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Wang, Y.*; Jia, G.*; Cui, X.*; Zhao, X.*; Zhang, Q.*; Gu, L.*; Zheng, L.*; Li, L. H.*; Wu, Q.*; Singh, D. J.*; et al.
Chem, 7(2), p.436 - 449, 2021/02
Times Cited Count：361 Percentile：99.74(Chemistry, Multidisciplinary)Schuemann, J.*; McNamara, A. L.*; Warmenhoven, J. W.*; Henthorn, N. T.*; Kirkby, K.*; Merchant, M. J.*; Ingram, S.*; Paganetti, H.*; Held, K. D.*; Ramos-Mendez, J.*; et al.
Radiation Research, 191(1), p.76 - 93, 2019/01
Times Cited Count：69 Percentile：94.98(Biology)We propose a new Standard DNA Damage (SDD) data format to unify the interface between the simulation of damage induction in DNA and the biological modelling of DNA repair processes, and introduce the effect of the environment (molecular oxygen or other compounds) as a flexible parameter. Such a standard greatly facilitates inter-model comparisons, providing an ideal environment to tease out model assumptions and identify persistent, underlying mechanisms. Through inter-model comparisons, this unified standard has the potential to greatly advance our understanding of the underlying mechanisms of radiation-induced DNA damage and the resulting observable biological effects when radiation parameters and/or environmental conditions change.
collisions at 
= 200 GeVAdare, A.*; Afanasiev, S.*; Aidala, C.*; Ajitanand, N. N.*; Akiba, Y.*; Al-Bataineh, H.*; Alexander, J.*; Aoki, K.*; Aphecetche, L.*; Armendariz, R.*; et al.
Physical Review D, 84(1), p.012006_1 - 012006_18, 2011/07
Times Cited Count：35 Percentile：75.47(Astronomy & Astrophysics)We report on the event structure and double helicity asymmetry (
) of jet production in longitudinally polarized collisions at = 200 GeV. Photons and charged particles were measured by the PHENIX experiment. Event structure was compared with the results from PYTHIA event generator. The production rate of reconstructed jets is satisfactorily reproduced with the next-to-leading-order perturbative QCD calculation. We measured = -0.0014 
0.0037 at the lowest 
bin and -0.0181 0.0282 at the highest bin. The measured is compared with the predictions that assume various 
distributions.
collisions at = 200 and 62.4 GeVAdare, A.*; Afanasiev, S.*; Aidala, C.*; Ajitanand, N. N.*; Akiba, Yasuyuki*; Al-Bataineh, H.*; Alexander, J.*; Aoki, Kazuya*; Aphecetche, L.*; Armendariz, R.*; et al.
Physical Review C, 83(6), p.064903_1 - 064903_29, 2011/06
Times Cited Count：199 Percentile：99.34(Physics, Nuclear)Transverse momentum distributions and yields for 
, and 
in collisions at = 200 and 62.4 GeV at midrapidity are measured by the PHENIX experiment at the RHIC. We present the inverse slope parameter, mean transverse momentum, and yield per unit rapidity at each energy, and compare them to other measurements at different collisions. We also present the scaling properties such as 
and 
scaling and discuss the mechanism of the particle production in collisions. The measured spectra are compared to next-to-leading order perturbative QCD calculations.
Ikeda, Makoto; Munakata, Masahiro; Sakai, Ryutaro; Kimura, Hideo; Jia, H.*; Matsuba, Hisashi*
Nihon Chikasui Gakkai 2011-Nen Shunki Koenkai Koen Yoshi, p.86 - 91, 2011/05
no abstracts in English
and Au+Au collisions at 
= 200 GeVAdare, A.*; Afanasiev, S.*; Aidala, C.*; Ajitanand, N. N.*; Akiba, Yasuyuki*; Al-Bataineh, H.*; Alexander, J.*; Aoki, Kazuya*; Aphecetche, L.*; Aramaki, Y.*; et al.
Physical Review C, 83(4), p.044912_1 - 044912_16, 2011/04
Times Cited Count：10 Percentile：50.28(Physics, Nuclear)Measurements of electrons from the decay of open-heavy-flavor mesons have shown that the yields are suppressed in Au+Au collisions compared to expectations from binary-scaled collisions. Here we extend these studies to two particle correlations where one particle is an electron from the decay of a heavy flavor meson and the other is a charged hadron from either the decay of the heavy meson or from jet fragmentation. These measurements provide more detailed information about the interaction between heavy quarks and the quark-gluon matter. We find the away-side-jet shape and yield to be modified in Au+Au collisions compared to collisions.
+ collisions at = 200 GeV and scaling properties of hadron productionAdare, A.*; Afanasiev, S.*; Aidala, C.*; Ajitanand, N. N.*; Akiba, Y.*; Al-Bataineh, H.*; Alexander, J.*; Aoki, K.*; Aphecetche, L.*; Armendariz, R.*; et al.
