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We present a comprehensive framework for predicting the effects of perturbations in single cells, designed to standardize benchmarking in this rapidly evolving field. Our framework, PerturBench, includes a user-friendly platform, diverse datasets, metrics for fair model comparison, and detailed performance analysis. Extensive evaluations of published and baseline models reveal limitations like mode or posterior collapse, and underscore the importance of rank metrics that assess the ordering of perturbations alongside traditional measures like RMSE. Our findings show that simple models can outperform more complex approaches. This benchmarking exercise sets new standards for model evaluation, supports robust model development, and advances the potential of these models to use high-throughput and high-content genetic and chemical screens for disease target discovery., Comment: 9 pages plus 19 pages supplementary material. Code is available at https://github.com/altoslabs/perturbench

We develop moment estimators for the parameters of affine stochastic volatility models. We first address the challenge of calculating moments for the models by introducing a recursive equation for deriving closed-form expressions for moments of any order. Consequently, we propose our moment estimators. We then establish a central limit theorem for our estimators and derive the explicit formulas for the asymptotic covariance matrix. Finally, we provide numerical results to validate our method.

Measuring grasp stability is an important skill for dexterous robot manipulation tasks, which can be inferred from haptic information with a tactile sensor. Control policies have to detect rotational displacement and slippage from tactile feedback, and determine a re-grasp strategy in term of location and force. Classic stable grasp task only trains control policies to solve for re-grasp location with objects of fixed center of gravity. In this work, we propose a revamped version of stable grasp task that optimises both re-grasp location and gripping force for objects with unknown and moving center of gravity. We tackle this task with a model-free, end-to-end Transformer-based reinforcement learning framework. We show that our approach is able to solve both objectives after training in both simulation and in a real-world setup with zero-shot transfer. We also provide performance analysis of different models to understand the dynamics of optimizing two opposing objectives., Comment: Accepted by ICIEA 2024

Large repositories of image-caption pairs are essential for the development of vision-language models. However, these datasets are often extracted from noisy data scraped from the web, and contain many mislabeled examples. In order to improve the reliability of downstream models, it is important to identify and filter images with incorrect captions. However, beyond filtering based on image-caption embedding similarity, no prior works have proposed other methods to filter noisy multimodal data, or concretely assessed the impact of noisy captioning data on downstream training. In this work, we propose LEMoN, a method to automatically identify label errors in multimodal datasets. Our method leverages the multimodal neighborhood of image-caption pairs in the latent space of contrastively pretrained multimodal models. We find that our method outperforms the baselines in label error identification, and that training on datasets filtered using our method improves downstream classification and captioning performance.

We report neutron diffraction measurements of Ca$_{0.6}$Sr$_{0.4}$MnSb$_2$, a low-carrier-density Dirac semimetal in which the antiferromagnetic Mn layers are interleaved with Sb layers that host Dirac fermions. We have discovered that we can detect a good quality inelastic spin wave signal from a small (m ~ 0.28 g) single crystal sample by the diffraction method, without energy analysis, using a neutron diffractometer with a position-sensitive area detector; the spin-waves appear as diffuse scattering that is shaped by energy-momentum conservation. By fitting this characteristic magnetic scattering to a spin-wave model, we refine all parameters of the model spin Hamiltonian, including the inter-plane interaction, through use of a three-dimensional measurement in reciprocal space. We also measure the temperature dependence of the spin waves, including the softening of the spin gap on approaching the Neel temperature, $T_N$. Not only do our results provide important new insights into an interplay of magnetism and Dirac electrons, they also establish a new, high-throughput approach to characterizing magnetic excitations on a modern diffractometer without direct energy analysis. Our work opens exciting new opportunities for the follow-up parametric and compositional studies on small, ~0.1 g crystals., Comment: 6 pages including 4 figures and bibliography plus 13-page supplementary with figures S1-S11

