nils-herrmann/clean_scirepeval huggingface dataset:
Using Clinical Notes with Time Series Data for ICU Management

Monitoring patients in ICU is a challenging and high-cost task. Hence, predicting the condition of patients during their ICU stay can help provide better acute care and plan the hospital’s resources. There has been continuous progress in machine learning research for ICU management, and most of this work has focused on using time series signals recorded by ICU instruments. In our work, we show that adding clinical notes as another modality improves the performance of the model for three benchmark tasks: in-hospital mortality prediction, modeling decompensation, and length of stay forecasting that play an important role in ICU management. While the time-series data is measured at regular intervals, doctor notes are charted at irregular times, making it challenging to model them together. We propose a method to model them jointly, achieving considerable improvement across benchmark tasks over baseline time-series model.
A Layered Architecture for Active Perception: Image Classification using Deep Reinforcement Learning

We propose a planning and perception mechanism for a robot (agent), that can only observe the underlying environment partially, in order to solve an image classification problem. A three-layer architecture is suggested that consists of a meta-layer that decides the intermediate goals, an action-layer that selects local actions as the agent navigates towards a goal, and a classification-layer that evaluates the reward and makes a prediction. We design and implement these layers using deep reinforcement learning. A generalized policy gradient algorithm is utilized to learn the parameters of these layers to maximize the expected reward. Our proposed methodology is tested on the MNIST dataset of handwritten digits, which provides us with a level of explainability while interpreting the agent's intermediate goals and course of action.
Do Compressed Representations Generalize Better?

One of the most studied problems in machine learning is finding reasonable constraints that guarantee the generalization of a learning algorithm. These constraints are usually expressed as some simplicity assumptions on the target. For instance, in the Vapnik-Chervonenkis (VC) theory the space of possible hypotheses is considered to have a limited VC dimension. In this paper, the constraint on the entropy $H(X)$ of the input variable $X$ is studied as a simplicity assumption. It is proven that the sample complexity to achieve an $\epsilon$-$\delta$ Probably Approximately Correct (PAC) hypothesis is bounded by $\frac{2^{ \left.6H(X)\middle/\epsilon\right.}+\log{\frac{1}{\delta}}}{\epsilon^2}$ which is sharp up to the $\frac{1}{\epsilon^2}$ factor. Morever, it is shown that if a feature learning process is employed to learn the compressed representation from the dataset, this bound no longer exists. These findings have important implications on the Information Bottleneck (IB) theory which had been utilized to explain the generalization power of Deep Neural Networks (DNNs), but its applicability for this purpose is currently under debate by researchers. In particular, this is a rigorous proof for the previous heuristic that compressed representations are exponentially easier to be learned. However, our analysis pinpoints two factors preventing the IB, in its current form, to be applicable in studying neural networks. Firstly, the exponential dependence of sample complexity on $\frac{1}{\epsilon}$, which can lead to a dramatic effect on the bounds in practical applications when $\epsilon$ is small. Secondly, our analysis reveals that arguments based on input compression are inherently insufficient to explain generalization of methods like DNNs in which the features are also learned using available data.
Learning an Adaptive Learning Rate Schedule

The learning rate is one of the most important hyper-parameters for model training and generalization. However, current hand-designed parametric learning rate schedules offer limited flexibility and the predefined schedule may not match the training dynamics of high dimensional and non-convex optimization problems. In this paper, we propose a reinforcement learning based framework that can automatically learn an adaptive learning rate schedule by leveraging the information from past training histories. The learning rate dynamically changes based on the current training dynamics. To validate this framework, we conduct experiments with different neural network architectures on the Fashion MINIST and CIFAR10 datasets. Experimental results show that the auto-learned learning rate controller can achieve better test results. In addition, the trained controller network is generalizable -- able to be trained on one data set and transferred to new problems.
HEAX: An Architecture for Computing on Encrypted Data

With the rapid increase in cloud computing, concerns surrounding data privacy, security, and confidentiality also have been increased significantly. Not only cloud providers are susceptible to internal and external hacks, but also in some scenarios, data owners cannot outsource the computation due to privacy laws such as GDPR, HIPAA, or CCPA. Fully Homomorphic Encryption (FHE) is a groundbreaking invention in cryptography that, unlike traditional cryptosystems, enables computation on encrypted data without ever decrypting it. However, the most critical obstacle in deploying FHE at large-scale is the enormous computation overhead. In this paper, we present HEAX, a novel hardware architecture for FHE that achieves unprecedented performance improvements. HEAX leverages multiple levels of parallelism, ranging from ciphertext-level to fine-grained modular arithmetic level. Our first contribution is a new highly-parallelizable architecture for number-theoretic transform (NTT) which can be of independent interest as NTT is frequently used in many lattice-based cryptography systems. Building on top of NTT engine, we design a novel architecture for computation on homomorphically encrypted data. Our implementation on reconfigurable hardware demonstrates 164-268× performance improvement for a wide range of FHE parameters.
Dependency-based Text Graphs for Keyphrase and Summary Extraction with Applications to Interactive Content Retrieval

