Hengzongshu/ArticleAgent huggingface dataset:
A review of half a century of cosmology is presented for an intended audience of elementary particle physicists. The introductory historical section is mostly devoted to the fundamental work done in, but not always known outside, Russia (USSR). Foundational works and astronomical observations instrumental in shaping the field are discussed

The review is based on a half-hour seminar talk (at the Institute of Theoretical and Experimental Physics, ITEP) and is therefore brief and superficial. The presentation is admittedly not entirely objective but rather is given from the Russian (ITEP) perspective and is influenced by the author's personal views and biases

as are inflation, baryosynthesis, dark matter and dark energy, vacuum energy, large-scale gravity modifications, and microwave background angular fluctuations
The monograph is based on the results of the XVI all-Russian conference and the XXVI all-Russian school-seminar "Integration of Russian universities into the world educational and scientific space taking into account regional peculiarities", devoted to the discussion of one of the most relevant topics of the modern education system: international cooperation of Russian universities in the regional development imperatives. The proposed materials can be useful for specialists of the Russian education system management and Russian regions education system management, employees of Federal and regional authorities and management, as well as regional associations of academic mobility.
The influence of a wavy wall on the position of a laminar-turbulent transition on a flat plate at M = 5.95 is studied in this paper.

The transition position was determined from the distribution of heat fluxes on the surface of the model.
The paper is devoted to the localization problem of a set of vector field discontinuities, and also discontinuities of its derivatives. We propose new approaches to the reconstruction of vector field singularities by its ray transforms. Alongside modification the Vainberg operator, for solution of this problem we use certain operators of vector analysis in different combinations.
Germline mutations in the coding sequence of the tumour suppressor APC gene give rise to familial adenomatous polyposis (which leads to colorectal cancer) and are associated with many other oncopathologies. The loss of APC function because of deletion of putative promoter 1A or 1B also results in the development of colorectal cancer. Since the regions of promoters 1A and 1B contain many single nucleotide polymorphisms (SNPs), the aim of this study was to perform functional analysis of some of these SNPs by means of an electrophoretic mobility shift assay (EMSA) and a luciferase reporter assay. First, it was shown that both putative promoters of APC (1A and 1B) drive transcription in an in vitro reporter experiment. From eleven randomly selected SNPs of promoter 1A and four SNPs of promoter 1B, nine and two respectively showed differential patterns of binding of nuclear proteins to oligonucleotide probes corresponding to alternative alleles. The luciferase reporter assay showed that among the six SNPs tested, the rs75612255 C allele and rs113017087 C allele in promoter 1A as well as the rs138386816 T allele and rs115658307 T allele in promoter 1B significantly increased luciferase activity in the human erythromyeloblastoid leukaemia cell line K562. In human colorectal cancer HCT-116 cells, none of the substitutions under study had any effect, with the exception of minor allele G of rs79896135 in promoter 1B. This allele significantly decreased the luciferase reporter's activity Our results indicate that many SNPs in APC promoters 1A and 1B are functionally relevant and that allele G of rs79896135 may be associated with the predisposition to colorectal cancer.
Natural ionizing radiation, which potentially affects biota inhabiting the Earth, can be broadly divided into two types according to origin: cosmic radiation and subsurface radiation. Cosmic radiation contains galactic cosmic rays and solar energetic particles. Subsurface radiation is derived from radionuclides such as uranium, thorium, and radon. The levels of these forms of natural radiation were not constant temporally and spatially, and underwent a lot of changes in the early Earth environment. However, the ground level radiation dose rate of secondary muons derived from a supernova event that causes the most severe biological effects among forms of cosmic radiation is estimated to be 1 sievert (Sv) per year at most, which is too low to have lethal and mutagenic effects on terrestrial microbes. On the other hand, a nuclear fission chain reaction occurred in Oklo uranium ore deposit in Gabon about 2 billion years ago and continued intermittently for 105-106 years. The average total radiation dose rate of a typical natural fission reactor in Oklo is estimated to be 47.4 Sv per hour. This value is high enough to serve as a physical mutagen for subsurface microbes inhabiting areas near the reactor, and a million years is long enough to generate a new species of microbes. The observed growth-inhibitory critical dose rate for Escherichia coli is estimated to be 36 to 67 Gy per hour. On the other hand, the radioresistant bacterium Deinococcus radiodurans is shown to be cultivated without any growth delay at up to 126 to 180 Gy per hour of gamma rays. Recent EXAFS and isotopic analyses indicate that biogenic processes are more important for uranium ore genesis than previously understood. D. radiodurans and its closely related species Thermus thermophilus are shown to have the ability to reduce U(VI) to U(IV) under anaerobic conditions. These lines of evidence suggest that a common ancestor of Deinococcus and Thermus might be involved in the formation process of Oklo uranium ore deposit. Therefore, the radiation dose rate at Oklo-type natural nuclear reactors would be suitable for affecting the growth of microbes and generating genome evolution through accumulated mutations.
A series of 1,2-, 1,4-disubstituted or 1,2,4-trisubstituted anthraquinone-based compounds was designed, synthesized, characterized and biologically evaluated for anticancer efficacy. 2- or 4-arylated 1-hydroxy-9,10-antraquinones (anthracene-9,10-diones) were prepared by Suzuki–Miyaura cross-coupling reaction of 1-hydroxy-2-bromoanthraquinone, 1-hydroxy-4-iodoanthraquinone or 1-hydroxy-2,4-dibromoanthraquinone with arylboronic acids. The cross-coupling reaction of 2,4-dibromo-9,10-anthraquinone with arylboronic acids provide a convenient approach to 2,4-bis arylated 1-hydroxyanthraquinones with a variety of aryl substituent in the 2 and 4 position. The cytotoxicity of new anthraquinone derivatives was evaluated using the conventional MTT assays.

