Joss, D. T., et al.
(author)
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Recoil decay tagging of gamma rays in the extremely neutron-deficient nucleus Os-162
- 2004
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In: Physical Review C. Nuclear Physics. - : American Physical Society. - 0556-2813 .- 1089-490X. ; 70:1
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Journal article (peer-reviewed)abstract
- The neutron-deficient nucleus Os-162, produced in the Cd-106(Ni-58,2n) reaction, has been studied using the JUROGAM gamma-ray spectrometer in conjunction with the RITU gas-filled separator and the GREAT focal plane spectrometer. gamma-ray transitions in Os-162 have been assigned for the first time through the application of the recoil decay tagging technique. The excitation energy of the 2(+) state and the tentative energy of the 8(+) state are discussed in terms of the systematic energy trends as the N=82 shell gap is approached.
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| 6. |
- Bruce, A. M., et al.
(author)
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Two-neutron alignment and shape changes in As-69
- 2000
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In: Physical Review C. Nuclear Physics. - 0556-2813 .- 1089-490X. ; 6202:2
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Journal article (peer-reviewed)abstract
- The nucleus As-69 was Studied using the Ca-40(S-32,3p)As-69 reaction at a beam energy of 105 MeV. An extension of the band built on the g(9/2) orbital was observed to exhibit a band crossing at a rotational frequency of 0.511 MeV with an associated alignment of 7 (h) over bar. This alignment is interpreted as being due to a pair of g(9/2) neutrons. Total Routhian surface calculations have been carried out which confirm that the shape of this nucleus changes from oblate at low spin to a triaxial prolate shape at intermediate spin.
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| 7. |
- Joss, D. T., et al.
(author)
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Identification of excited states in Os-167 and Os-168 : shape coexistence at extreme neutron deficiency
- 2001
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In: Nuclear Physics A. - : Elsevier. - 0375-9474 .- 1873-1554. ; 689:04-mar, s. 631-654
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Journal article (peer-reviewed)abstract
- Excited states in the very neutron-deficient isotopes Os-167 and Os-168 have been observed using the reaction Sn-112(Ni-58, 2pxn). The JUROSPHERE gamma -ray spectrometer array was used in conjunction with the RITU gas-filled recoil separator to collect prompt gamma radiation in coincidence with recoils implanted in a silicon strip detector located at the focal plane of RITU. Using a selective recoil decay tagging technique it has been possible to unambiguously assign gamma -ray transitions to Os-167 and Os-168 through the characteristic a radioactivity of these nuclides. The high-spin structure of the bands is discussed in terms of quasiparticle configurations within the framework of the cranked shell model. The role of shape coexistence in Os-168 is examined with phenomenological three-band mixing calculations.
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| 8. |
- Joss, D. T., et al.
(author)
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Strongly coupled bands in the neutron-deficient nucleus Re-167
- 2003
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In: Physical Review C. Nuclear Physics. - : American Physical Society. - 0556-2813 .- 1089-490X. ; 68:1
-
Journal article (peer-reviewed)abstract
- Excited states in the neutron-deficient nucleus Re-167 have been observed in a recoil-tagging experiment performed with the Jurosphere gamma-ray spectrometer in conjunction with the RITU gas-filled recoil separator. The low-spin yrast band, based on a proton h(11/2) orbital, comprises a strongly coupled band and exhibits significant signature splitting, indicative of a triaxial shape with gamma<0degrees. At higher spin the rotational alignment of a pair of i(13/2) neutrons induces a transition to an axial prolate shape resulting in a drastic reduction of the signature splitting. Two other strongly coupled bands have been established and their structures are discussed in terms of quasiparticle configurations.
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| 9. |
- Joss, D. T., et al.
(author)
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Yrast spectroscopy in the neutron-deficient nucleus Os-169
- 2002
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In: Physical Review C. Nuclear Physics. - : American Physical Society. - 0556-2813 .- 1089-490X. ; 66:5
-
Journal article (peer-reviewed)abstract
- Excited states in the neutron-deficient isotope Os-169 have been identified for the first time in an experiment using the Jurosphere gamma-ray spectrometer in conjunction with the Ritu gas-filled recoil separator. The problems associated with identifying neutron-deficient isotopes produced with low fusion cross sections against a high background of competing channels, including fission, have been overcome by using the recoil-decay tagging technique. The band structures observed in Os-169 are interpreted in the context of the systematics of neighboring nuclei and the predictions of cranked Woods-Saxon calculations. The systematics of the second (i(13/2))(2) neutron alignment in this region are discussed.
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| 10. |
- Simpson, P. J., et al.
