Miracle-dz/UniFAR-FTUs huggingface dataset:
THREE-DIMENSIONAL SIMULATIONS OF GYROSYNCHROTRON EMISSION FROM MILDLY ANISOTROPIC NONUNIFORM ELECTRON DISTRIBUTIONS IN SYMMETRIC MAGNETIC LOOPS

Microwave emission of solar flares is formed primarily by incoherent gyrosynchrotron radiation generated by accelerated electrons in coronal magnetic loops. The resulting emission depends on many factors, including pitch-angle distribution of the emitting electrons and the source geometry. In this work, we perform systematic simulations of solar microwave emission using recently developed tools (GS Simulator and fast gyrosynchrotron codes) capable of simulating maps of radio brightness and polarization as well as spatially resolved emission spectra. A three-dimensional model of a symmetric dipole magnetic loop is used. We compare the emission from isotropic and anisotropic (of loss-cone type) electron distributions. We also investigate effects caused by inhomogeneous distribution of the emitting particles along the loop. It is found that the effect of the adopted moderate electron anisotropy is the most pronounced near the footpoints and it also depends strongly on the loop orientation. Concentration of the emitting particles at the looptop results in a corresponding spatial shift of the radio brightness peak, thus reducing effects of the anisotropy. The high-frequency (≳ 50 GHz) emission spectral index is specified mainly by the energy spectrum of the emitting electrons; however, at intermediate frequencies (around 10–20 GHz), the spectrum shape is strongly dependent on the electron anisotropy, spatial distribution, and magnetic field nonuniformity. The implications of the obtained results for the diagnostics of the energetic electrons in solar flares are discussed.
Relatively Very Free Curves and Rational Simple Connectedness

Given a morphism between smooth projective varieties $f: W \to X$, we study whether $f$-relatively free rational curves imply the existence of $f$-relatively very free rational curves. The answer is shown to be positive when the fibers of the map $f$ have Picard number 1 and a further smoothness assumption is imposed. The main application is when $X \subset \PP^n$ is a smooth complete intersection of type $(d_1, ., d_c)$ and $\sum d_i^2 \leq n$. In this case, we take $W$ to be the space of pointed lines contained in $X$ and the positive answer to the question implies that $X$ contains very twisting ruled surfaces and is strongly rationally simply connected. If the fibers of a smooth family of varieties over a 2-dimensional base satisfy these conditions and the Brauer obstruction vanishes, then the family has a rational section (see \cite{dJHS})
A simple proof of convergence to the Hartree dynamics in Sobolev trace norms

The derivation of the Hartree equation from many-body systems of Bosons in the mean field limit has been very intensively studied in the last couple of years. However, very few results exist showing convergence of the k-th marginal of the N-body density matrix to the projection to the k-fold tensor product of the solution of the Hartree equation in stronger trace norms like the energy trace norm, see \cite{MS}, \cite{Lu}. This issue is from a physical view point very important. The reason is that one can then approximate expectation values of certain observables of the N-body system by means of the Hartree equation, with relaxation of the very restrictive assumption that the observables are bounded operators. Here we consider the non-relativistic case. We prove, assuming only H^1-regularity of the initial data, convergence in the energy trace norm without rates, and convergence in any other weaker Sobolev trace norm with rates. Our proof is simple and uses the functional $a_N$ introduced by Pickl in \cite{Pi}.
Topology and homotopy of lattice isomorphic arrangements

We prove the existence of lattice isomorphic line arrangements having π 1 \pi _1 -equivalent or homotopy-equivalent complements and non-homeomorphic embeddings in the complex projective plane. We also provide two explicit examples: one is formed by real-complexified arrangements, while the second is not.
Starbursts and black hole masses in X-shaped radio galaxies: Signatures of a merger event?

