2,748 research outputs found
Prediction of the functional class of metal-binding proteins from sequence derived physicochemical properties by support vector machine approach
Metal-binding proteins play important roles in structural stability, signaling, regulation, transport, immune response, metabolism control, and metal homeostasis. Because of their functional and sequence diversity, it is desirable to explore additional methods for predicting metal-binding proteins irrespective of sequence similarity. This work explores support vector machines (SVM) as such a method. SVM prediction systems were developed by using 53,333 metal-binding and 147,347 non-metal-binding proteins, and evaluated by an independent set of 31,448 metal-binding and 79,051 non-metal-binding proteins. The computed prediction accuracy is 86.3%, 81.6%, 83.5%, 94.0%, 81.2%, 85.4%, 77.6%, 90.4%, 90.9%, 74.9% and 78.1% for calcium-binding, cobalt-binding, copper-binding, iron-binding, magnesium-binding, manganese-binding, nickel-binding, potassium-binding, sodium-binding, zinc-binding, and all metal-binding proteins respectively. The accuracy for the non-member proteins of each class is 88.2%, 99.9%, 98.1%, 91.4%, 87.9%, 94.5%, 99.2%, 99.9%, 99.9%, 98.0%, and 88.0% respectively. Comparable accuracies were obtained by using a different SVM kernel function. Our method predicts 67% of the 87 metal-binding proteins non-homologous to any protein in the Swissprot database and 85.3% of the 333 proteins of known metal-binding domains as metal-binding. These suggest the usefulness of SVM for facilitating the prediction of metal-binding proteins. Our software can be accessed at the SVMProt server
Miniature fiber-tip photoacoustic spectrometer for trace gas detection
Author name used in this publication: Hoi Lut Ho2012-2013 > Academic research: refereed > Publication in refereed journalVersion of RecordPublishe
Gas detection with micro and nano-engineered optical fibers
Author name used in this publication: W. JinAuthor name used in this publication: H. L. HoAuthor name used in this publication: Y. C. CaoInvited conference paper2011-2012 > Academic research: not refereed > Invited conference paperVersion of RecordPublishe
Self-Organized Ni Nanocrystal Embedded in BaTiO3 Epitaxial Film
Ni nanocrystals (NCs) were embedded in BaTiO3 epitaxial films using the laser molecular beam epitaxy. The processes involving the self-organization of Ni NCs and the epitaxial growth of BaTiO3 were discussed. With the in situ monitoring of reflection high-energy electron diffraction, the nanocomposite films were engineered controllably by the fine alternation of the self-organization of Ni NCs and the epitaxial growth of BaTiO3. The transmission electron microscopy and the X-ray diffraction characterization confirmed that the composite film consists of the Ni NCs layers alternating with the (001)/(100)-oriented epitaxial BaTiO3 separation layers
On Feedback Vertex Set: New Measure and New Structures
We present a new parameterized algorithm for the {feedback vertex set}
problem ({\sc fvs}) on undirected graphs. We approach the problem by
considering a variation of it, the {disjoint feedback vertex set} problem ({\sc
disjoint-fvs}), which finds a feedback vertex set of size that has no
overlap with a given feedback vertex set of the graph . We develop an
improved kernelization algorithm for {\sc disjoint-fvs} and show that {\sc
disjoint-fvs} can be solved in polynomial time when all vertices in have degrees upper bounded by three. We then propose a new
branch-and-search process on {\sc disjoint-fvs}, and introduce a new
branch-and-search measure. The process effectively reduces a given graph to a
graph on which {\sc disjoint-fvs} becomes polynomial-time solvable, and the new
measure more accurately evaluates the efficiency of the process. These
algorithmic and combinatorial studies enable us to develop an
-time parameterized algorithm for the general {\sc fvs} problem,
improving all previous algorithms for the problem.Comment: Final version, to appear in Algorithmic
A fMRI Study of Correlation Between Acupoints and Brain Cortical Sites Involved in Language Functions
published_or_final_versio
30 inch Roll-Based Production of High-Quality Graphene Films for Flexible Transparent Electrodes
We report that 30-inch scale multiple roll-to-roll transfer and wet chemical
doping considerably enhance the electrical properties of the graphene films
grown on roll-type Cu substrates by chemical vapor deposition. The resulting
graphene films shows a sheet resistance as low as ~30 Ohm/sq at ~90 %
transparency which is superior to commercial transparent electrodes such as
indium tin oxides (ITO). The monolayer of graphene shows sheet resistances as
low as ~125 Ohm/sq with 97.4% optical transmittance and half-integer quantum
Hall effect, indicating the high-quality of these graphene films. As a
practical application, we also fabricated a touch screen panel device based on
the graphene transparent electrodes, showing extraordinary mechanical and
electrical performances
Control and Characterization of Individual Grains and Grain Boundaries in Graphene Grown by Chemical Vapor Deposition
The strong interest in graphene has motivated the scalable production of high
quality graphene and graphene devices. Since large-scale graphene films
synthesized to date are typically polycrystalline, it is important to
characterize and control grain boundaries, generally believed to degrade
graphene quality. Here we study single-crystal graphene grains synthesized by
ambient CVD on polycrystalline Cu, and show how individual boundaries between
coalescing grains affect graphene's electronic properties. The graphene grains
show no definite epitaxial relationship with the Cu substrate, and can cross Cu
grain boundaries. The edges of these grains are found to be predominantly
parallel to zigzag directions. We show that grain boundaries give a significant
Raman "D" peak, impede electrical transport, and induce prominent weak
localization indicative of intervalley scattering in graphene. Finally, we
demonstrate an approach using pre-patterned growth seeds to control graphene
nucleation, opening a route towards scalable fabrication of single-crystal
graphene devices without grain boundaries.Comment: New version with additional data. Accepted by Nature Material
Filmless versus film-based systems in radiographic examination costs: an activity-based costing method
Background: Since the shift from a radiographic film-based system to that of a filmless system, the change in radiographic examination costs and costs structure have been undetermined. The activity-based costing (ABC) method measures the cost and performance of activities, resources, and cost objects. The purpose of this study is to identify the cost structure of a radiographic examination comparing a filmless system to that of a film-based system using the ABC method. Methods: We calculated the costs of radiographic examinations for both a filmless and a film-based system, and assessed the costs or cost components by simulating radiographic examinations in a health clinic. The cost objects of the radiographic examinations included lumbar (six views), knee (three views), wrist (two views), and other. Indirect costs were allocated to cost objects using the ABC method. Results: The costs of a radiographic examination using a filmless system are as follows: lumbar 2,085 yen; knee 1,599 yen; wrist 1,165 yen; and other 1,641 yen. The costs for a film-based system are: lumbar 3,407 yen; knee 2,257 yen; wrist 1,602 yen; and other 2,521 yen. The primary activities were "calling patient," "explanation of scan," " take photographs," and "aftercare" for both filmless and film-based systems. The cost of these activities cost represented 36.0% of the total cost for a filmless system and 23.6% of a film-based system. Conclusions: The costs of radiographic examinations using a filmless system and a film-based system were calculated using the ABC method. Our results provide clear evidence that the filmless system is more effective than the film-based system in providing greater value services directly to patients
- …