(author)
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Observation of fluorine-vacancy complexes in silicon
- 2004
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In: Applied Physics Letters. - : AIP Publishing. - 0003-6951 .- 1077-3118. ; 85:9, s. 1538-
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Journal article (peer-reviewed)abstract
- We show direct evidence, obtained by positron annihilation spectroscopy, for the complexing of fluorine with vacancies in silicon. Both float zone and Czochralski silicon wafers were implanted with 30 keV fluorine ions to a fluence of 2×1014 ions/cm2, and studied in the as-implanted condition, and after annealing to 650 °C for 10 and for 30 min. The "2-detector" background reduction technique for positron annihilation was applied. The spectra reveal a significant concentration of fluorine-vacancy complexes after annealing, for both Czochralski and float zone material, supporting the results of computer simulations of the implantation and annealing process.
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| 11. |
- Abi-Dargham, A, et al.
(author)
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Measurement of striatal and extrastriatal dopamine D1 receptor binding potential with [11C]NNC 112 in humans: validation and reproducibility
- 2000
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In: Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism. - : SAGE Publications. - 0271-678X. ; 20:2, s. 225-243
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Journal article (peer-reviewed)abstract
- To evaluate the postulated role of extrastriatal D1 receptors in human cognition and psychopathology requires an accurate and reliable method for quantification of these receptors in the living human brain. [11C]NNC 112 is a promising novel radiotracer for positron emission tomography imaging of the D1 receptor. The goal of this study was to develop and evaluate methods to derive D1 receptor parameters in striatal and extrastriatal regions of the human brain with [11C]NNC 112. Six healthy volunteers were studied twice. Two methods of analysis (kinetic and graphical) were applied to 12 regions (neocortical, limbic, and subcortical regions) to derive four outcome measures: total distribution volume, distribution volume ratio, binding potential (BP), and specific-to-nonspecific equilibrium partition coefficient ( k3/ k4). Both kinetic and graphic analyses provided BP and k3/ k4 values in good agreement with the known distribution of D1 receptors (striatum > limbic regions = neocortical regions > thalamus). The identifiability of outcome measures derived by kinetic analysis was excellent. Time-stability analysis indicated that 90 minutes of data collection generated stable outcome measures. Derivation of BP and k3/ k4 by kinetic analysis was highly reliable, with intraclass correlation coefficients (ICCs) of 0.90 ± 0.06 (mean ± SD of 12 regions) and 0.84 ± 0.11, respectively. The reliability of these parameters derived by graphical analysis was lower, with ICCs of 0.72 ± 0.17 and 0.58 ± 0.21, respectively. Noise analysis revealed a noise-dependent bias in the graphical but not the kinetic analysis. In conclusion, kinetic analysis of [11C]NNC 112 uptake provides an appropriate method with which to derive D1 receptor parameters in regions with both high (striatal) and low (extrastriatal) D1 receptor density.
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| 12. |
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| 13. |
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| 14. |
- Friedlein, Rainer, et al.
(author)
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Electronic structure of highly ordered films of self-assembled graphitic nanocolumns
- 2003
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In: Physical Review B. Condensed Matter and Materials Physics. - 1098-0121 .- 1550-235X. ; 68:19, s. 195414-
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Journal article (peer-reviewed)abstract
- Highly ordered, several nanometers thick films of alkylated large planar, polycyclic aromatic hydrocarbon (PAH) molecules have been grown on semi-metallic molybdenum disulfide substrates. The films are characterized by a two-dimensional lateral arrangement of columns standing at the surface on a macroscopic scale. The self-assembly of such insulated columns of face-to-face disks with surface-induced vertical alignment has been achieved directly from solution processing. Angle-resolved photoelectron spectra revealed a highly anisotropic quasi-one-dimensional electronic structure with an extended π-electronic wave function. An intermolecular dispersion of the highest occupied band of at least 0.15 eV along the stacking direction has been measured. A partial breakdown of the concept of quasimomentum due to the finite size of the nano-objects perpendicular to the stacks is observed.
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| 15. |
- Friedlein, Rainer, et al.
(author)
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Surface-induced vertical alignment of self-assembled supramolecular columns of large polycyclic aromatic hydrocarbons and porphyrins
- 2004
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In: Synthetic metals. - : Elsevier BV. - 0379-6779 .- 1879-3290. ; 147:01-Mar, s. 79-83
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Journal article (peer-reviewed)abstract
- Ordered films of polycyclic aromatic hydrocarbons (PAHs) and porphyrins with functional (e.g. thiophene) side-groups are good candidates for (opto-)electronic applications where fast charge separation and transport are required. Such highly ordered thin films of PAHs, including discotic hexa-peri-hexabenzocoronene (HBC) and C-132-C-16,C-4, as well as brominated functionalized porphyrin molecules have been grown from solutions on semi-metallic molybdenum disulfide substrates and characterized by angle-resolved valence band photoelectron spectroscopy. A vertical growth of self-assembled supramolecular columns perpendicular to the basal plane of the substrate along with their lateral ordering on the surface has been achieved. Annealing made it possible to increase the structural order in the HBC columns, with molecules positioned at a regular offset from the columnar axis. This permitted the formation of extended pi-electronic states with a bandwidth of at least 0.1-0.2 eV at room temperature. (C) 2004 Elsevier B.V. All rights reserved.
