Hengzongshu/ArticleAgent huggingface dataset:
Diagnostic monitoring of groups of healthy patients and patients with colorectal cancer (CRC) at various stages of the development of the disease was carried out using Raman spectroscopy (CRS) and measuring the state of polarized light in the vicinity of surface plasmon resonance (SPR) observation conditions. For the diagnosis, the reaction of serum antigens with antibodies to serum M2-pyruvate kinase (M2-PK) was used near the observation conditions of SPR, for which we used the Ellips-SPEC spectral ellipsometric complex created in the Institute of Semiconductor Physics of the Siberian Branch of the Russian Academy of Sciences (ISP SB RAS). The complex has high sensitivity, accuracy and non-destructive impact on the sample under study. The intensities of the peaks at 1005, 1157 and 1520 cm-1 in the CRS spectra of CRC patients as compared with healthy individuals as well as the intensity of the equilibrium plasmon signal were significantly lower, correlating with the stage of the disease and the presence of metastases. It allows us to consider these optical methods as a promising diagnostic approaches in the diagnosis of CRC, including in the early stages of the disease.
The research aim is to study the associations of changes in the content of hemoglobin complexes by the Raman spectroscopy with electrical and viscoelastic parameters of erythrocytes (using the dielectrophoresis method) among patients with arterial hypertension (AH) (including resistant AH), to evaluate the possibility of using these parameters for diagnostic purposes.

Fifty males (54 ± 6 years) with stage 2 of AH have been examined, 24 of them have showed resistant AH. We have determined a significant decrease in the level of hemoglobin-ligand complexes, Hb-NO (II) complexes in patients with resistant AH compared to those among patients with controlled AH and among healthy patients (p < 0.001 – 0.05). We have found correlations between intensities of the most important signals of hemoglobin Raman spectra (1325, 1350, 1550, 1580, 1660, 1668 cm –1 ) and electric and viscoelastic parameters of erythrocytes (amplitude of erythrocytes deformation, summarized indicators of viscosity and rigidity, the magnitude of the dipole moment, polarizability at the frequency 106 Hz, electrical conductivity, index of destruction), the intensity of which had been the biggest one for resistant AH.

It has been shown that the combined use of two methods (Raman spectroscopy of hemoglobin and electrical and the studies of erythrocytes by the dielectrophoresis method) allowed to increase the diagnostic accuracy to detect the resistant arterial hypertension up to 88%, sensitivity up to 84.6%, specificity up to 91.7% compared to the data of the combined clinical and instrumental methods of research. The capability of this combination approach exceeds the capabilities of the methods separately.
The quantum-mechanical rule for probabilities, in its most general form of positive-operator valued measure (POVM), is shown to be a consequence of the environment-assisted invariance (envariance) idea suggested by Zurek [Phys.Rev. Lett.90, 120404 (2003)], being completed by Gleason's theorem.This provides also a method for derivation of the Born rule.
article Free Access Share on Object analysis of program Authors: Vladimir I. Shelekhov Institute of Informatics System , 6, Acad . Lavrentjev pr., Novosibirsk 630090, Russia Institute of Informatics System , 6, Acad . Lavrentjev pr., Novosibirsk 630090, RussiaView Profile , Sergey V. Kuksenko Department of Computer Science,, Novosibirsk State University Department of Computer Science,, Novosibirsk State UniversityView Profile Authors Info & Claims ACM SIGPLAN NoticesVolume 29Issue 9Sept. 1994 pp 125–134https://doi.org/10.1145/185009.185034Online:01 September 1994Publication History 0citation10DownloadsMetricsTotal Citations0Total Downloads10Last 12 Months2Last 6 weeks0 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Precise studies of plant, animal and human genomes enable remarkable opportunities of obtained data application in biotechnology and medicine. However, knowing nucleotide sequences isnt enough for understanding of particular genomic elements functional relationship and their role in phenotype formation and disease pathogenesis. In post-genomic era methods allowing genomic DNA sequences manipulation, visualization and regulation of gene expression are rapidly evolving. Though, there are few methods, that meet high standards of efficiency, safety and accessibility for a wide range of researchers. In 2011 and 2013 novel methods of genome editing appeared - this are TALEN (Transcription Activator-Like Effector Nucleases) and CRISPR (Clustered Regulatory Interspaced Short Palindromic Repeats)/Cas9 systems. Although TALEN and CRISPR/Cas9 appeared recently, these systems have proved to be effective and reliable tools for genome engineering. Here we generally review application of these systems for genome editing in conventional model objects of current biology, functional genome screening, cell-based human hereditary disease modeling, epigenome studies and visualization of cellular processes. Additionally, we review general strategies for designing TALEN and CRISPR/Cas9 and analyzing their activity. We also discuss some obstacles researcher can face using these genome editing tools.
The effect of two-mode oscillations with frequencies that differ in a twofold is investigated under different energy contributions of each mode. The results of a parametric study of influence of the forced two-mode oscillations of the profile section on the transonic streamline that do not cause either a buffeting or a flutter are obtained. With power decreasing, the increase in lift force is reduced by almost the same factor. Quantitative difference is significant for the lift coefficient at high frequencies for all values of the oscillations power.
The derivative coupling of baryonic current to the curvature scalar in gravitational baryogenesis scenarios