We present new spectroscopic identifications of 12 X-shaped radio galaxies and use the spectral data to derive starburst histories and masses of the nuclear supermassive black holes in these galaxies. The observations were done with the 2.1-m telescope of the Observatorio Astronomico Nacional at San Pedro Martir, Mexico. The new spectroscopic results extend the sample of X-shaped radio galaxies studied with optical spectroscopy. We show that the combined sample of the X-shaped radio galaxies has statistically higher black-hole masses and older episodes of star formation than a control sample of canonical double-lobed radio sources with similar redshifts and luminosities. The data reveal enhanced star-formation activity in the X-shaped sample on the timescales expected in galactic mergers. We discuss the results obtained in the framework of the merger scenario.
ULTRA-COMPACT DWARFS IN THE CORE OF THE COMA CLUSTER

We have discovered both a red and a blue subpopulation of ultra-compact dwarf (UCD) galaxy candidates in the Coma galaxy cluster. We analyzed deep F475W (Sloan g) and F814W (I) Hubble Space Telescope images obtained with the Advanced Camera for Surveys Wide Field Channel as part of the Coma Cluster Treasury Survey and have fitted the light profiles of ∼5000 point-like sources in the vicinity of NGC 4874, one of the two central dominant galaxies of the Coma Cluster. Although almost all of these sources are globular clusters that remain unresolved, we found that 52 objects have effective radii between ∼10 and 66 pc, in the range spanned by dwarf globular transition objects (DGTOs) and UCDs. Of these 52 compact objects, 25 are brighter than MV ∼ −11 mag, a magnitude conventionally thought to separate UCDs and globular clusters. The UCD/DGTO candidates have the same color and luminosity distribution as the most luminous globular clusters within the red and blue subpopulations of the immensely rich NGC 4874 globular cluster system. Unlike standard globular clusters, blue and red UCD/DGTO subpopulations have the same median effective radius. The spatial distribution of UCD/DGTO candidates reveals that they congregate toward NGC 4874 and are not uniformly distributed. We find a relative deficit of UCD/DGTOs compared with globular clusters in the inner 15 kpc around NGC 4874; however, at larger radii UCD/DGTO and globular clusters follow the same spatial distribution.
Charged Particle Motion in a Plasma: Electron-Ion Energy Partition

A fast charged particle traversing a plasma loses its energy to both the electrons and the ions in the plasma. We compute the energy partition, the fractions Ee/E0 and EI/E0 of the initial energy E0 of this ‘impurity particle’ that are deposited into the electrons and ions when it has slowed down into an equilibrium distribution that we shall determine. We do this using a well-defined FokkerPlanck equation for the phase space distribution of the charged impurity particles in a weakly to moderately coupled plasma. The Fokker-Planck equation holds to first sub-leading order in the dimensionless plasma coupling constant, which translates to computing to order nlnn (leading) and n (sub-leading) in the plasma density n. Previously, the order n terms have been estimated, not calculated. Since the charged particle does not come to rest, but rather comes into a statistical distribution, the energy loss obtained by a simple integration of a dE/dx has an ambiguity on the order of the plasma temperature. Our Fokker-Planck formulation provides an unambiguous, precise definition of the energy fractions. For equal electron and ion temperatures, we find that our precise results agree well with a fit obtained by Fraley, Linnebur, Mason, and Morse. The case with differing electron and ion temperatures, a case of great importance for nuclear fusion, will be investigated in detail in the present paper. The energy partitions for this general case, partitions that have not been obtained before, will be presented. We find that now the proper solution of the Fokker-Planck equation yields a quasi-static equilibrium distribution to which fast particles relax that has neither the electron nor the ion temperature. This “schizophrenic” final ensemble of slowed particles gives a new mechanism to bring the electron and ion temperatures together. The rate at which this new mechanism brings the electrons and ions in the plasma into thermal equilibrium will be computed.
Heat kernel estimates for an operator with a singular drift and isoperimetric inequalities

We prove upper and lower bounds of the heat kernel for the operator $\Delta-\nabla (\frac{1}{|x|^{\alpha}})\cdot \nabla $ in $\mathbb{R}^{n}\setminus\{0} $ where $\alpha >0$. We obtain these bounds from an isoperimetric inequality for a measure $\mathrm{e}^{-\frac{1}{|x|^{\alpha}}}dx$ on $\mathbb{R}^{n}\setminus \{0\}$. The latter amounts to a certain functional isoperimetric inequality for the radial part of this measure.
Long Paths and Hamiltonian paths in Inhomogenous Random Graphs

