A. Ivanov

Proteins play a central role in biology from immune recognition to brain activity. While major advances in machine learning have improved our ability to predict protein structure from sequence, determining protein function from its sequence or structure remains a major challenge. Here, we introduce holographic convolutional neural network (H-CNN) for proteins, which is a physically motivated machine learning approach to model amino acid preferences in protein structures. H-CNN reflects physical interactions in a protein structure and recapitulates the functional information stored in evolutionary data. H-CNN accurately predicts the impact of mutations on protein stability and binding of protein complexes. Our interpretable computational model for protein structure-function maps could guide design of novel proteins with desired function.

Proton transverse-spin azimuthal asymmetries are extracted from the COMPASS 2010 semi-inclusive hadron measurements in deep inelastic muon-nucleon scattering in those four regions of the photon virtuality $Q^2$, which correspond to the four regions of the di-muon mass $\sqrt{Q^2}$ used in the ongoing analysis of the COMPASS Drell-Yan measurements. This allows for a future direct comparison of the nucleon transverse-momentum-dependent parton distribution functions extracted from these two alternative measurements. Various two-dimensional kinematic dependences are presented for the azimuthal asymmetries induced by the Sivers transverse-momentum-dependent parton distribution function. The integrated Sivers asymmetries are found to be positive with an accuracy that appears to be sufficient to test the sign change of the Sivers function predicted by Quantum Chromodynamics.

Atomic Bloch oscillations in an optical lattice transfer momentum from photons to atoms and can be used within atom interferometers to enhance their force sensing capabilities. The quantum phase accrued during such momentum transfer is measured for up to 100 photons and found to be consistent with fully coherent evolution.

A search for the exotic meson $X(5568)$ decaying into the $B^0_s \pi^{\pm}$ final state is performed using data corresponding to $9.6 \textrm{fb}^{-1}$ from $p{\bar p}$ collisions at $\sqrt{s} = 1960$ GeV recorded by the Collider Detector at Fermilab. No evidence for this state is found and an upper limit of 6.7\% at the 95\% confidence level is set on the fraction of $B^0_s$ produced through the $X(5568) \rightarrow B^0_s \, \pi^{\pm}$ process.

Exclusive production of ω mesons was studied at the COMPASS experiment by scattering 160GeV/c muons off transversely polarised protons. Five single-spin and three double-spin azimuthal asymmetries were measured in the range of photon virtuality 1(GeV/c)2<Q2<10(GeV/c)2, Bjorken scaling variable 0.003<xBj<0.3 and transverse momentum squared of the ω meson 0.05(GeV/c)2<pT2<0.5(GeV/c)2. The measured asymmetries are sensitive to the nucleon helicity-flip Generalised Parton Distributions (GPD) E that are related to the orbital angular momentum of quarks, the chiral-odd GPDs HT that are related to the transversity Parton Distribution Functions, and the sign of the πω transition form factor. The results are compared to recent calculations of a GPD-based model.

Молекулярно-генетическая характеристика лягушекPelophylax esculentus комплекса на восточной периферии ареала (Поволжье, Республика Татарстан) На основе анализа фрагмента первой субъединицы гена цитохром оксидазы (COI) мтДНК и интрона 1 гена сывороточного альбумина (SAI) яДНК исследовано 34 особи зеленых лягушек (Pelophylax esculentus комплекс) из 9 точек долины Волги с северо-запада Республики Татарстан.В Раифском участке Волжско-Камского заповедника продолжается процесс экспансии озерной лягушки из Волги в биотопы, населенные прудовой лягушкой.Выявлено 5 типов популяционных систем (R, L, R-L, L-E, R-E-L).На Саралинском участке предполагается существование популяции R-L-типа.На правобережье Волги обнаружена новая точка обитания съедобной лягушки, отстоящая от известных близлежащих местообитаний на 135-180 км.На северной границе г.Казань в популяции Е-типа донором ядерного и митохондриального генома является «восточная» форма озерной лягушки.В центре города обитает съедобная лягушка (предположительно E-L-тип).Аллели P. cf. bedriagae выявлены в 4 точках правобережья и 2 точках левобережья Волги, что свидетельствует о гибридизации «восточной» и «западной» форм озерной лягушки, позволяя расширить границу этой зоны к северу вдоль русла Волги почти до 56˚ с.ш.Находки носителей аллелей «восточной» формы на правобережье Волги можно объяснить явлением орнитохории и/или проникновением путем антропогенного заноса с водным транспортом.

