pwc-archive/papers-with-abstracts huggingface dataset:
Making Self-supervised Learning Robust to Spurious Correlation via Learning-speed Aware Sampling
Authors: Weicheng Zhu, Sheng Liu, Carlos Fernandez-Granda, Narges Razavian
Date: 2023-11-27 00:00:00
Tasks: Self-Supervised Learning

Self-supervised learning (SSL) has emerged as a powerful technique for learning rich representations from unlabeled data. The data representations are able to capture many underlying attributes of data, and be useful in downstream prediction tasks. In real-world settings, spurious correlations between some attributes (e.g. race, gender and age) and labels for downstream tasks often exist, e.g. cancer is usually more prevalent among elderly patients. In this paper, we investigate SSL in the presence of spurious correlations and show that the SSL training loss can be minimized by capturing only a subset of the conspicuous features relevant to those sensitive attributes, despite the presence of other important predictive features for the downstream tasks. To address this issue, we investigate the learning dynamics of SSL and observe that the learning is slower for samples that conflict with such correlations (e.g. elder patients without cancer). Motivated by these findings, we propose a learning-speed aware SSL (LA-SSL) approach, in which we sample each training data with a probability that is inversely related to its learning speed. We evaluate LA-SSL on three datasets that exhibit spurious correlations between different attributes, demonstrating that it improves the robustness of pretrained representations on downstream classification tasks.
Cross Entropy in Deep Learning of Classifiers Is Unnecessary -- ISBE Error is All You Need
Authors: Wladyslaw Skarbek
Date: 2023-11-27 00:00:00
Tasks: All

In deep learning classifiers, the cost function usually takes the form of a combination of SoftMax and CrossEntropy functions. The SoftMax unit transforms the scores predicted by the model network into assessments of the degree (probabilities) of an object's membership to a given class. On the other hand, CrossEntropy measures the divergence of this prediction from the distribution of target scores. This work introduces the ISBE functionality, justifying the thesis about the redundancy of cross entropy computation in deep learning of classifiers. Not only can we omit the calculation of entropy, but also, during back-propagation, there is no need to direct the error to the normalization unit for its backward transformation. Instead, the error is sent directly to the model's network. Using examples of perceptron and convolutional networks as classifiers of images from the MNIST collection, it is observed for ISBE that results are not degraded with SoftMax only, but also with other activation functions such as Sigmoid, Tanh, or their hard variants HardSigmoid and HardTanh. Moreover, up to three percent of time is saved within the total time of forward and backward stages. The article is addressed mainly to programmers and students interested in deep model learning. For example, it illustrates in code snippets possible ways to implement ISBE units, but also formally proves that the softmax trick only applies to the class of softmax functions with relocations.
From Reactive to Proactive Volatility Modeling with Hemisphere Neural Networks
Authors: Philippe Goulet Coulombe, Mikael Frenette, Karin Klieber
Date: 2023-11-27 00:00:00

We reinvigorate maximum likelihood estimation (MLE) for macroeconomic density forecasting through a novel neural network architecture with dedicated mean and variance hemispheres. Our architecture features several key ingredients making MLE work in this context. First, the hemispheres share a common core at the entrance of the network which accommodates for various forms of time variation in the error variance. Second, we introduce a volatility emphasis constraint that breaks mean/variance indeterminacy in this class of overparametrized nonlinear models. Third, we conduct a blocked out-of-bag reality check to curb overfitting in both conditional moments. Fourth, the algorithm utilizes standard deep learning software and thus handles large data sets - both computationally and statistically. Ergo, our Hemisphere Neural Network (HNN) provides proactive volatility forecasts based on leading indicators when it can, and reactive volatility based on the magnitude of previous prediction errors when it must. We evaluate point and density forecasts with an extensive out-of-sample experiment and benchmark against a suite of models ranging from classics to more modern machine learning-based offerings. In all cases, HNN fares well by consistently providing accurate mean/variance forecasts for all targets and horizons. Studying the resulting volatility paths reveals its versatility, while probabilistic forecasting evaluation metrics showcase its enviable reliability. Finally, we also demonstrate how this machinery can be merged with other structured deep learning models by revisiting Goulet Coulombe (2022)'s Neural Phillips Curve.
Target-Free Compound Activity Prediction via Few-Shot Learning
Authors: Peter Eckmann, Jake Anderson, Michael K. Gilson, Rose Yu
Date: 2023-11-27 00:00:00
Tasks: Activity Prediction, Drug Discovery, Few-Shot Learning, Prediction