In this paper, we study long paths and Hamiltonian paths in inhomogenous random graphs. In the first part of the paper, we consider an inhomogenous Erdős-Renyi random graph $G_E$ with average edge density $p_n. $ We prove that if $np_n^2 \longrightarrow \infty$ as $n \rightarrow \infty,$ then the longest path contains at least $n-ne^{-\delta_1 np_n^2}$ nodes with high probability (i.e., with probability converging to one as $n \rightarrow \infty$), for some constant $\delta_1> 0 . $ In particular, if $np_n^2 = M\log{n}$ for some constant $M > 0$ large, then $G_E$ is Hamiltonian with high probability; i.e., the longest path contains all the nodes of $G_E. $ In the second part of the paper, we consider a random geometric graph $G_R$ consisting of $n$ nodes, each independently distributed according to a (not necessarily uniform) density $f. $ If $r_n$ is the connectivity radius and $nr_n^2 \longrightarrow \infty,$ then with high probability, the longest cycle contains at least $n-ne^{-\delta_2 nr_n^2}$ nodes for some constant $\delta_2 > 0. $ As a consequence of our proof, we obtain that if $nr_n^2 = \log{n} + 7\log{\log{n}} + \omega_n$ and $\omega_n \longrightarrow \infty$ as $n \rightarrow \infty,$ then with high probability $G_R$ contains a Hamiltonian cycle.
rHARM: ACCRETION AND EJECTION IN RESISTIVE GR-MHD

Turbulent magnetic diffusivity plays an important role for accretion disks and the launching of disk winds. We have implemented magnetic diffusivity and respective resistivity in the general relativistic MHD code HARM. This paper describes the theoretical background of our implementation, its numerical realization, our numerical tests, and preliminary applications. The test simulations of the new code rHARM are compared to an analytic solution of the diffusion equation and a classical shock tube problem. We have further investigated the evolution of the magnetorotational instability (MRI) in tori around black holes (BHs) for a range of magnetic diffusivities. We find an indication for a critical magnetic diffusivity (for our setup) beyond which no MRI develops in the linear regime and for which accretion of torus material to the BH is delayed. Preliminary simulations of magnetically diffusive thin accretion disks around Schwarzschild BHs that are threaded by a large-scale poloidal magnetic field show the launching of disk winds with mass fluxes of about 50% of the accretion rate. The disk magnetic diffusivity allows for efficient disk accretion that replenishes the mass reservoir of the inner disk area and thus allows for long-term simulations of wind launching for more than 5000 time units.
Branching within branching II: Limit theorems

This continues work started in (4) on a general branching-within-branching model for host-parasite co-evolution. Here we focus on asymptotic results for rele- vant processes in the case when parasites survive. In particular, limit theorems for the processes of contaminated cells and of parasites are established by using martin- gale theory and the technique of size-biasing. The results for both processes are of Kesten-Stigum type by including equivalent integrability conditions for the martin- gale limits to be positive with positive probability. The case when these conditions fail is also studied. For the process of contaminated cells, we show that a proper Heyde-Seneta norming exists such that the limit is nondegenerate.
CALIFA, the Calar Alto Legacy Integral Field Area survey - III. Second public data release