Physical Review D, 83(5), p.052004_1 - 052004_26, 2011/03
Times Cited Count：189 Percentile：98.28(Astronomy & Astrophysics)The PHENIX experiment at RHIC has measured the invariant differential cross section for production of 
, 
, 
and 
mesons in collisions at = 200 GeV. The spectral shapes of all hadron transverse momentum distributions are well described by a Tsallis distribution functional form with only two parameters, 
and 
, determining the high 
and characterizing the low regions for the spectra, respectively. The integrated invariant cross sections calculated from the fitted distributions are found to be consistent with existing measurements and with statistical model predictions.
Yamasaki, Chisato*; Murakami, Katsuhiko*; Fujii, Yasuyuki*; Sato, Yoshiharu*; Harada, Erimi*; Takeda, Junichi*; Taniya, Takayuki*; Sakate, Ryuichi*; Kikugawa, Shingo*; Shimada, Makoto*; et al.
Nucleic Acids Research, 36(Database), p.D793 - D799, 2008/01
Times Cited Count：53 Percentile：70.16(Biochemistry & Molecular Biology)Here we report the new features and improvements in our latest release of the H-Invitational Database, a comprehensive annotation resource for human genes and transcripts. H-InvDB, originally developed as an integrated database of the human transcriptome based on extensive annotation of large sets of fulllength cDNA (FLcDNA) clones, now provides annotation for 120 558 human mRNAs extracted from the International Nucleotide Sequence Databases (INSD), in addition to 54 978 human FLcDNAs, in the latest release H-InvDB. We mapped those human transcripts onto the human genome sequences (NCBI build 36.1) and determined 34 699 human gene clusters, which could define 34 057 protein-coding and 642 non-protein-coding loci; 858 transcribed loci overlapped with predicted pseudogenes.
Nishiyama, Nariaki; Kawamura, Makoto; Komatsu, Tetsuya; Jia, H.*; Koizumi, Yukiko*; Kabasawa, Satsuki; Nakanishi, Toshimichi*; Umeda, Koji*
no journal, ,
no abstracts in English
Kawamura, Makoto; Nishiyama, Nariaki; Komatsu, Tetsuya; Jia, H.*; Koizumi, Yukiko*; Kabasawa, Satsuki; Nakanishi, Toshimichi*; Umeda, Koji*
no journal, ,
In geological disposal projects and safety regulations for HLW, one of the challenges in surveying and evaluating technology related to uplift and erosion, which is important in site selection and safety assessment of geological disposal, is that in the distant future, topography mainly due to river undercuts will occur. It is necessary to be able to quantitatively evaluate the changes and effects that these changes have on the underground geological environment. Among the geological environmental conditions, changes in groundwater recharge areas and outflow areas are important when building performance evaluation models because they can change the flow direction of surface water infiltration into the ground or groundwater outflow to the surface. The most reliable way to evaluate recharge and discharge areas is to use actual measured data on precipitation and river flow. However, when dealing with past or future topography, or hypothetical topography generated by simulations of topographical change, actual measurements are not possible, and so technology is required to indirectly estimate the area from topographical information. As one of the research technologies, a method has been developed to measure topographical features using a digital elevation model, calculate runoff volume using statistical analysis techniques, and visualize it as an index. In previous studies, we also attempted to apply this method to three rivers which have different drainage basin areas and uplift rates, and were able to present, to a certain extent quantitatively, results that are consistent with the general understanding that areas where high-altitude divided drainage basins are concentrated are high, meaning that surface water tends to flow more easily. Here, following previous studies, we report an example of applying the same method to a virtual topography created by simulating topographical change, and comparing and examining it with an actual river.
Nishiyama, Nariaki; Kawamura, Makoto*; Kato, Yuri; Koizumi, Yukiko*; Jia, H.*; Nakanishi, Toshimichi*
no journal, ,
There is a close relationship between topography and the flow of rivers and groundwater, so there is a way to predict future water flow patterns by using the characteristics of rivers and groundwater to interpret the formation of the topography. To improve the practicality of this method, we need to increase the number of cases where we verify whether it matches the actual flow of water. The Abe River basin in Shizuoka Prefecture is well suited to this verification, as there are many periods in which river flow data has been measured without any missing data. In this presentation, we will report on the results of the verification conducted for the Abe River basin.