Predicting the activities of compounds against protein-based or phenotypic assays using only a few known compounds and their activities is a common task in target-free drug discovery. Existing few-shot learning approaches are limited to predicting binary labels (active/inactive). However, in real-world drug discovery, degrees of compound activity are highly relevant. We study Few-Shot Compound Activity Prediction (FS-CAP) and design a novel neural architecture to meta-learn continuous compound activities across large bioactivity datasets. Our model aggregates encodings generated from the known compounds and their activities to capture assay information. We also introduce a separate encoder for the unknown compound. We show that FS-CAP surpasses traditional similarity-based techniques as well as other state of the art few-shot learning methods on a variety of target-free drug discovery settings and datasets.
Comprehensive Benchmarking of Entropy and Margin Based Scoring Metrics for Data Selection
Authors: Anusha Sabbineni, Nikhil Anand, Maria Minakova
Date: 2023-11-27 00:00:00
Tasks: Active Learning, Benchmarking, Data Augmentation, domain classification

While data selection methods have been studied extensively in active learning, data pruning, and data augmentation settings, there is little evidence for the efficacy of these methods in industry scale settings, particularly in low-resource languages. Our work presents ways of assessing prospective training examples in those settings for their "usefulness" or "difficulty". We also demonstrate how these measures can be used in selecting important examples for training supervised machine learning models. We primarily experiment with entropy and Error L2-Norm (EL2N) scores. We use these metrics to curate high quality datasets from a large pool of \textit{Weak Signal Labeled} data, which assigns no-defect high confidence hypotheses during inference as ground truth labels. We then conduct training data augmentation experiments using these de-identified datasets and demonstrate that score-based selection can result in a 2% decrease in semantic error rate and 4%-7% decrease in domain classification error rate when compared to the baseline technique of random selection.
Influence Scores at Scale for Efficient Language Data Sampling
Authors: Nikhil Anand, Joshua Tan, Maria Minakova
Date: 2023-11-27 00:00:00

Modern ML systems ingest data aggregated from diverse sources, such as synthetic, human-annotated, and live customer traffic. Understanding \textit{which} examples are important to the performance of a learning algorithm is crucial for efficient model training. Recently, a growing body of literature has given rise to various "influence scores," which use training artifacts such as model confidence or checkpointed gradients to identify important subsets of data. However, these methods have primarily been developed in computer vision settings, and it remains unclear how well they generalize to language-based tasks using pretrained models. In this paper, we explore the applicability of influence scores in language classification tasks. We evaluate a diverse subset of these scores on the SNLI dataset by quantifying accuracy changes in response to pruning training data through random and influence-score-based sampling. We then stress-test one of the scores -- "variance of gradients" (VoG) from Agarwal et al. (2022) -- in an NLU model stack that was exposed to dynamic user speech patterns in a voice assistant type of setting. Our experiments demonstrate that in many cases, encoder-based language models can be finetuned on roughly 50% of the original data without degradation in performance metrics. Along the way, we summarize lessons learned from applying out-of-the-box implementations of influence scores, quantify the effects of noisy and class-imbalanced data, and offer recommendations on score-based sampling for better accuracy and training efficiency.
Quantum-classical simulation of quantum field theory by quantum circuit learning
Authors: Kazuki Ikeda
Date: 2023-11-27 00:00:00