We present recent results on searches for the fourth generation quarks performed at the CMS and ATLAS experiments at LHC.

We present the study of the production of double J/ψ mesons using COMPASS data collected with a 190 GeV/c π− beam scattering off NH3, Al and W targets. Kinematic distributions of the collected double J/ψ events are analysed, and the double J/ψ production cross section is estimated for each of the COMPASS targets. The NH3 results are compared to predictions from single- and double-parton scattering models as well as the pion intrinsic charm and the tetraquark exotic resonance hypotheses. It is demonstrated that the single parton scattering production mechanism gives the dominant contribution that is sufficient to describe the data. An upper limit on the double intrinsic charm content of the pion is evaluated. No significant signatures that could be associated with exotic tetraquarks are found in the double J/ψ mass spectrum.

Atoms undergoing Bloch oscillations (BOs) in an accelerating optical lattice acquire momentum of two photon recoils per BO. This technique provides a large momentum transfer tool for atom optics, but its full exploitation for atom interferometric sensors requires experimental characterization of associated phases. Each BO involves a Landau-Zener crossing with multiple crossings inducing interference known as Stuckelberg interference. We develop a multi-path Stuckelberg interferometer and investigate atomic phase evolution during BOs, up to 100 photon recoil momentum transfer. We compare to numerically calculated single-particle Schrodinger evolution, demonstrate highly coherent BO sequences, and assess phase stability requirements for BO-enhanced precision interferometry in fundamental physics and sensing applications.

Proteins play a central role in biology from immune recognition to brain activity. While major advances in machine learning have improved our ability to predict protein structure from sequence, determining protein function from structure remains a major challenge. Here, we introduce Holographic Convolutional Neural Network (H-CNN) for proteins, which is a physically motivated machine learning approach to model amino acid preferences in protein structures. H-CNN reflects physical interactions in a protein structure and recapitulates the functional information stored in evolutionary data. H-CNN accurately predicts the impact of mutations on protein function, including stability and binding of protein complexes. Our interpretable computational model for protein structure-function maps could guide design of novel proteins with desired function.

The Collider Detector at Fermilab collected a unique sample of jets originating from bottom-quark fragmentation ($b$-jets) by selecting online proton-antiproton ($p\overline{p}$) collisions with a vertex displaced from the $p\overline{p}$ interaction point, consistent with the decay of a bottom-quark hadron. This data set, collected at a center-of-mass energy of 1.96 TeV, and corresponding to an integrated luminosity of $5.4\text{ }\text{ }{\mathrm{fb}}^{\ensuremath{-}1}$, is used to measure the $Z$-boson production cross section times branching ratio into $b\overline{b}$. The number of $Z\ensuremath{\rightarrow}b\overline{b}$ events is determined by fitting the dijet-mass distribution, while constraining the dominant $b$-jet background, originating from QCD multijet events, with data. The result, $\ensuremath{\sigma}(p\overline{p}\ensuremath{\rightarrow}Z)\ifmmode\times\else\texttimes\fi{}\mathcal{B}(Z\ensuremath{\rightarrow}b\overline{b})=\phantom{\rule{0ex}{0ex}}1.11\ifmmode\pm\else\textpm\fi{}0.08(\mathrm{stat})\ifmmode\pm\else\textpm\fi{}0.14(\mathrm{syst})\text{ }\text{ }\mathrm{nb}$, is the most precise measurement of this process, and is consistent with the standard-model prediction. The data set is also used to search for Higgs-boson production. No significant signal is expected in our data and the first upper limit on the cross section for the inclusive $p\overline{p}\ensuremath{\rightarrow}H\ensuremath{\rightarrow}b\overline{b}$ process at $\sqrt{s}=1.96\text{ }\text{ }\mathrm{TeV}$ is set, corresponding to 33 times the expected standard-model cross section, or $\ensuremath{\sigma}=40.6\text{ }\text{ }\mathrm{pb}$, at the 95% confidence level.