Kawamura, Makoto; Jia, H.*; Koizumi, Yukiko*; Niwa, Masakazu; Umeda, Koji*
no journal, ,
One of the issues related to volcanic and igneous activities in the safety assessment of geological disposal of HLW is the sophistication of technology for grasping the range of influence of magma. To address this issue, it is necessary to accumulate data, especially when the dike extends over a radius of 15 km from the center of the Quaternary volcano. However, it is practically difficult to grasp the distribution of the conduits underlying the existing volcanic bodies and the dikes derived from them. In field geological surveys, small outcrops with intrusive dikes may be found even in places away from Quaternary volcanoes. Whether such dikes are associated with nearby Quaternary volcanoes is important in assessing the extent of the dikes. We extracted "dike" from the geological map width published by the AIST, and tried to evaluate its relevance to the surrounding Quaternary volcanoes. As a preliminary study, we used Daisen, a Quaternary volcano in the Chugoku region. The distribution of dikes is digitally traced, GIS data is created and organized on a white map, and then "position (latitude / longitude)", "size (major axis / minor axis, etc.)", "era", "rock type", "dike intrusion stratum name, era" and "nearest volcano name, distance from crater" were extracted. As a result, 151 volcanic dykes were extracted. The dikes associated with Quaternary volcanoes are limited to new Daisen volcanic ejecta (parasitic volcanoes), and their distribution is also limited to the Daisen volcano. All dikes located far from the volcano are determined to have been formed before the Neogene. Some of them are lava, but some are deep-seated rocks such as dolerite and diorite. A relatively large number of pre-Neogene dikes show a lenticular distribution morphology, and the dikes of acid rocks are the main constituents. This suggests that dikes formed deeper than the Quaternary became visible on the surface due to denudation.
Kawamura, Makoto; Jia, H.*; Koizumi, Yukiko*; Nishiyama, Nariaki; Umeda, Koji*
no journal, ,
Using topographical analysis with GIS using 10 m DEM, we created 2 km river crossing lines on each side of the three rivers, Abegawa, Oigawa and Kumanogawa, starting from the estuary and going straight to the course of the river every 3 km. In addition, the geological information of the river transverse line was extracted. When the cross-sectional lines of the three rivers are displayed together, it can be seen that the river bed rises and the undulations increase as it goes upstream. A comparison of the cross-sectional shapes of the three rivers reveals similar trends, with peaks of undulations on both sides of the rivers in the middle to upper reaches located approximately 500-1,500 m from the center of the river. The relative height between bed and peak also tends to be around 200-600 m. The difference in elevation between the peaks on both sides of the river and the river bed increased in the upstream direction, that is, the depth of the valley to the river bed increased in the upstream direction. When the riverbed slope of the river longitudinal created from the riverbed elevation was taken, an inflection points where the slope trend rose from the upstream area was seen in all three rivers regardless of the geology and geological structure. Although the trend of elevation of the riverbed and increase in undulations from the relatively flat landform near the mouth of the river upstream is pseudo, it suggests a temporal process of landform formation due to uplift and denudation from the flat lowland. This will be information that contributes to verification of the validity of future predictions and performance evaluation models that incorporate topographical changes, such as topographical change simulations.
Kawamura, Makoto; Nishiyama, Nariaki; Jia, H.*; Ishikawa, Taiki*; Koizumi, Yukiko*
no journal, ,
Among the natural phenomena that may have a significant impact on a geological disposal system, it is necessary to model the extent of impacts related to the loss of containment function, such as fracture zones and damage zones around faults, when new faults occur or geological faults are reactivated, in relation to earthquakes and fault activity. When a fault is formed, complex situations are expected in which the fault becomes a new migration path for groundwater, and it is thought that the amount of displacement and the properties of the fault surface are not homogeneous even on the same fault. However, in the models used in the safety assessment studies to date, the amount of displacement of a fault and the properties of the fault surface have been treated as homogeneous, and a model that reflects this heterogeneity has not yet been presented. In the field of geological engineering, technology has been established to grasp the development of rock fractures based on microearthquakes, and it is believed that the area where aftershocks, including microearthquakes, occur after an earthquake suggests the extent of the damage zone. In addition, the fault model of the "Analysis results of earthquake source process, etc." published by the JMA may be a useful reference for estimating the amount of fault displacement and the properties of the fault plane. Therefore, we conducted a trial effort to collect and organize data on earthquakes and faults, with the aim of reflecting this in the evaluation model. As a result, we were able to express the range and shape of the aftershock area according to the scale of fault activity as 3D information, which can be used as a reference when modeling. In addition, although it is not directly related to the heterogeneity of physical properties such as permeability of the fault plane, we were able to collect and organize information that can be used as a reference.
Kawamura, Makoto*; Nishiyama, Nariaki; Jia, H.*; Ishikawa, Taiki*; Koizumi, Yukiko*
no journal, ,
In site selection and safety assessment for geological disposal, dikes observed in the field are important targets for evaluating the extent of the influence of volcanic and igneous activity. Dikes have often been shown on geological maps in previous studies, so it may be possible to understand their distribution to some extent. We extracted "dikes" from the geological maps on a GIS and attempted to organize them by geological era. In this presentation, we will report on the status of data collection and preparation. The data will not only provide basic information for evaluating the relationship with Quaternary volcanoes, but is also expected to be academically useful, such as for understanding volcanic activity that occurred before the Quaternary Period.