We employ quantum circuit learning to simulate quantum field theories (QFTs). Typically, when simulating QFTs with quantum computers, we encounter significant challenges due to the technical limitations of quantum devices when implementing the Hamiltonian using Pauli spin matrices. To address this challenge, we leverage quantum circuit learning, employing a compact configuration of qubits and low-depth quantum circuits to predict real-time dynamics in quantum field theories. The key advantage of this approach is that a single-qubit measurement can accurately forecast various physical parameters, including fully-connected operators. To demonstrate the effectiveness of our method, we use it to predict quench dynamics, chiral dynamics and jet production in a 1+1-dimensional model of quantum electrodynamics. We find that our predictions closely align with the results of rigorous classical calculations, exhibiting a high degree of accuracy. This hybrid quantum-classical approach illustrates the feasibility of efficiently simulating large-scale QFTs on cutting-edge quantum devices.
A statistical approach to latent dynamic modeling with differential equations
Authors: Maren Hackenberg, Astrid Pechmann, Clemens Kreutz, Janbernd Kirschner, Harald Binder
Date: 2023-11-27 00:00:00

Ordinary differential equations (ODEs) can provide mechanistic models of temporally local changes of processes, where parameters are often informed by external knowledge. While ODEs are popular in systems modeling, they are less established for statistical modeling of longitudinal cohort data, e.g., in a clinical setting. Yet, modeling of local changes could also be attractive for assessing the trajectory of an individual in a cohort in the immediate future given its current status, where ODE parameters could be informed by further characteristics of the individual. However, several hurdles so far limit such use of ODEs, as compared to regression-based function fitting approaches. The potentially higher level of noise in cohort data might be detrimental to ODEs, as the shape of the ODE solution heavily depends on the initial value. In addition, larger numbers of variables multiply such problems and might be difficult to handle for ODEs. To address this, we propose to use each observation in the course of time as the initial value to obtain multiple local ODE solutions and build a combined estimator of the underlying dynamics. Neural networks are used for obtaining a low-dimensional latent space for dynamic modeling from a potentially large number of variables, and for obtaining patient-specific ODE parameters from baseline variables. Simultaneous identification of dynamic models and of a latent space is enabled by recently developed differentiable programming techniques. We illustrate the proposed approach in an application with spinal muscular atrophy patients and a corresponding simulation study. In particular, modeling of local changes in health status at any point in time is contrasted to the interpretation of functions obtained from a global regression. This more generally highlights how different application settings might demand different modeling strategies.
DGR: Tackling Drifted and Correlated Noise in Quantum Error Correction via Decoding Graph Re-weighting
Authors: Hanrui Wang, Pengyu Liu, Yilian Liu, Jiaqi Gu, Jonathan Baker, Frederic T. Chong, Song Han
Date: 2023-11-27 00:00:00
Tasks: Decoder

Quantum hardware suffers from high error rates and noise, which makes directly running applications on them ineffective. Quantum Error Correction (QEC) is a critical technique towards fault tolerance which encodes the quantum information distributively in multiple data qubits and uses syndrome qubits to check parity. Minimum-Weight-Perfect-Matching (MWPM) is a popular QEC decoder that takes the syndromes as input and finds the matchings between syndromes that infer the errors. However, there are two paramount challenges for MWPM decoders. First, as noise in real quantum systems can drift over time, there is a potential misalignment with the decoding graph's initial weights, leading to a severe performance degradation in the logical error rates. Second, while the MWPM decoder addresses independent errors, it falls short when encountering correlated errors typical on real hardware, such as those in the 2Q depolarizing channel. We propose DGR, an efficient decoding graph edge re-weighting strategy with no quantum overhead. It leverages the insight that the statistics of matchings across decoding iterations offer rich information about errors on real quantum hardware. By counting the occurrences of edges and edge pairs in decoded matchings, we can statistically estimate the up-to-date probabilities of each edge and the correlations between them. The reweighting process includes two vital steps: alignment re-weighting and correlation re-weighting. The former updates the MWPM weights based on statistics to align with actual noise, and the latter adjusts the weight considering edge correlations. Extensive evaluations on surface code and honeycomb code under various settings show that DGR reduces the logical error rate by 3.6x on average-case noise mismatch with exceeding 5000x improvement under worst-case mismatch.
ALNSynergy: a graph convolutional network with multi-representation alignment for drug synergy prediction
Authors: Xinxing Yang, Jiachen Li, Xiao Kang, Guojin Pei, Keyu Liu, Genke Yang, Jian Chu
Date: 2023-11-27 00:00:00