We present the results from searches for fourth generation fermions performed using data samples collected by the CDF II and D0 Detectors at the Fermilab Tevatron p{bar p} collider. Many of these results represent the most stringent 95% C. L. limits on masses of new fermions to-date. A fourth chiral generation of massive fermions with the same quantum numbers as the known fermions is one of the simplest extensions of the SM with three generations. The fourth generation is predicted in a number of theories, and although historically have been considered disfavored, stands in agreement with electroweak precision data. To avoid Z {yields} {nu}{bar {nu}} constraint from LEP I a fourth generation neutrino {nu}{sub 4} must be heavy: m({nu}{sub 4}) > m{sub Z}/2, where m{sub Z} is the mass of Z boson, and to avoid LEP II bounds a fourth generation charged lepton {ell}{sub 4} must have m({ell}{sub 4}) > 101 GeV/c{sup 2}. At the same time due to sizeable radiative corrections masses of fourth generation fermions cannot be much higher the current lower bounds and masses of new heavy quarks t' and b' should be in the range of a few hundred GeV/c{sup 2}. In the four-generation model the present bounds on the Higgs are relaxed: the Higgs mass could be as large as 1 TeV/c{sup 2}. Furthermore, the CP violation is significantly enhanced to the magnitude that might account for the baryon asymmetry in the Universe. Additional chiral fermion families can also be accommodated in supersymmetric two-Higgs-doublet extensions of the SM with equivalent effect on the precision fit to the Higgs mass. Another possibility is heavy exotic quarks with vector couplings to the W boson Contributions to radiative corrections from such quarks with mass M decouple as 1/M{sup 2} and easily evade all experimental constraints. At the Tevatron p{bar p} collider 4-th generation chiral or vector-like quarks can be either produced strongly in pairs or singly via electroweak production, where the latter can be enhanced for vector-like quarks. In the following we present searches for both pair and single production of heavy quarks performed by CDF and D0 Collaborations.

The K-State group's effort is top quark physics and searches for beyond-standard-model physics in t{anti }t final states. The KSU team performed the most precise measurement of the t {anti t} cross section in the lepton + jets channel, and for the first time excluded the fourth generation of the standard model in the perturbative regime.

We present recent results on searches for the fourth generation quarks performed at the CMS and ATLAS experiments at LHC.

We examine the linear complexity and the autocorrelation properties of new quaternary cyclotomic sequences of period 2p. The sequences are constructed via the cyclotomic classes of order four.

Event signatures with two oppositely or same‐sign charged leptons are predicted in many new physics scenarios. Such events could arise from chargino‐neutralino production, in decays of pair produced supersymmetric top quarks, additional massive vector bosons or exotic heavy quarks. We present the most recent results from the CDF experiment on searches for physics beyond the Standard Model in events with two leptons in the final state produced in pp̄ collisions at s = 1.96 TeV at Fermilab Tevatron.

We present results of the search for the super-symmetric partner of the top quark, the stop quark, decaying to a b-quark and chargino with the subsequent chargino decay into a neutralino, lepton and neutrino. Using the data sample corresponding to 2.7 inv fb of integrated luminosity, collected with the CDF Detector of the Tevatron collider, we reconstruct the stop mass of candidate events and set 95% C. L. upper limits on masses of the stop quark, chargino and neutralino and the branching ratio of chargino to neutralino+lepton+neutrino.