leads to higher order equations for gravitational field

It is shown that these equations are strongly unstable and destroy standard cosmology. This is a generalization of our earlier results obtained for scalar baryons to realistic fermions.
Multiple experimental data demonstrated that the core gene network orchestrating self-renewal and differentiation of mouse embryonic stem cells involves activity of Oct4, Sox2 and Nanog genes by means of a number of positive feedback loops among them. However, recent studies indicated that the architecture of the core gene network should also incorporate negative Nanog autoregulation and might not include positive feedbacks from Nanog to Oct4 and Sox2. Thorough parametric analysis of the mathematical model based on this revisited core regulatory circuit identified that there are substantial changes in model dynamics occurred depending on the strength of Oct4 and Sox2 activation and molecular complexity of Nanog autorepression. The analysis showed the existence of four dynamical domains with different numbers of stable and unstable steady states. We hypothesize that these domains can constitute the checkpoints in a developmental progression from naïve to primed pluripotency and vice versa. During this transition, parametric conditions exist, which generate an oscillatory behavior of the system explaining heterogeneity in expression of pluripotent and differentiation factors in serum ESC cultures. Eventually, simulations showed that addition of positive feedbacks from Nanog to Oct4 and Sox2 leads mainly to increase of the parametric space for the naïve ESC state, in which pluripotency factors are strongly expressed while differentiation ones are repressed.
Gene expression profiling data contains more information than is routinely extracted with standard approaches. Notably, some of the fold-change-specific GO terms are invisible by classical algorithms for functional gene enrichment, SEA and GSEA.

Here we present Fold-change-Specific Enrichment Analysis (FSEA), a new method for functional annotation of differentially expressed genes from transcriptome data with respect to their fold changes. FSEA identifies GO terms, which are shared by the group of genes with a similar magnitude of response, and assesses these changes. Availability and Implementation: FSEA is implemented as the FoldGO Bioconductor R package and a web-server https://webfsgor.sysbio.cytogen.ru/ .

FSEA analyses suggest that there are two prevailing responses of functionally-related gene groups, either weak or strong. We demonstrate that many responses to abiotic factors, mutations, treatments and diseases occur in a fold-change-specific manner. These are GO terms not enriched compared to the genome background but strictly regulated by a factor within specific fold-change intervals. FSEA analysis of a cancer-related transcriptome suggested that the gene groups with a tightly coordinated response can be the valuable source to search for possible regulators, markers and therapeutic targets in oncogenic processes.
In this paper, we developed a new dip-pen nanolithography (DPN) method.

Using this method, we fabricated conductive nanowires with diameters of 30–50 nm on silicon substrates. To accomplish this, indium was transferred from an atomic force microscopy tip to the surface by applying a potential difference between the tip and substrate.