Drug combination refers to the use of two or more drugs to treat a specific disease at the same time. It is currently the mainstream way to treat complex diseases. Compared with single drugs, drug combinations have better efficacy and can better inhibit toxicity and drug resistance. The computational model based on deep learning concatenates the representation of multiple drugs and the corresponding cell line feature as input, and the output is whether the drug combination can have an inhibitory effect on the cell line. However, this strategy of concatenating multiple representations has the following defects: the alignment of drug representation and cell line representation is ignored, resulting in the synergistic relationship not being reflected positionally in the embedding space. Moreover, the alignment measurement function in deep learning cannot be suitable for drug synergy prediction tasks due to differences in input types. Therefore, in this work, we propose ALNSynergy, a graph convolutional network with multi-representation alignment for predicting drug synergy. In the ALNSynergy model, we designed a multi-representation alignment function suitable for the drug synergy prediction task so that the positional relationship between drug representations and cell line representation is reflected in the embedding space. In addition, the vector modulus of drug representations and cell line representation is considered to improve the accuracy of calculation results and accelerate model convergence. Finally, many relevant experiments were run on multiple drug synergy datasets to verify the effectiveness of the above innovative elements and the excellence of the ALNSynergy model.
Can Out-of-Domain data help to Learn Domain-Specific Prompts for Multimodal Misinformation Detection?
Authors: Amartya Bhattacharya, Debarshi Brahma, Suraj Nagaje Mahadev, Anmol Asati, Vikas Verma, Soma Biswas
Date: 2023-11-27 00:00:00
Tasks: Fake News Detection, Language Modelling, Misinformation, Prompt Learning

Spread of fake news using out-of-context images and captions has become widespread in this era of information overload. Since fake news can belong to different domains like politics, sports, etc. with their unique characteristics, inference on a test image-caption pair is contingent on how well the model has been trained on similar data. Since training individual models for each domain is not practical, we propose a novel framework termed DPOD (Domain-specific Prompt tuning using Out-of-domain data), which can exploit out-of-domain data during training to improve fake news detection of all desired domains simultaneously. First, to compute generalizable features, we modify the Vision-Language Model, CLIP to extract features that helps to align the representations of the images and corresponding captions of both the in-domain and out-of-domain data in a label-aware manner. Further, we propose a domain-specific prompt learning technique which leverages training samples of all the available domains based on the extent they can be useful to the desired domain. Extensive experiments on the large-scale NewsCLIPpings and VERITE benchmarks demonstrate that DPOD achieves state of-the-art performance for this challenging task. Code: https://github.com/scviab/DPOD.
Streaming Lossless Volumetric Compression of Medical Images Using Gated Recurrent Convolutional Neural Network
Authors: Qianhao Chen, Jietao Chen
Date: 2023-11-27 00:00:00