The CDF II eXtremely Fast Tracker (XFT) is a trigger processor which reconstructs charged particle tracks in the transverse plane of the central tracking chamber. The XFT tracks are also extrapolated to the electromagnetic calorimeter and muon chambers to generate trigger electron and muon candidates. The XFT is crucial for the entire CDF II physics program: it detects high Pt lepton from W/Z and heavy flavors decay and, in conjunction with the level 2 processor, it identifies secondary vertices from beauty decay. The XFT has thus been crucial for the recent measurement of the Bs0 oscillation and Σb. The increase of the Tevatron instantaneous luminosity demanded an upgrade of the system to cope with the higher occupancy of the chamber. In the upgraded XFT, three-dimensional tracking reduces the level of fake tracks and measures the longitudinal track parameters, which strongly reinforce the trigger selection. This allows to maintain the trigger perfectly efficient at the record luminosities 2–3×1032cm-2s-1 and to maintain intact the CDF II high luminosity physics program, which includes the Higgs search. In this paper we review the architecture, the used technology, the performance and the impact of the upgraded XFT on the entire CDF II trigger strategy.

<para xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <?Pub Dtl=""?>The CDF II detector uses dedicated hardware to identify charged tracks that are used in an important class of level 1 trigger decisions. Until now, this hardware identified track segments based on patterns of hits on only the axial sense wires in the tracking chamber and determined the transverse momentum of track candidates from patterns of track segments. This identification is efficient but produces trigger rates that grow rapidly with increasing instantaneous luminosity. High trigger rates are a consequence of the large numbers of low momentum tracks produced in inelastic <formula formulatype="inline"> <tex>$p\bar p$</tex></formula> collisions which generate overlapping patterns of hits that match those expected for high-momentum tracks. A recently completed upgrade to the level 1 track trigger system makes use of information from stereo wires in the tracking chamber to reduce the rate of false triggers while maintaining high efficiency for real high momentum particles. We describe the new electronics used to instrument the additional sense wires, identify track segments and correlate these with the track candidates found by the original track trigger system. The performance of this system is characterized in terms of the efficiency for identifying charged particles and the improved rejection of axial track candidates that do not correspond to real particles. </para>

Over a decade since the discovery of the top quark we are still trying to unravel mysteries of the heaviest observed particle and learn more about its nature. The continuously accumulating statistics of CDF and Dzero data provide the means for measuring top quark properties with ever greater precision and the opportunity to search for signs of new physics that could be manifested through subtle deviations from the standard model in the production and decays of top quarks. In the following we present a slice of the rich program in top quark physics at the Fermilab Tevatron: measurements of the properties of top quark decays and searches for unusual phenomena in events with pair produced tops. In particular, we discuss the most recent and precise CDF and Dzero measurements of the transverse polarization of W bosons from top decays, branching ratios and searches for flavor-changing neutral current decays, decays into charged Higgs and invisible decays. These analyses correspond to integrated luminosities ranging from 0.9 to 2.7 inv. fb.

We present results of the search for the super-symmetric partner of the top quark, the stop quark, decaying to a b-quark and chargino with the subsequent chargino decay into a neutralino, lepton and neutrino. Using the data sample corresponding to 2.7 inv fb of integrated luminosity, collected with the CDF Detector of the Tevatron collider, we reconstruct the stop mass of candidate events and set 95% C. L. upper limits on masses of the stop quark, chargino and neutralino and the branching ratio of chargino to neutralino+lepton+neutrino.

The development of urban areas requires accurate and high-quality spatial data (SD). State pro-grams and regulations define the requirements for them: relevance, informativeness, versatility, ease of use and prompt and cheap monitoring. Existing SD in the form of topographic plans and orthomo-saics do not meet these requirements for urban areas. World experience shows that a 3D city model could solve this problem, but the costs of creating it today are large and comparable to the cost of a 1:500 scale topoplane. A new type of spatial data – a single 3D stereo model of the territory is a real alternative, since it meets the previously specified requirements, and the costs of creating it are signifi-cantly lower than other SD. Therefore, in this paper, the goal was to consider the use of a single 3D stereo model in the management of urban areas, as well as the use of the stereo photogrammetric method on specific examples. It is shown that the stereo model is an optimal product of spatial data, which is created quickly and cheaply and can be used multifunctionaly. The stereo model is used to solve such tasks as operational management of the city, without entering the territory, performing ca-dastral works, including complex cadastral works, performing an inventory of urban infrastructure ob-jects, determining the volume of major repairs of apartment buildings, creating vector models and inte-grating projected BIM models into existing infrastructure, etc. The 3D stereo model was presented at Russian and international exhibitions and forums, such as INNOPROM and "Traditions and Innova-tions", dedicated to the 10th anniversary of Rosreestr, in the period from 2017 to 2021, where it re-ceived recognition. In addition, the stereo model has already been introduced in the Republic of Bash-kortostan, the Kaliningrad and Sverdlovsk regions, the city of Izhevsk, Sarapul and others. The crea-tion and use of the stereo model is based exclusively on the Russian hardware and software complex, which allows it to be implemented for managing cities on the territory of the Russian Federation.