The fabricated indium nanowires were several micrometers in length. Unlike thermal DPN, our DPN method hardly oxidized the indium, producing nanowires with conductivities from 5.7 × 10−3 to 4 × 10−2 Ω cm.
Recently, metabolic profiling of the tissue in the native state or extracts of its metabolites has become increasingly important in the field of metabolomics. An important factor, in this case, is the presence of blood in a tissue sample, which can potentially lead to a change in the concentration of tissue metabolites and, as a result, distortion of experimental data and their interpretation.

In this paper, the metabolomic profiling based on NMR spectroscopy was performed to determine the effect of blood contained in the studied samples of brain tissue on their metabolomic profile. We used 13 male laboratory CD-1® IGS mice for this study. The animals were divided into two groups. The first group of animals (n = 7) was subjected to the perfusion procedure, and the second group of animals (n = 6) was not perfused. The brain tissues of the animals were homogenized, and the metabolite fraction was extracted with a water/methanol/chloroform solution. Samples were studied by high-frequency 1H-NMR spectroscopy with subsequent statistical data analysis. The group comparison was performed with the use of the Student’s test. We identified 36 metabolites in the brain tissue with the use of NMR spectroscopy.

For the major set of studied metabolites, no significant differences were found in the brain tissue metabolite concentrations in the native state and after the blood removal procedure. Thus, it was shown that the presence of blood does not have a significant effect on the metabolomic profile of the brain in animals without pathologies.
One of the effective tools for solving applied problems of analysis and modeling of the spatial economy are optimization interregional intersectoral models. Currently, IEIE SB RAS has developed and implemented several versions of the Model-Program Complex of the Optimization Interregional Interindustry Model "MPK OMMM", which are used to coordinate macroeconomic, sectoral and regional long-term forecasts on a regular basis and for experimental calculations of forecast options for the development of the national economy of the Russian Federation.

This paper discusses one of the ways to represent optimization models of the OMMM type, based on the use of the COMBI-2000 language (Complex for processing matrix information blocks, version 2000), which is a tool for describing pre- and post-optimization calculations, a means of communication with the optimization package and reflecting a database and recording mathematical models in a fairly convenient and simplified structure for users.
We present an analysis of the exclusive $B^{+}\to\pi^{+}\pi^{-}\ell^{+}\nu_{\ell}$ decay, where $\ell$ represents an electron or a muon, with the assumption of charge-conjugation symmetry and lepton universality. The analysis uses the full $\Upsilon(4S)$ data sample collected by the Belle detector, corresponding to 711 fb$^{-1}$ of integrated luminosity. We select the events by fully reconstructing one $B$ meson in hadronic decay modes, subsequently determining the properties of the other $B$ meson. We extract the signal yields using a binned maximum-likelihood fit to the missing-mass squared distribution in bins of the invariant mass of the two pions or the momentum transfer squared. We measure a total branching fraction of ${{\cal B}(B^{+}\to \pi^{+}\pi^{-}\ell^{+}\nu_{\ell})= [22.7 ^{+1.9}_{-1.6} (\mathrm{stat}) \pm 3.5(\mathrm{syst}) ]\times 10^{-5}}$, where the uncertainties are statistical and systematic, respectively. This result is the first reported measurement of this decay.
The continuous time Markov process considered in this paper belongs to a class of population models with linear growth and catastrophes.

There, the catastrophes happen at the arrival times of a Poisson process, and at each catastrophe time, a randomly selected portion of the population is eliminated.