Kawamura, Makoto*; Nishiyama, Nariaki; Jia, H.*; Ishikawa, Taiki*; Koizumi, Yukiko*
no journal, ,
One of the challenges in the investigation and evaluation technology for the safety assessment of geological disposal of high-level radioactive waste is the quantitative evaluation of the changes and their impacts on future surface topography and underground geological environment caused by river incision due to uplift and denudation. Changes in the surface topography due to river incision will affect groundwater flow and will also require consideration of the location of the disposal site near the surface. Such studies require information on the cross-sectional shape of rivers, but there is little reference information available compared to the longitudinal sections of rivers, which are often the subject of research. Therefore, we have been collecting cross-sectional shape data, mainly of rivers, by performing topographical analysis using GIS with the 10m DEM. When comparing actual rivers, there was no significant difference in the relative height difference due to differences in the main geology of the riverbed, and a tendency was observed to depend on the uplift rate. When comparing the virtual and real rivers, although there is a difference in resolution between the virtual and real rivers, the data on peak relative height shows a tendency for it to increase with the uplift rate, which is not inconsistent with the trend of the real rivers. However, a tendency for the relative height to be smaller than that of the actual terrain was observed, and a gap was also confirmed between the virtual terrain and the actual terrain.
Kawamura, Makoto*; Nishiyama, Nariaki; Jia, H.*; Ishikawa, Taiki*; Koizumi, Yukiko*; Nakanishi, Toshimichi*
no journal, ,
The formation of the landforms includes the formation of mountains due to uplift caused by crustal movement, such as the Southern Alps, and the erosion of the land by rivers such as the Oi River and Abe River. To scientifically evaluate these interactions, elevation data was collected from cross sections of 13 rivers in Japan, set at equal intervals perpendicular to the flow direction from the river mouth to the upstream. In addition, by calculating the elevation difference of each river, with the center of the river being set at 0 m, we systematically organized the average elevation difference of each cross section and compared the average slope shape. As a result, a correlation was found between the average slope shape and the uplift rate.
Kawamura, Makoto*; Nishiyama, Nariaki; Jia, H.*; Koizumi, Yukiko*; Ishikawa, Taiki*; Umeda, Koji*
no journal, ,
As part of its research and development into geological disposal technology for high-level radioactive waste, the Toki Geochronological Institute is conducting fundamental research into the long-term stability of the geological environment. In developing uplift and erosion survey and evaluation techniques, the research and development is focused on the development of uplift and erosion evaluation methods using thermochronology and geothermobarometry, the advancement of uplift and erosion rate estimation techniques based on multi-dating of emergent landforms, and the advancement of topographic analysis and comprehensive survey techniques to be reflected in modeling of long-term changes in the geological environment. This report will introduce the current status of the advancement of topographic analysis and comprehensive survey techniques to be reflected in modeling of long-term changes in the geological environment as an example.
Koizumi, Yukiko*; Jia, H.*; Kawamura, Makoto*; Nishiyama, Nariaki; Ishikawa, Taiki*
no journal, ,
In site selection and safety assessment for geological disposal, dikes observed in the field provide important information for assessing the extent of the impact of volcanic and igneous activity. Dikes have often been shown on geological maps in previous studies, and their distribution may be understood to some extent through preliminary surveys. However, systematic collection and organization of information on the location and properties of igneous dikes has not been attempted. Therefore, we first extracted "dikes" from the nationwide 1:200,000 geological maps on a GIS and attempted to organize them by geological period. Here, we report the results of our collection of information on igneous dikes and ancient calderas/cauldrons in southwestern Japan, covering the Chubu to Kyushu regions of Hokuriku, Chubu, and Kinki, Chugoku, Shikoku, and Kyushu.
Kawamura, Makoto*; Nishiyama, Nariaki; Jia, H.*; Koizumi, Yukiko*; Ishikawa, Taiki*
no journal, ,
In site selection and safety assessment for geological disposal, dikes observed in the field provide important information for assessing the extent of the impact of volcanic and igneous activity. Dikes have often been identified on geological maps in previous studies, and their distribution may be understood to some extent through preliminary surveys. However, systematic collection and organization of information on the location and properties of igneous dikes has not been conducted. We extracted "dikes" from nationwide geological maps (1:200,000) on a GIS and collected and organized information on 1,665 igneous dikes and 36 ancient caldera cauldrons in southwestern Japan, from the Chubu region to Kyushu. Here, we report the results of a preliminary analysis using the organized data to examine the size of dikes and ancient caldera cauldrons, the relationship between Quaternary volcanoes or ancient caldera cauldrons and nearby igneous dikes, and the distribution of contemporaneous and similar igneous dikes.
