Due to the importance of protein phosphorylation in cellular control, many researches are undertaken to predict the kinase-specific phosphorylation sites. Referred to our previous work, KinasePhos 1.0, incorporated profile hidden Markov model (HMM) with flanking residues of the kinase-specific phosphorylation sites. Herein, a new web server, KinasePhos 2.0, incorporates support vector machines (SVM) with the protein sequence profile and protein coupling pattern, which is a novel feature used for identifying phosphorylation sites. The coupling pattern [XdZ] denotes the amino acid coupling-pattern of amino acid types X and Z that are separated by d amino acids. The differences or quotients of coupling strength CXdZ between the positive set of phosphorylation sites and the background set of whole protein sequences from Swiss-Prot are computed to determine the number of coupling patterns for training SVM models. After the evaluation based on k-fold cross-validation and Jackknife cross-validation, the average predictive accuracy of phosphorylated serine, threonine, tyrosine and histidine are 90, 93, 88 and 93%, respectively. KinasePhos 2.0 performs better than other tools previously developed. The proposed web server is freely available at http://KinasePhos2.mbc.nctu.edu.tw/.

Confining photons in a finite volume is in high demand in modern photonic devices. This motivated decades ago the invention of photonic crystals, featured with a photonic bandgap forbidding light propagation in all directions 1-3 . Recently, inspired by the discoveries of topological insulators (TIs) 4,5 , the confinement of photons with topological protection has been demonstrated in two-dimensional (2D) photonic structures known as photonic TIs 6-8 , with promising applications in topological lasers 9,10 and robust optical delay lines 11 . However, a fully three-dimensional (3D) topological photonic bandgap has never before been achieved. Here, we experimentally demonstrate a 3D photonic TI with an extremely wide (> 25% bandwidth) 3D topological bandgap. The sample consists of split-ring resonators (SRRs) with strong magneto-electric coupling and behaves as a "weak TI", or a stack of 2D quantum spin Hall insulators. Using direct field measurements, we map out both the gapped bulk bandstructure and the Dirac-like dispersion of the photonic surface states, and demonstrate robust photonic propagation along a non-planar surface. Our work extends the family of 3D TIs from fermions to bosons and paves the way for applications in topological photonic cavities, circuits, and lasers in 3D geometries.

We propose a single low-profile skin metasurface carpet cloak to hide objects with arbitrary shape and size under three different waves, i.e., electromagnetic (EM) waves, acoustic waves and water waves. We first present a metasurface which can control the local reflection phase of these three waves. By taking advantage of this metasurface, we then design a metasurface carpet cloak which provides an additional phase to compensate the phase distortion introduced by a bump, thus restoring the reflection waves as if the incident waves impinge onto a flat mirror. The finite element simulation results demonstrate that an object can be hidden under these three kinds of waves with a single metasurface cloak.

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