This paper describes the Second Public Data Release (DR2) of the Calar Alto Legacy Integral Field Area (CALIFA) survey. The data for 200 objects are made public, including the 100 galaxies of the First Public Data Release (DR1). Data were obtained with the integral-field spectrograph PMAS /PPak mounted on the 3.5 m telescope at the Calar Alto observatory. Two different spectral setups are available for each galaxy, (i) a low-resolution V500 setup covering the wavelength range 3745-7500 A with a spectral resolution of 6.0 A (FWHM); and (ii) a medium-resolution V1200 setup covering the wavelength range 3650-4840 A with a spectral resolution of 2.3 A (FWHM). The sample covers a redshift range between 0.005 and 0.03, with a wide range of properties in the color-magnitude diagram, stellar mass, ionization conditions, and morphological types. All the cubes in the data release were reduced with the latest pipeline, which includes improved spectrophotometric calibration, spatial registration, and spatial resolution. The spectrophotometric calibration is better than 6% and the median spatial resolution is 2´´ 4. In total, the second data release contains over 1.5 million spectra.
SPECTROSCOPIC CONFIRMATION OF THREE z-DROPOUT GALAXIES AT z = 6.844–7.213: DEMOGRAPHICS OF Lyα EMISSION IN z ∼ 7 GALAXIES

We present the results of our ultra-deep Keck/DEIMOS spectroscopy of z-dropout galaxies in the Subaru Deep Field and Great Observatories Origins Deep Survey's northern field. For 3 out of 11 objects, we detect an emission line at ∼1 μm with a signal-to-noise ratio of ∼10. The lines show asymmetric profiles with high weighted skewness values, consistent with being Lyα, yielding redshifts of z = 7.213, 6.965, and 6.844. Specifically, we confirm the z = 7.213 object in two independent DEIMOS runs with different spectroscopic configurations. The z = 6.965 object is a known Lyα emitter, IOK-1, for which our improved spectrum at a higher resolution yields a robust skewness measurement. The three z-dropouts have Lyα fluxes of 3 × 10−17 erg s−1 cm−2 and rest-frame equivalent widths EWLyα0 = 33–43 Å. Based on the largest spectroscopic sample of 43 z-dropouts, which is the combination of our and previous data, we find that the fraction of Lyα-emitting galaxies (EWLyα0 > 25 Å) is low at z ∼ 7; 17% ± 10% and 24% ± 12% for bright (MUV ≃ −21) and faint (MUV ≃ −19.5) galaxies, respectively. The fractions of Lyα-emitting galaxies drop from z ∼ 6 to 7 and the amplitude of the drop is larger for faint galaxies than for bright galaxies. These two pieces of evidence would indicate that the neutral hydrogen fraction of the intergalactic medium increases from z ∼ 6 to 7 and that the reionization proceeds from high- to low-density environments, as suggested by an inside-out reionization model.
Structural basis for ubiquitylation by HOIL-1

The linear ubiquitin chain assembly complex (LUBAC) synthesises linear Ub chains which constitute a binding and activation platform for components of the TNF signalling pathway. One of the components of LUBAC is the ubiquitin ligase HOIL-1 which has been shown to generate oxyester linkages on several proteins and on linear polysaccharides. Here we describe the crystal structure of a C-terminal tandem domain construct of HOIL-1 comprising the IBR and RING2 domains. The structure adopts an auto-inhibited conformation in which the catalytic cysteine of the RING2 domain is shielded by the adjacent IBR domain. Activation of HOIL-1 is triggered by linear tetra-Ub binding which enables HOIL-1 to mono-ubiquitylate linear Ub chains and polysaccharides. Interestingly, the structure reveals a unique bi-nuclear Zn-cluster which substitutes the second zinc finger of the canonical RING2 fold. We identify the C-terminal histidine of this bi-nuclear Zn-cluster as the catalytic base required for the ubiquitylation activity of HOIL-1. Our study suggests that the unique zinc-coordinating architecture of RING2 provides a binding platform for ubiquitylation targets.
Catch bonds in sickle cell disease: shear-enhanced adhesion of red blood cells to laminin