Recently, new types of interference in electric vehicles (EVs), such as converters switching and/or battery chargers, have been found to degrade the performance of wireless digital transmission systems. Measurements show that such an interference is characterized by impulsive behavior and is widely varying in time. This paper uses recorded data from our EV testbed to analyze the impulsive interference in the digital audio broadcasting band. Moreover, we use our analysis to obtain a corresponding interference model. In particular, we studied the temporal characteristics of the interference and confirmed that its amplitude indeed exhibits an impulsive behavior. Our results show that impulsive events span successive received signal samples and thus indicate a bursty nature. To this end, we performed a data-driven modification of a well-established model for bursty impulsive interference, the Markov-Middleton model, to produce synthetic noise realization. We investigate the optimal symbol detector design based on the proposed model and show significant performance gains compared to the conventional detector based on the additive white Gaussian noise assumption., Comment: 44th Symposium on Information Theory and Signal Processing in the Benelux (SITB 2024), Delft, the Netherlands

We developed machine learning approaches for data-driven trellis-based soft symbol detection in coded transmission over intersymbol interference (ISI) channels in presence of bursty impulsive noise (IN), for example encountered in wireless digital broadcasting systems and vehicular communications. This enabled us to obtain optimized detectors based on the Bahl-Cocke-Jelinek-Raviv (BCJR) algorithm while circumventing the use of full channel state information (CSI) for computing likelihoods and trellis state transition probabilities. First, we extended the application of the neural network (NN)-aided BCJR, recently proposed for ISI channels with additive white Gaussian noise (AWGN). Although suitable for estimating likelihoods via labeling of transmission sequences, the BCJR-NN method does not provide a framework for learning the trellis state transitions. In addition to detection over the joint ISI and IN states we also focused on another scenario where trellis transitions are not trivial: detection for the ISI channel with AWGN with inaccurate knowledge of the channel memory at the receiver. Without access to the accurate state transition matrix, the BCJR- NN performance significantly degrades in both settings. To this end, we devised an alternative approach for data-driven BCJR detection based on the unsupervised learning of a hidden Markov model (HMM). The BCJR-HMM allowed us to optimize both the likelihood function and the state transition matrix without labeling. Moreover, we demonstrated the viability of a hybrid NN and HMM BCJR detection where NN is used for learning the likelihoods, while the state transitions are optimized via HMM. While reducing the required prior channel knowledge, the examined data-driven detectors with learned trellis state transitions achieve bit error rates close to the optimal full CSI-based BCJR, significantly outperforming detection with inaccurate CSI., Comment: This work has been submitted to the IEEE for possible publication

Object detection methods under known single degradations have been extensively investigated. However, existing approaches require prior knowledge of the degradation type and train a separate model for each, limiting their practical applications in unpredictable environments. To address this challenge, we propose a chain-of-thought (CoT) prompted adaptive enhancer, CPA-Enhancer, for object detection under unknown degradations. Specifically, CPA-Enhancer progressively adapts its enhancement strategy under the step-by-step guidance of CoT prompts, that encode degradation-related information. To the best of our knowledge, it's the first work that exploits CoT prompting for object detection tasks. Overall, CPA-Enhancer is a plug-and-play enhancement model that can be integrated into any generic detectors to achieve substantial gains on degraded images, without knowing the degradation type priorly. Experimental results demonstrate that CPA-Enhancer not only sets the new state of the art for object detection but also boosts the performance of other downstream vision tasks under unknown degradations.

We report neutron diffraction results for the body-centered-tetragonal series Eu(Co$_{1-x}$Ni$_x$)$_{2-y}$As$_2$, $x=0.10$, $0.20$, $0.42$, and $0.82$, $y\leq0.10$, that detail changes to the magnetic ordering with nominal hole doping. We report the antiferromagnetic (AFM) propagation vectors, magnetic transition temperatures, and the ordered magnetic moments. We find a nonmonotonic change of the AFM propagation vector with $x$, with a minimum occurring at the tetragonal to collapsed-tetragonal phase crossover. For $x=0.10$ and $0.82$ we find $c$-axis helix ordering of the Eu magnetic moments (spins) similar to $x=0$ and $1$, with the spins oriented within the $ab$-plane. For $x=0.20$ and $0.42$ we find higher-temperature $c$-axis FM order and lower-temperature $c$-axis cone order. Using the extinction conditions for the space group, we discovered that the Eu spins are ordered in the higher-temperature $c$-axis FM phase for intermediate values of $x$, contrary to a previous report suggesting only Co/Ni spin ordering. Although we cannot directly confirm that the Co/Ni spins are also ordered, we suggest that $c$-axis itinerant-FM ordering of the Co/Ni spins could provide a molecular field that drives FM ordering of the Eu spins, which in turn provides the anisotropy for the lower-temperature $c$-axis cone order.

