Clocking the buildup dynamics of light-induced states through attosecond transient absorption spectrum

The buildup processes of the light-induced states (LISs) in attosecond transient absorption spectroscopy are studied by solving the time-dependent Schrödinger equation and compared with the quasistatic Floquet theory, revealing a time lag of the maximal shift and strongest absorbance of the LIS with respect to the zero delay that is referred to as the buildup time. We analytically derive a scaling law for the buildup time that confirms the numerical results over a wide range of detunings. Our theory verifies the commonly accepted scenario of nearly instantaneous response of matter to light if the pump field is blue-detuned, but some differences are found in the near-resonant and red-detuning cases. Implications of the buildup time in petahertz optoelectronics are discussed.

Insights into the mechanisms of LOV domain color tuning from a set of high-resolution X-ray structures

Light-oxygen-voltage (LOV) domains are widespread photosensory modules that can be used in fluorescence microscopy, optogenetics and controlled production of reactive oxygen species. All of the currently known LOV domains have absorption maxima in the range of ∼440 to ∼450 nm, and it is not clear whether they can be shifted significantly using mutations. Here, we have generated a panel of LOV domain variants by mutating the key chromophore-proximal glutamine amino acid of a thermostable flavin based fluorescent protein CagFbFP (Gln148) to asparagine, aspartate, glutamate, histidine, lysine and arginine. Absorption spectra of all of the mutants are blue-shifted, with the maximal shift of 8 nm observed for the Q148H variant. While CagFbFP and its Q148N/D/E variants are not sensitive to pH, Q148H/K/R reveal a moderate red shift induced by acidic pH. To gain further insight, we determined high resolution crystal structures of all of the mutants studied at the resolutions from 1.07 Å for Q148D to 1.63 Å for Q148R. Whereas in some of the variants, the amino acid 148 remains in the vicinity of the flavin, in Q148K, Q148R and partially Q148D, the C-terminus of the protein unlatches and the side chain of the residue 148 is reoriented away from the chromophore. Our results explain the absence of color shifts from replacing Gln148 with charged amino acids and pave the way for rational design of color-shifted flavin based fluorescent proteins.

Efficient String Matching Algorithm for Searching Large DNA and Binary Texts

The exact string matching is essential in application areas such as Bioinformatics and Intrusion Detection Systems. Speeding-up the string matching algorithm will therefore result in accelerating the searching process in DNA and binary data. Previously, there are two types of fast algorithms exist, bit-parallel based algorithms and hashing algorithms. The bit-parallel based are efficient when dealing with patterns of short lengths, less than 64, but slow on long patterns. On the other hand, hashing algorithms have optimal sublinear average case on large alphabets and long patterns, but the efficiency not so good on small alphabet such as DNA and binary texts. In this paper, the authors present hybrid algorithm to overcome the shortcomings of those previous algorithms. The proposed algorithm is based on q-gram hashing with guaranteeing the maximal shift in advance. Experimental results on random and complete human genome confirm that the proposed algorithm is efficient on various pattern lengths and small alphabet.

Optimal Intervention Methods for Markovian Gene Regulatory Networks

A central problem in translational medicine is to provide a framework for deriving and studying effective intervention methods to elicit desired steady-state behavior for a gene regulatory network of interest with Markovian dynamics. Heretofore, two rather different external control approaches have been taken. The first optimizes a subjectively defined cost function while modeling treatment constraints; therefore, desirable shift of the steady-state mass is a by-product. The second approach, on the other hand, focuses solely on the steady-state behavior of the network and provides the maximal shift achievable. Although both approaches are optimal with respect to their objectives, the choice of which to use depends on the treatment goals.

IMPLEMENTASI ALGORITMA MAXIMAL SHIFT PADA APLIKASI MANFAAT TANAMAN BAGI KESEHATAN MANUSIA BERBASIS ANDROID

Before the arrival of disease, it is good for humans to prevent it, many plants grow that are beneficial to health, but so are the many diverse types of plants and their respective benefits so that it is difficult to understand which are beneficial for health which are not beneficial for health. To facilitate the search for plant health benefits for human health, it was designed using the Maximal Shift algorithm, where this algorithm as a solution in searching for plant health benefits for human health with the limited screen size of smartphones owned, string matching is needed as a process in the search. Application search for the benefits of plants for human health based on Android was designed using Eclipse Juno. In the development of this application using the Java programming language.Keywords: Maximal Shift, String Matching, Application of Plant Benefits, Based on Android

Efficient String Matching Algorithm for Searching Large DNA and Binary Texts

The exact string matching is essential in application areas such as Bioinformatics and Intrusion Detection Systems. Speeding-up the string matching algorithm will therefore result in accelerating the searching process in DNA and binary data. Previously, there are two types of fast algorithms exist, bit-parallel based algorithms and hashing algorithms. The bit-parallel based are efficient when dealing with patterns of short lengths, less than 64, but slow on long patterns. On the other hand, hashing algorithms have optimal sublinear average case on large alphabets and long patterns, but the efficiency not so good on small alphabet such as DNA and binary texts. In this paper, the authors present hybrid algorithm to overcome the shortcomings of those previous algorithms. The proposed algorithm is based on q-gram hashing with guaranteeing the maximal shift in advance. Experimental results on random and complete human genome confirm that the proposed algorithm is efficient on various pattern lengths and small alphabet.

Optimal Intervention Methods for Markovian Gene Regulatory Networks

A central problem in translational medicine is to provide a framework for deriving and studying effective intervention methods to elicit desired steady-state behavior for a gene regulatory network of interest with Markovian dynamics. Heretofore, two rather different external control approaches have been taken. The first optimizes a subjectively defined cost function while modeling treatment constraints; therefore, desirable shift of the steady-state mass is a by-product. The second approach, on the other hand, focuses solely on the steady-state behavior of the network and provides the maximal shift achievable. Although both approaches are optimal with respect to their objectives, the choice of which to use depends on the treatment goals.

Large-Scale Blasts Seismic Load on Natural and Technical Objects

Seismic safety of large-scale blasts is one of the most important geoecological aspects of open-cut mining. Seismic load of largescale blasts which defines integrity of industrial and residential objects is of special interest. The work represents evaluation of negative seismic impact of large-scale blasts at «Neryungrinskiy» open-cut on the natural and technical systems located in the blasting zone. The main characteristic of evaluated seismic load of explosion wave damaging natural and technical constructions is the maximal value of vectorial velocity of earth movement during large-scale blasts. Determination of permissible speed fluctuation included its frequency content, as waves of different frequency with equal values of drift velocity are dangerous to various extents. Peculiarities of vibrational frequency of the constructions caused by seismic load of the blasts and self-induced vibrations were taken into account while evaluating seismic load. Considering spectral content of the vibrations caused by the blasts and self-induced vibrations values of gas containers and constructions of compressor station, it’s necessary to point out that the frequencies differ for 1,5—2 times and this is the favourable factor because of impossibility of resonant phenomena occurrence. Determination of permissible velocity included swinging of the building. Swinging is understood as ratio of maximal shift of the measured at the top points of the constructions to maximal shift of the foundation ground. According to the results of direct measurement, swinging does not exceed 1,5 times that’s why it is possible to found on prevailing values of ratios, calculated by means of experimental way as statistically explained. The permissible velocity should be accepted as Uperm — 1,25 cm/s. for the objects. By “swing” we understand the correlation of maximum offset measured on top of construction to maximum offset of subfoundation. According to direct measurements offset rate stays below 1,5, therefore we can rely on prevailing experimentally obtained value of correlations and set allowable speed to Ual = 1,25 sm/s.