For this population process, we derive an asymptotic upper bound for the maximum value and prove the local large deviation principle.
Reactive oxygen species have been hypothesized to play an important role in the process of aging. To investigate the correlation between oxidative stress and accumulation of protein and DNA damage, we have compared the age‐dependent levels of protein carbonyl groups and the activities of antioxidant enzymes superoxide dismutase, catalase and glutathione peroxidase in cytosol and mitochondrial extracts from liver cells of Wistar and OXYS rats. The latter strain is characterized by increased sensitivity to free radicals. Faster age‐dependent increase in the level of protein carbonyl groups was found in OXYS as compared with Wistar rats. A complicated enzyme‐specific pattern of age‐dependent changes in the activities of antioxidant enzymes was observed. Long‐term uptake of dietary supplements Mirtilene forte (extract from the fruits of Vaccinium myrtillus L.) or Adrusen zinco (vitamin E complex with zinc, copper, selenium and ω‐3 polyunsaturated fatty acids) sharply decreased the level of protein oxidation in cytosol and mitochondrial extracts of hepatocytes of Wistar and of OXYS rats. Both dietary supplements increased the activity of catalase in the liver mitochondria of OXYS rats. Our results are in agreement with the shorter life‐span of OXYS and with the mitochondrial theory of aging, which postulates that accumulation of DNA and protein lesions leads to mitochondrial dysfunction and accelerates the process of aging.
The elements of mixed reality technology are described, which allow you to get acquainted with some of the exhibits of the Kuzbass Botanical Garden, Kemerovo. Elements of mixed reality are integrated with an information system based on a relational database. The developed algorithms for matching elements of a 3D model to objects from a relational database in real time require the use of analysis and mathematical modeling methods.
A search is performed for the lepton number violating decay ${B}^{+}\ensuremath{\rightarrow}{h}^{\ensuremath{-}}{\ensuremath{\mu}}^{+}{\ensuremath{\mu}}^{+}$, where ${h}^{\ensuremath{-}}$ represents a ${K}^{\ensuremath{-}}$ or a ${\ensuremath{\pi}}^{\ensuremath{-}}$, using an integrated luminosity of $36\text{ }\text{ }{\mathrm{pb}}^{\ensuremath{-}1}$ of data collected with the LHCb detector. The decay is forbidden in the standard model but allowed in models with a Majorana neutrino. No signal is observed in either channel and limits of $\mathcal{B}({B}^{+}\ensuremath{\rightarrow}{K}^{\ensuremath{-}}{\ensuremath{\mu}}^{+}{\ensuremath{\mu}}^{+})<5.4\ifmmode\times\else\texttimes\fi{}{10}^{\ensuremath{-}8}$ and $\mathcal{B}({B}^{+}\ensuremath{\rightarrow}{\ensuremath{\pi}}^{\ensuremath{-}}{\ensuremath{\mu}}^{+}{\ensuremath{\mu}}^{+})<5.8\ifmmode\times\else\texttimes\fi{}{10}^{\ensuremath{-}8}$ are set at the 95% confidence level. These improve the previous best limits by factors of 40 and 30, respectively.
A search for lepton-flavor-violating $Z\to eτ$ and $Z\toμτ$ decays with $pp$ collision data recorded by the ATLAS detector at the LHC is presented. This analysis uses 139 fb$^{-1}$ of Run 2 $pp$ collisions at $\sqrt{s}=13$ TeV and is combined with the results of a similar ATLAS search in the final state in which the $τ$-lepton decays hadronically, using the same data set as well as Run 1 data.

The addition of leptonically decaying $τ$-leptons significantly improves the sensitivity reach for $Z\to\ellτ$ decays.