The data revealed that six of the aryl substituted compounds among the entire series 3, 15, 16, 25, 27, 28 were comparable potent with the commercially available reference drug doxorubicin on the human glioblastoma cells SNB-19, prostate cancer DU-145 or breast cancer cells MDA-MB-231 and were relatively safe towards human telomerase (h-TERT)immortalized lung fibroblasts cells. The results suggested that the in vitro antitumor activity of synthesized 2-aryl, 4-aryl- and 2,4-diaryl substituted 1-hydroxyanthraquinones depends on the nature of the substituent within the cyclic backbone. Docking interaction of 2-, 4-substituted and 2,4-disubstituted 1-hydroxyanthraquinones indicates intercalative mode of binding of compounds with DNA topoisomerase. The interaction with the DNA of 4-aryl-13, 15, 16 and 4-(furan-3-yl)-23 1-hydroxyanthraquinones was experimentally confirmed through a change in electroforetic mobility. Further experiments with 1-hydroxy-4-phenyl-anthraquinone 13 demonstrated that the compound induced cell cycle arrest at sub-G1 phase in DU-145 cells in the concentration 1.1 μM, which is probably achieved by inducing apoptosis. 4-Arylsubstituted 1-hydroxyanthraquinones 13 and 16 induced the enhancement of DNA synthesis on SNB19 cell lines.
Researchers have assembled thousands of eukaryotic genomes using Illumina reads, but traditional mate-pair libraries cannot span all repetitive elements, resulting in highly fragmented assemblies. However, both chromosome conformation capture techniques, such as Hi-C and Dovetail Genomics Chicago libraries and long-read sequencing, such as Pacific Biosciences and Oxford Nanopore, help span and resolve repetitive regions and therefore improve genome assemblies. One important livestock species of arid regions that does not have a high-quality contiguous reference genome is the dromedary (Camelus dromedarius). Draft genomes exist but are highly fragmented, and a high-quality reference genome is needed to understand adaptation to desert environments and artificial selection during domestication. Dromedaries are among the last livestock species to have been domesticated, and together with wild and domestic Bactrian camels, they are the only representatives of the Camelini tribe, which highlights their evolutionary significance.