Deep learning-based lossless compression methods offer substantial advantages in compressing medical volumetric images. Nevertheless, many learning-based algorithms encounter a trade-off between practicality and compression performance. This paper introduces a hardware-friendly streaming lossless volumetric compression framework, utilizing merely one-thousandth of the model weights compared to other learning-based compression frameworks. We propose a gated recurrent convolutional neural network that combines diverse convolutional structures and fusion gate mechanisms to capture the inter-slice dependencies in volumetric images. Based on such contextual information, we can predict the pixel-by-pixel distribution for entropy coding. Guided by hardware/software co-design principles, we implement the proposed framework on Field Programmable Gate Array to achieve enhanced real-time performance. Extensive experimental results indicate that our method outperforms traditional lossless volumetric compressors and state-of-the-art learning-based lossless compression methods across various medical image benchmarks. Additionally, our method exhibits robust generalization ability and competitive compression speed
Symphony: Symmetry-Equivariant Point-Centered Spherical Harmonics for 3D Molecule Generation
Authors: Ameya Daigavane, Song Kim, Mario Geiger, Tess Smidt
Date: 2023-11-27 00:00:00
Tasks: 3D geometry, 3D Molecule Generation, Unconditional Molecule Generation

We present Symphony, an $E(3)$-equivariant autoregressive generative model for 3D molecular geometries that iteratively builds a molecule from molecular fragments. Existing autoregressive models such as G-SchNet and G-SphereNet for molecules utilize rotationally invariant features to respect the 3D symmetries of molecules. In contrast, Symphony uses message-passing with higher-degree $E(3)$-equivariant features. This allows a novel representation of probability distributions via spherical harmonic signals to efficiently model the 3D geometry of molecules. We show that Symphony is able to accurately generate small molecules from the QM9 dataset, outperforming existing autoregressive models and approaching the performance of diffusion models.
Ultra-short-term multi-step wind speed prediction for wind farms based on adaptive noise reduction technology and temporal convolutional network
Authors: Haojian Huang
Date: 2023-11-27 00:00:00
Tasks: Denoising, Prediction

As an important clean and renewable kind of energy, wind power plays an important role in coping with energy crisis and environmental pollution. However, the volatility and intermittency of wind speed restrict the development of wind power. To improve the utilization of wind power, this study proposes a new wind speed prediction model based on data noise reduction technology, temporal convolutional network (TCN), and gated recurrent unit (GRU). Firstly, an adaptive data noise reduction algorithm P-SSA is proposed based on singular spectrum analysis (SSA) and Pearson correlation coefficient. The original wind speed is decomposed into multiple subsequences by SSA and then reconstructed. When the Pearson correlation coefficient between the reconstructed sequence and the original sequence is greater than 0.99, other noise subsequences are deleted to complete the data denoising. Then, the receptive field of the samples is expanded through the causal convolution and dilated convolution of TCN, and the characteristics of wind speed change are extracted. Then, the time feature information of the sequence is extracted by GRU, and then the wind speed is predicted to form the wind speed sequence prediction model of P-SSA-TCN-GRU. The proposed model was validated on three wind farms in Shandong Province. The experimental results show that the prediction performance of the proposed model is better than that of the traditional model and other models based on TCN, and the wind speed prediction of wind farms with high precision and strong stability is realized. The wind speed predictions of this model have the potential to become the data that support the operation and management of wind farms. The code is available at https://github.com/JethroJames/Wind-Speed-Forecast-TCN_GRU
mvlearnR and Shiny App for multiview learning
Authors: Elise F. Palzer, Sandra E. Safo
Date: 2023-11-25 00:00:00
Tasks: Data Integration, Multiview Learning

The package mvlearnR and accompanying Shiny App is intended for integrating data from multiple sources or views or modalities (e.g. genomics, proteomics, clinical and demographic data). Most existing software packages for multiview learning are decentralized and offer limited capabilities, making it difficult for users to perform comprehensive integrative analysis. The new package wraps statistical and machine learning methods and graphical tools, providing a convenient and easy data integration workflow. For users with limited programming language, we provide a Shiny Application to facilitate data integration anywhere and on any device. The methods have potential to offer deeper insights into complex disease mechanisms. Availability and Implementation: mvlearnR is available from the following GitHub repository: https://github.com/lasandrall/mvlearnR. The web application is hosted on shinyapps.io and available at: https://multi-viewlearn.shinyapps.io/MultiView_Modeling/