The $Z\to\ellτ$ branching fractions are constrained in this analysis to $\mathcal{B}(Z\to eτ)<7.0\times10^{-6}$ and $\mathcal{B}(Z\to μτ)<7.2\times10^{-6}$ at 95% confidence level. The combination with the previously published analyses sets the strongest constraints to date: $\mathcal{B}(Z\to eτ)<5.0\times10^{-6}$ and $\mathcal{B}(Z\to μτ)<6.5\times10^{-6}$ at 95% confidence level.
The design of effective target-specific drugs for COVID-19 treatment has become an intriguing challenge for modern science. The SARS-CoV-2 main protease, M pro , responsible for the processing of SARS-CoV-2 polyproteins and production of individual components of viral replication machinery, is an attractive candidate target for drug discovery. Specific M pro inhibitors have turned out to be promising anticoronaviral agents. Thus, an effective platform for quantitative screening of M pro -targeting molecules is urgently needed. Here, we propose a pre–steady-state kinetic analysis of the interaction of M pro with inhibitors as a basis for such a platform. We examined the kinetic mechanism of peptide substrate binding and cleavage by wild-type M pro and by its catalytically inactive mutant C145A. The enzyme induces conformational changes of the peptide during the reaction. The inhibition of M pro by boceprevir, telaprevir, GC-376, PF-00835231, or thimerosal was investigated. Detailed pre–steady-state kinetics of the interaction of the wild-type enzyme with the most potent inhibitor, PF-00835231, revealed a two-step binding mechanism, followed by covalent complex formation. The C145A M pro mutant interacts with PF-00835231 approximately 100-fold less effectively. Nevertheless, the binding constant of PF-00835231 toward C145A M pro is still good enough to inhibit the enzyme. Therefore, our results suggest that even noncovalent inhibitor binding due to a fine conformational fit into the active site is sufficient for efficient inhibition. A structure-based virtual screening and a subsequent detailed assessment of inhibition efficacy allowed us to select two compounds as promising noncovalent inhibitor leads of SARS-CoV-2 M pro .
For martensitic transformations the macroscopic crystal strain is directly related to the corresponding structural rearrangement at the microscopic level. In situ optical microscopy observations of the interface migration and the change in crystal shape during a displacive single crystal to single crystal transformation can contribute significantly to understanding the mechanism of the process at the atomic scale. This is illustrated for the dehydration of samarium oxalate decahydrate in a study combining optical microscopy and single-crystal X-ray diffraction.
Let be a set of primes. We say that the Sylow -theorem holds for a finite group , or is a -group, if the maximal -subgroups of are conjugate. Obviously, the Sylow -theorem implies the existence of -Hall subgroups. In this paper, we give an affirmative answer to Problem 17.44, (b), in the Kourovka notebook : namely, we prove that in a -group an overgroup of a -Hall subgroup is always a -group. Bibliography: 52 titles.
We numerically investigate light curves (LCs) of shocked circumstellar shells which are suggested to reproduce the observed LC of superluminous SN 2006gy analytically. In the previous analytical model, the effects of the recombination and the bolometric correction on LCs are not taken into account. To see the effects, we perform numerical radiation hydrodynamic calculations of shocked shells by using STELLA, which can numerically treat multigroup radiation transfer with realistic opacities. We show that the effects of the recombination and the bolometric correction are significant and the analytical model should be compare to the bolometric LC instead of a single band LC. We find that shocked circumstellar shells have a rapid LC decline initially because of the adiabatic expansion rather than the luminosity increase and the shocked shells fail to explain the LC properties of SN 2006gy. However, our synthetic LCs are qualitatively similar to those of superluminous SN 2003ma and SN 1988Z and they may be related to shocked circumstellar shells.
We prove that a locally uniform limit of a sequence of homeomorphisms with finite k-distortion is also a mapping with finite k-distortion.We obtain also an estimation for the distortion coefficient of the limit mapping.
In most phylogenetic lineages, the evolution of sex chromosomes is accompanied by their heteromorphization and degradation of one of them. The neo-sex chromosomes are useful model for studying early stages of these processes. Recently two lineages of the neo-sex chromosomes on different stages of heteromorphization was discovered in Pamphagidae family. The neo-sex chromosome heteromorphization was analyzed by generation of DNA probes derived from the neo-Xs and neo-Ys followed with chromosome painting in nineteen species of Pamphagidae family. The homologous regions of the neo-sex chromosomes were determined in closely related species with the painting procedure and image analysis with application of the Visualization of the Specific Signal in Silico software package. Results of these analyses and distribution of C-positive regions in the neo-sex chromosomes revealed details of the heteromorphization of the neo-sex chromosomes in species from both phylogenetic lineages of Pamphagidae grasshoppers. The hypothetical mechanism of the neo-Y degradation was suggested. It includes expansion of different repeats from the proximal neo-Y chromosome region by inversions, spreading them towards distal region. Amplification of these repeats leads to formation of C-positive regions and elimination of the C-negative regions located between them.
Skin fibroblasts from a patient with developmental delay and chromosome 2p25.3 deletion syndrome

were reprogrammed into induced pluripotent stem cells (iPSCs) and the clonal stem cell line ICAGi001-A (iTAF9-11) was established. ICAGi001-A pluripotency was demonstrated in vitro by three germ layer differentiation capacity

This line is a good model for studying of the developmental delay and brain disorder