Here we describe our efforts to improve the North African dromedary genome. We used Chicago and Hi-C sequencing libraries from Dovetail Genomics to resolve the order of previously assembled contigs, producing almost chromosome-level scaffolds. Remaining gaps were filled with Pacific Biosciences long reads, and then scaffolds were comparatively mapped to chromosomes. Long reads added 99.32 Mbp to the total length of the new assembly. Dovetail Chicago and Hi-C libraries increased the longest scaffold over 12-fold, from 9.71 Mbp to 124.99 Mbp and the scaffold N50 over 50-fold, from 1.48 Mbp to 75.02 Mbp.

We demonstrate that Illumina de novo assemblies can be substantially upgraded by combining chromosome conformation capture and long-read sequencing.
Living systems have a complex hierarchical organization that can be viewed as a set of dynamically interacting subsystems. Thus, to simulate the internal nature and dynamics of the whole biological system we should use the iterative way for a model reconstruction, which is a consistent composition and combination of its elementary subsystems.

In accordance with this bottom-up approach, we have developed MAMMOTh (MAthematical Models of bioMOlecular sysTems) database that allows integrating manually curated mathematical models of biomolecular systems, which are fit to the experimental data. The database entries are organized as building blocks in a way that the model parts can be used in different combinations to describe systems with higher organizational level (metabolic pathways and/or transcription regulatory networks). The database supports export of single model or their combinations in SBML or Mathematica standards.

The database currently contains more than 100 mathematical models for Escherichia coli elementary subsystems (enzymatic reactions and gene expression regulatory processes) that can be combined in at least 5100 complex/sophisticated models concerning such biological processes as: de novo nucleotide biosynthesis, aerobic/anaerobic respiration, and nitrate/nitrite utilization in E. coli. All current models are functionally interconnected and sufficiently complement public model resources.
This article is dedicated to the problem of color perception in the language worldview in describing a person according to the «black and white» color palette in Kazakh, English and Russian; it also examines phraseological units that feature these colors. Color is one of the principles of culture; many cultural phenomena cannot be understood without taking into account the importance of color. In particular, in descriptions of person one can distinguish a number of general associative color fields with similarities and differences. A study of phraseological dictionaries of the Kazakh, English and Russian languages, as well as works of fiction, has revealed that the color designation "ақ-белый-white" and "қара-черный-black" differ in their versatility in describing one’s appearance, character and social status. Subject: color perception in the language worldview of Russian, Kazakh and English speakers. The purpose of the work: to identify common and differential manifestations of white and black in different linguocultures using lexemes "ақ – белый – white" and "қара – черный – black" in phraseological units. Method of investigation: semantic and communicative analysis. In Kazakh, Russian, and English, white and black colors in description of person have a wide scope of application. Their frequency means that these color codes are part of a group of tokens with a high potential for phraseological activity. These colors are actively used both in everyday life and fiction when a person is described with the help of color contrasts. Material of the research: the paper features phraseological units with the elements of color identification "white", "black" and "red" from verbal folklore and Kazakh literature classics, as well as works by Russian and English writers.
Currently one of the most popular methods to obtain various molecular co-crystals is mechanochemical synthesis, i.e. mechanical treatment of a mixture of powder reactants. Traditional approach for mechanical treatment is milling in a ball mill or grinding in a mortar. However, using these methods causes a number of problems related to investigation of the reaction's mechanism. For instance, ball mill produces impact treatment and shear treatment simultaneously and it is almost impossible to separate these two types of mechanical treatment. So, if detailed analysis of reaction is required, alternative methods of mechanical treatment are necessary. This study describes how mechanochemical co-crystallization of piroxicam and succinic acid has been investigated by using special model devices constructed for separated impact and shear mechanical treatment. Such devices allowed us to perform controlled impact or shear mechanical treatment, what was necessary for detailed investigation of mechanochemical processes for molecular crystals, based on the X-ray powder diffraction analysis. We could change and control energy and frequency of mechanical pulses in the impact model device and average velocity and pressure in the shear model device. For some other systems applying controlled impact treatment allowed us to detect the intermediate products of the mechanochemical synthesis of molecular complexes [1-2]. As for `piroxicam – succinic acid" system, a comparison of impact and shear mechanical treatment had lead to opposite results for mechanochemical reactions – shear treatment appeared to disintegrate co-crystal obtained by impact mechanical treatment. Acknowledgements This work was supported by grants from RFBR (No. 11-03-00684, 12-03-31663, 13-03-00795, 13-03-92704) and Ministry of Education and Science Agreement (No. 14.B37.21.1093).
Due to their specific physical properties, HgCdTe-based heterostructures are expected to play an important role in terahertz photonic systems.