Recently, representation learning over graph networks has gained popularity, with various models showing promising results. Despite this, several challenges persist: 1) most methods are designed for static or discrete-time dynamic graphs; 2) existing continuous-time dynamic graph algorithms focus on a single evolving perspective; and 3) many continuous-time dynamic graph approaches necessitate numerous temporal neighbors to capture long-term dependencies. In response, this paper introduces the Multi-Perspective Feedback-Attention Coupling (MPFA) model. MPFA incorporates information from both evolving and raw perspectives, efficiently learning the interleaved dynamics of observed processes. The evolving perspective employs temporal self-attention to distinguish continuously evolving temporal neighbors for information aggregation. Through dynamic updates, this perspective can capture long-term dependencies using a small number of temporal neighbors. Meanwhile, the raw perspective utilizes a feedback attention module with growth characteristic coefficients to aggregate raw neighborhood information. Experimental results on a self-organizing dataset and seven public datasets validate the efficacy and competitiveness of our proposed model.

Observing 3D magnetic fields, including orientation and strength, within the interstellar medium is vital but notoriously difficult. However, recent advances in our understanding of anisotropic magnetohydrodynamic (MHD) turbulence demonstrate that MHD turbulence and 3D magnetic fields leave their imprints on the intensity features of spectroscopic observations. Leveraging these theoretical frameworks, we propose a novel Convolutional Neural Network (CNN) model to extract this embedded information, enabling the probe of 3D magnetic fields. This model examines not only the plane-of-the-sky magnetic field orientation ($\phi$), but also the magnetic field's inclination angle ($\gamma$) relative to the line-of-sight, and the total magnetization level (M$_A^{-1}$) of the cloud. We train the model using synthetic emission lines of $^{13}$CO (J = 1 - 0) and C$^{18}$O (J = 1 - 0), generated from 3D MHD simulations that span conditions from sub-Alfv\'enic to super-Alfv\'enic molecular clouds. Our tests confirm that the CNN model effectively reconstructs the 3D magnetic field topology and magnetization. The median uncertainties are under $5^\circ$ for both $\phi$ and $\gamma$, and less than 0.2 for M$_A$ in sub-Alfv\'enic conditions (M$_A\approx0.5$). In super-Alfv\'enic scenarios (M$_A\approx2.0$), they are under $15^\circ$ for $\phi$ and $\gamma$, and 1.5 for M$_A$. We applied this trained CNN model to the L1478 molecular cloud. Results show a strong agreement between the CNN-predicted magnetic field orientation and that derived from Planck 353 GHz polarization data. The CNN approach enabled us to construct the 3D magnetic field map for L1478, revealing a global inclination angle of $\approx76^\circ$ and a global M$_A$ of $\approx1.07$., Comment: 17 pages, 13 figures, accepted for publication in MNRAS

Modelling temporal networks for dynamic link prediction of new nodes has many real-world applications, such as providing relevant item recommendations to new customers in recommender systems and suggesting appropriate posts to new users on social platforms. Unlike old nodes, new nodes have few historical links, which poses a challenge for the dynamic link prediction task. Most existing dynamic models treat all nodes equally and are not specialized for new nodes, resulting in suboptimal performances. In this paper, we consider dynamic link prediction of new nodes as a few-shot problem and propose a novel model based on the meta-learning principle to effectively mitigate this problem. Specifically, we develop a temporal encoder with a node-level span memory to obtain a new node embedding, and then we use a predictor to determine whether the new node generates a link. To overcome the few-shot challenge, we incorporate the encoder-predictor into the meta-learning paradigm, which can learn two types of implicit information during the formation of the temporal network through span adaptation and node adaptation. The acquired implicit information can serve as model initialisation and facilitate rapid adaptation to new nodes through a fine-tuning process on just a few links. Experiments on three publicly available datasets demonstrate the superior performance of our model compared to existing state-of-the-art methods.