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| 16. |
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| 17. |
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| 18. |
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| 19. |
- Simpson, J., et al.
(author)
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Discrete line γ-ray spectroscopy in the (50-60)ℏ spin domain of 161,162Er
- 2000
-
In: Physical Review C - Nuclear Physics. - 0556-2813. ; 62:2, s. 243211-243218
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Journal article (peer-reviewed)abstract
- Very high spin states (I=50-60ℏ) have been observed in the transitional nuclei 161Er and 162Er using the Euroball γ-ray spectrometer. In 161Er, three bands are observed well above spin 50ℏ. In the positive parity, positive signature (+, + 1/2) band a discontinuity in the regular rotational behavior occurs at 109/2+ and a splitting into two branches occurs at 97/2- in the negative parity, positive signature (-, + 1/2) band. The ( -, - 1/2) band continues in a regular fashion to 115/2-, tentatively (119/2-). In 162Er the positive parity, even spin (+, 0) yrast band is observed to continue smoothly up to 58+ (60+) and the negative parity, even spin (-,0) and odd spin (-,1) bands are extended from 30- to 34- and from 31- to 47- (49-), respectively. The high spin experimental spectra are compared with both a simple model involving the occupation of specific single neutron states in the absence of neutron pair correlations and with more detailed cranked Nilsson-Strutinsky calculations in which both proton and neutron pairing correlations are neglected. The very high spin domain is found to comprise a series of unpaired rotational bands. Unpaired band crossings between bands with different neutron and proton configurations are identified in 161Er. There is no evidence for aligned oblate or terminating states being close to the yrast line in 161,162Er up to spin ≈60ℏ in contrast to the lighter Er isotopes.
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| 20. |
- Squitieri, Ferdinando, et al.
(author)
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Homozygosity for CAG mutation in Huntington disease is associated with a more severe clinical course.
- 2003
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In: Brain. - : Oxford University Press (OUP). - 0006-8950 .- 1460-2156. ; 126:Pt 4, s. 946-55
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Journal article (peer-reviewed)abstract
- Huntington disease is caused by a dominantly transmitted CAG repeat expansion mutation that is believed to confer a toxic gain of function on the mutant protein. Huntington disease patients with two mutant alleles are very rare. In other poly(CAG) diseases such as the dominant ataxias, inheritance of two mutant alleles causes a phenotype more severe than in heterozygotes. In this multicentre study, we sought differences in the disease features between eight homozygotes and 75 heterozygotes for the Huntington disease mutation. We identified subjects homozygous for the Huntington disease mutation by DNA testing and compared their clinical features (age at onset, symptom presentation, disease severity and disease progression) with those of a group of heterozygotes, who were assessed longitudinally. The age at onset of symptoms in the homozygote cases was within the range expected for heterozygotes with the same CAG repeat lengths, whereas homozygotes had a more severe clinical course. The observation of a more rapid decline in motor, cognitive and behavioural symptoms in homozygotes was consistent with the extent of neurodegeneration as available at imaging in three patients, and at the post-mortem neuropathological report in one case. Our analysis suggests that although homozygosity for the Huntington disease mutation does not lower the age at onset of symptoms, it affects the phenotype and the rate of disease progression. These data, once confirmed in a larger series of patients, point to the possibility that the mechanisms underlying age at onset and disease progression in Huntington disease may differ.
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| 21. |
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| 22. |
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| 23. |
- Wilson, C F, et al.
(author)
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Nanoengineered structures for holding and manipulating liposomes and cells
- 2001
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In: Analytical Chemistry. - Stanford Univ, Dept Chem, Stanford, CA 94305 USA. Univ Gothenburg, Dept Chem, SE-41296 Gothenburg, Sweden. : AMER CHEMICAL SOC. - 0003-2700 .- 1520-6882. ; 73:4, s. 787-791
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Journal article (peer-reviewed)abstract
- We describe the fabrication of nanoengineered holding pipets with concave seating surfaces and fine pressure control. These pipets were shown to exhibit exceptional stability in capturing, transporting, and releasing single cells and liposomes 1-12 mum in diameter, which opens previously inaccessible avenues of research. Three specific examples demonstrated the, utility and versatility of this manipulation system. In the first, carboxyrhodaminie was selectively incorporated into individual cells by electroporation, after which nearly all the medium (hundreds of microliters) surrounding the docked and tagged cells was rapidly exchanged (in seconds) and the cells were subsequently probed by laser-induced fluorescence (LIF). In the second study, a single liposome containing carboxyrhodamine was transported to a dye-free solution using a transfer pipet, docked to a holding pipet, and held firmly during physical agitation and interrogation by LIF. In the third study, pairs of liposomes were positioned between two microelectrodes, held in contact, and selectively electrofused and the resulting liposomes undocked intact.
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