Here, focusing on gated devices presenting inverted band ordering, we evidence an enhancement of the terahertz photoconductive response close to the charge neutrality point and at the magnetic field driven topological phase transition. We also show the ability of these heterostructures to be used as terahertz imagers.

Regarding terahertz emitters, we present results on stimulated emission of HgCdTe heterostructures in their conventional semiconductor state above 30 THz, discussing the physical mechanisms involved and promising routes towards the 5–15 THz frequency domain.
This paper discusses issues related to the analysis of the Arctic halocline state over the past decades. Observational data show that the layer of halocline in the Arctic Ocean significantly changed in the last 40 years, which may affect the Arctic ice cover. For the study we used a three-dimensional ocean and sea ice numerical model developed at the ICMMG SB RAS. The main attention was devoted to the analysis of the model distribution of water salinity in the upper 250-meter layer and its variability. Based on numerical experiments on the sensitivity of thermohaline stratification to variations in atmospheric effects and the intensity of river flow, we identified areas of the Arctic basin in which the variability of the Arctic halocline was the most pronounced.
Back pain is the #1 cause of years lived with disability worldwide, yet surprisingly little is known regarding the biology underlying this symptom.

We conducted a genome-wide association study (GWAS) meta-analysis of chronic back pain (CBP). Adults of European ancestry were included from 15 cohorts in the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) consortium, and from the UK Biobank interim data release. CBP cases were defined as those reporting back pain present for ≥3–6 months; non-cases were included as comparisons ("controls"). Each cohort conducted genotyping using commercially available arrays followed by imputation. GWAS used logistic regression models with additive genetic effects, adjusting for age, sex, study-specific covariates, and population substructure. The threshold for genome-wide significance in the fixed-effect inverse-variance weighted meta-analysis was p<5×10−8. Suggestive (p<5×10−7) and genome-wide significant (p<5×10−8) variants were carried forward for replication or further investigation in the remaining UK Biobank participants not included in the discovery sample. The discovery sample comprised 158,025 individuals, including 29,531 CBP cases.