Over a decade since the discovery of the top quark we are still trying to unravel mysteries of the heaviest observed particle and learn more about its nature. The continuously accumulating statistics of CDF and Dzero data provide the means for measuring top quark properties with ever greater precision and the opportunity to search for signs of new physics that could be manifested through subtle deviations from the standard model in the production and decays of top quarks. In the following we present a slice of the rich program in top quark physics at the Fermilab Tevatron: measurements of the properties of top quark decays and searches for unusual phenomena in events with pair produced tops. In particular, we discuss the most recent and precise CDF and Dzero measurements of the transverse polarization of W bosons from top decays, branching ratios and searches for flavor-changing neutral current decays, decays into charged Higgs and invisible decays. These analyses correspond to integrated luminosities ranging from 0.9 to 2.7 inv. fb.

SPD (Spin Physics Detector) collaboration proposes to install a universal setup in the second interaction point of the NICA collider under construction (JINR, Dubna) to study the spin structure of the proton and deuteron. It plans to carry out research of spin-related phenomena with polarized proton and deuteron beams at a collision energy up to 27 GeV and a luminosity up to 1032 cm−2 s−1. MiniSPD stand is manufactured as a setup for testing SPD detector prototypes with cosmic muons at LHEP. It allows to carry out checkout of the Data Acquisition System (DAQ), the Detector Control System (DCS). Young physicists and students working at this test bench gain experience of work with real detectors of the future SPD setup. In this report, we give some information about the basic tasks of SPD projects. The results of simulation and comparison with data on cosmic rays at this stand for three modules of silicon plates are also presented.

After the observation of a new particle at CERN experiments, which is consistent with being the Higgs boson, the partner of the top quark is the most anticipated candidate to be discovered next. In many extensions of the standard model of particle physics the principle of naturalness dictates that the top quark partner should exist and be relatively light, at or below the TeV scale. It is hence expected to be accessible at energies and luminosities provided by the LHC machine within the next years of running. This proposal calls for supporting the effort targeting the searches for the top quark partner at the CMS experiment. We focus on scenarios and techniques that have not yet been fully explored at CMS, and that carry a large potential for new physics discovery in the immediate future. The second part of the proposal focuses on the R&D effort aiming for continuing high-quality physics program at the CMS at the high instantaneous luminosities. We propose to take one of the leading roles in the forthcoming upgrade of the Pixel detector at the CMS, and upgrade the data acquisition readout chain that would increase the data volume throughput for the new detector.

The author presents a search for anomalous kinematics of t$\bar{t}$ dilepton events in p$\bar{p}$ collisions at √s = 1.96 TeV using 193 pb-1 of data collected with the CDF II detector. They developed a new a priori technique designed to silate the subset in a data sample revealing the largest deviation from Standard Model expectations and to quantify the significance of this departure. In the four-variable space considered, no particular subset shows a significant discrepancy and they find that the probability to obtain a data sample less consistent with the Standard Model than what is observed is 1.0-4.5%.

We report on a search for anomalous kinematics of [Formula: see text] dilepton events in [Formula: see text] collisions at [Formula: see text] using 193.5 pb -1 of data collected with the CDF II detector. We developed a new a priori technique designed to isolate the subset in a data sample revealing the largest deviation from Standard Model expectations and to quantify the significance of this departure. In the four-variable space considered, no particular subset shows a significant discrepancy and we find that the probability to obtain a data sample less consistent with the Standard Model than what is observed is 1.0–4.5%.