Could the phenomenon of catch bonding—force-strengthened cellular adhesion—play a role in sickle cell disease, where abnormal red blood cell (RBC) adhesion obstructs blood flow? Here we investigate the dynamics of sickle RBCs adhering to a surface functionalized with the protein laminin (a component of the extracellular matrix around blood vessels) under physiologically relevant micro-scale flow. First, using total internal reflectance microscopy we characterize the spatial fluctuations of the RBC membrane above the laminin surface before detachment. The complex dynamics we observe suggest the possibility of catch bonding, where the mean detachment time of the cell from the surface initially increases to a maximum and then decreases as a function of shear force. We next conduct a series of shear-induced detachment experiments on blood samples from 25 sickle cell disease patients, quantifying the number and duration of adhered cells under both sudden force jumps and linear force ramps. The experiments reveal that a subset of patients does indeed exhibit catch bonding. By fitting the data to a theoretical model of the bond dynamics, we can extract the mean bond lifetime versus force for each patient. The results show a striking heterogeneity among patients, both in terms of the qualitative behavior (whether or not there is catch bonding) and in the magnitudes of the lifetimes. Patients with large bond lifetimes at physiological forces are more likely to have certain adverse clinical features, like a diagnosis of pulmonary arterial hypertension and intracardiac shunts. By introducing an in vitro platform for fully characterizing RBC-laminin adhesion dynamics, our approach could contribute to the development of patient-specific anti-adhesive therapies for sickle cell disease. The experimental setup is also easily generalizable to studying adhesion dynamics in other cell types, for example leukocytes or cancer cells, and can incorporate disease-relevant environmental conditions like oxygen deprivation. SIGNIFICANCE Abnormal red blood cell adhesion to the walls of blood vessels is a central feature of sickle cell disease. We study this adhesion by experimentally measuring how long on average red blood cells adhere to a protein-covered surface, and how the strength of the cell-protein bond depends on the force resulting from the surrounding fluid flow. The results vary widely from patient to patient, with some cases showing an unusual regime where the mean bond strength increases with force. We connect these measurements to clinical aspects of the disease, which may aid in the design of individualized therapies in the future.
Serial dependence in timing at the perceptual level being modulated by working memory

Recent experiences bias the perception of following stimuli, as has been verified in various kinds of experiments in visual perception. This phenomenon, known as serial dependence, may reflect mechanisms to maintain perceptual stability. In the current study, we examined several key properties of serial dependence in temporal perception. Firstly, we examined the source of serial dependence effect in temporal perception. We found that perception without motor reproduction is sufficient to induce the sequential effect; the motor reproduction caused a stronger effect and it is achieved by biasing the perception of the future target duration rather than directly influences the subsequent movement. Secondly, we ask how the working memory influences serial dependence in the in a temporal reproduction task. By varying the delay time between standard duration and the reproduction, we showed that the strength of serial dependence enhanced as the delay increased. Those features of serial dependence are consistent with what has been observed in the visual perceptual tasks, for example, orientation perception or location perception. The similarities between the visual and the timing tasks may suggest a similar neural coding mechanism of magnitude between the visual stimuli and the duration.
INSIDER: Interpretable Sparse Matrix Decomposition for Bulk RNA Expression Data Analysis

RNA-Seq is widely used to capture transcriptome dynamics across tissues from different biological entities even across biological conditions, with the aim of understanding the contribution of gene activities to phenotypes of biosamples. However, due to variation from tissues and biological entities (or other biological conditions), joint analysis of bulk RNA expression profiles across multiple tissues from a number of biological entities to achieve the aim is hindered. Moreover, it is crucial to consider interactions between biological variables. For example, different brain disorders may affect brain regions heterogeneously. Thus, modeling the disorder-region interaction can shed light on the heterogeneity. To address these key challenges, we propose a general and flexible statistical framework based on matrix factorization, named INSIDER (https://github.com/kai0511/insider). INSIDER decomposes variation from different biological variables into a shared low-rank latent space. In particular, it considers interactions between biological variables and introduces the elastic net penalty to induce sparsity, thus facilitating interpretation. In the framework, the biological variables and interaction terms can be defined based on the research questions and study design. Besides, it enables us to compute the ‘adjusted’ expression profiles for biological variables that control variation from other biological variables. Lastly, it allows various downstream analyses, such as clustering donors with donor representations, revealing development trajectory in its application to the BrainSpan data, and uncovering mechanisms underlying variables like phenotype and interactions between biological variables (e.g., phenotypes and tissues).