A genome-wide significant association was found for the intronic variant rs12310519 in SOX5 (OR 1.08, p = 7.2×10−10). This was subsequently replicated in 283,752 UK Biobank participants not included in the discovery sample, including 50,915 cases (OR 1.06, p = 5.3×10−11), and exceeded genome-wide significance in joint meta-analysis (OR 1.07, p = 4.5×10−19). We found suggestive associations at three other loci in the discovery sample, two of which exceeded genome-wide significance in joint meta-analysis: an intergenic variant, rs7833174, located between CCDC26 and GSDMC (OR 1.05, p = 4.4×10−13), and an intronic variant, rs4384683, in DCC (OR 0.97, p = 2.4×10−10). In this first reported meta-analysis of GWAS for CBP, we identified and replicated a genetic locus associated with CBP (SOX5). We also identified 2 other loci that reached genome-wide significance in a 2-stage joint meta-analysis (CCDC26/GSDMC and DCC).
Age-related macular degeneration (AMD) is a major cause of blindness in developed countries, and the molecular pathogenesis of AMD is poorly understood. A large body of evidence has corroborated the key role of neurotrophins in development, proliferation, differentiation, and survival of retinal cells. Neurotrophin deprivation has been proposed to contribute to retinal-cell death associated with neurodegenerative diseases. Little is known about the expression of the immature form of neurotrophins (proneurotrophins) and their mature form [e.g., nerve growth factor (proNGF and mNGF) and brain-derived neurotrophic factor (proBDNF and mBDNF)] in the retina during physiological aging and against the background of AMD. In addition, cell-specific localization of proteins NGF and BDNF in the retina during AMD development is not clear. Here, we evaluated contributions of the age-related alterations in the neurotrophin system to the development of AMD-like retinopathy in OXYS rats. Male OXYS rats at preclinical (20 days), early (3 months), and late (18 months) stages of the disease and age-matched male Wistar rats (as controls) were used. We performed immunohistochemical localization of NGF, BDNF, and their receptors TrkA, TrkB, and p75NTR by fluorescence microscopy in retinal sections from OXYS and Wistar rats. We found increased NGF staining in Muller cells in 18-month-old OXYS rats (progressive stage of retinopathy). In contrast, we observed only subtle changes in the labeling of mature BDNF (mBDNF) and TrkB during the development of AMD-like retinopathy in OXYS rats. Using colocalization with vimentin and NeuN, we detected a difference in the cell type–specific localization of mBDNF between OXYS and Wistar rats. We showed that the mBDNF protein was located in Muller cells in OXYS rats, whereas in the Wistar retina, mBDNF immunoreactivity was detected in Muller cells and ganglion cells. During the development of AMD-like retinopathy, proBDNF dominated over mBDNF during increasing cell loss in the OXYS retina. These data indicate that alterations in the balance of neurotrophic factors in the retina are involved in the development of AMD-like retinopathy in OXYS rats and confirm their participation in the pathogenesis of AMD in humans.
In the paper, last experiment's results on sub-THz wave emission from the area of relativistic electron beam-plasma interaction in the GOL-PET device are described. A plasma column with the diameter of 6 cm, length of 2.5 m and electron density (0.2-2)×1015 cm−3 is confined by multiple-mirror magnetic field with mean value of 4 T. The relativistic electron beam injected into the column, has the following parameters: energy Eb ∼ 0.8 MeV, current Ib ∼ 30 kA, current density Jb ∼ 2 kA/cm2 in the mean magnetic field. Previous studies have shown that the beam pumps the plasma electron oscillations in a vicinity of the upper hybrid wave branch. These plasma oscillations can be converted in electromagnetic waves on regular or artificial plasma density gradients in a vicinity of upper hybrid frequency. The electromagnetic waves with the double upper hybrid frequency are also generated in the beam-plasma system due to coalescence of the plasma oscillations in case of high level of the oscillation energy density. The described experiments are devoted to measure the spectral properties of the generated radiation and the direction of the sub-THz plasma emission in depending on plasma and beam parameters. As results the wave emission with the specific power concentrated in the direction along the axis of the plasma column, in the frequency interval 0.25-0.5 THz has been obtained at the plasma density about of 1015 cm−3.
the existing picture based on chemical potential fluctuations

spatially resolved Landau-level spectroscopy measurements, model calculations

the presence of microscopic spatially varying stain, inevitably present in crystals because of the random distribution of defects, effectively couple to topological states and should be carefully considered for correctly describing the effects of disorder
The problem of chemical composition below the knee in the cosmic-ray energy spectrum has not yet been solved due to low statistics collected from direct experiments.

In the HiSCORE experiment the lateral distribution functions (LDF) of Cherenkov light of EASs with energy greater than hundreds of TeV can be measured in detail for millions of individual events. A full steepness of LDF is sensitive to the depth of shower maximum and as a result to primary particle type. In this paper, we developed a parametric method of separation between heavy and light groups of nuclei using the 'knee-like' approximation of LDF and taking into account measurement uncertainty.