We build a bridge between neural network-based machine learning and graph-based natural language processing and introduce a unified approach to keyphrase, summary and relation extraction by aggregating dependency graphs from links provided by a deep-learning based dependency parser. 
We reorganize dependency graphs to focus on the most relevant content elements of a sentence, integrate sentence identifiers as graph nodes and after ranking the graph, we extract our keyphrases and summaries from its largest strongly-connected component. We take advantage of the implicit structural information that dependency links bring to extract subject-verb-object, is-a and part-of relations. 
We put it all together into a proof-of-concept dialog engine that specializes the text graph with respect to a query and reveals interactively the document's most relevant content elements. The open-source code of the integrated system is available at this https URL . 
Keywords: graph-based natural language processing, dependency graphs, keyphrase, summary and relation extraction, query-driven salient sentence extraction, logic-based dialog engine, synergies between neural and symbolic processing.
Scale MLPerf-0.6 models on Google TPU-v3 Pods

The recent submission of Google TPU-v3 Pods to the industry wide MLPerf v0.6 training benchmark demonstrates the scalability of a suite of industry relevant ML models. MLPerf defines a suite of models, datasets and rules to follow when benchmarking to ensure results are comparable across hardware, frameworks and companies. Using this suite of models, we discuss the optimizations and techniques including choice of optimizer, spatial partitioning and weight update sharding necessary to scale to 1024 TPU chips. Furthermore, we identify properties of models that make scaling them challenging, such as limited data parallelism and unscaled weights. These optimizations contribute to record performance in transformer, Resnet-50 and SSD in the Google MLPerf-0.6 submission.
Empirical Analysis of Multi-Task Learning for Reducing Model Bias in Toxic Comment Detection

With the recent rise of toxicity in online conversations on social media platforms, using modern machine learning algorithms for toxic comment detection has become a central focus of many online applications. Researchers and companies have developed a variety of shallow and deep learning models to identify toxicity in online conversations, reviews, or comments with mixed successes. However, these existing approaches have learned to incorrectly associate non-toxic comments that have certain trigger-words (e.g. gay, lesbian, black, muslim) as a potential source of toxicity. In this paper, we evaluate dozens of state-of-the-art models with the specific focus of reducing model bias towards these commonly-attacked identity groups. We propose a multi-task learning model with an attention layer that jointly learns to predict the toxicity of a comment as well as the identities present in the comments in order to reduce this bias. We then compare our model to an array of shallow and deep-learning models using metrics designed especially to test for unintended model bias within these identity groups.
Generating Positive Bounding Boxes for Balanced Training of Object Detectors

Two-stage deep object detectors generate a set of regions-of-interest (RoIs) in the first stage, then, in the second stage, identify objects among the proposed RoIs that sufficiently overlap with a ground truth (GT) box. The second stage is known to suffer from a bias towards RoIs that have low intersection-over-union (IoU) with the associated GT boxes. To address this issue, we first propose a sampling method to generate bounding boxes (BB) that overlap with a given reference box more than a given IoU threshold. Then, we use this BB generation method to develop a positive RoI (pRoI) generator that, for the second stage, produces RoIs following any desired spatial or IoU distribution. We show that our pRoI generator is able to simulate other sampling methods for positive examples such as hard example mining and prime sampling. Using our generator as an analysis tool, we show that (i) IoU imbalance has an adverse effect on performance, (ii) hard positive example mining improves the performance only for certain input IoU distributions, and (iii) the imbalance among the foreground classes has an adverse effect on performance and that it can be alleviated at the batch level. Finally, we train Faster R-CNN using our pRoI generator and, compared to conventional training, obtain better or on-par performance for low IoUs and significant improvements when trained for higher IoUs for Pascal VOC and MS COCO datasets. The code is available at: https://github.com/kemaloksuz/BoundingBoxGenerator.
Using Statistics to Automate Stochastic Optimization

Despite the development of numerous adaptive optimizers, tuning the learning rate of stochastic gradient methods remains a major roadblock to obtaining good practical performance in machine learning. Rather than changing the learning rate at each iteration, we propose an approach that automates the most common hand-tuning heuristic: use a constant learning rate until "progress stops," then drop. We design an explicit statistical test that determines when the dynamics of stochastic gradient descent reach a stationary distribution. This test can be performed easily during training, and when it fires, we decrease the learning rate by a constant multiplicative factor. Our experiments on several deep learning tasks demonstrate that this statistical adaptive stochastic approximation (SASA) method can automatically find good learning rate schedules and match the performance of hand-tuned methods using default settings of its parameters. The statistical testing helps to control the variance of this procedure and improves its robustness.
Visually grounded generation of entailments from premises

Natural Language Inference (NLI) is the task of determining the semantic relationship between a premise and a hypothesis. In this paper, we focus on the generation of hypotheses from premises in a multimodal setting, to generate a sentence (hypothesis) given an image and/or its description (premise) as the input. The main goals of this paper are (a) to investigate whether it is reasonable to frame NLI as a generation task; and (b) to consider the degree to which grounding textual premises in visual information is beneficial to generation. We compare different neural architectures, showing through automatic and human evaluation that entailments can indeed be generated successfully. We also show that multimodal models outperform unimodal models in this task, albeit marginally
Adversarial Learning of General Transformations for Data Augmentation

Data augmentation (DA) is fundamental against overfitting in large convolutional neural networks, especially with a limited training dataset. In images, DA is usually based on heuristic transformations, like geometric or color transformations. Instead of using predefined transformations, our work learns data augmentation directly from the training data by learning to transform images with an encoder-decoder architecture combined with a spatial transformer network. The transformed images still belong to the same class but are new, more complex samples for the classifier. Our experiments show that our approach is better than previous generative data augmentation methods, and comparable to predefined transformation methods when training an image classifier.
Graph Convolutions over Constituent Trees for Syntax-Aware Semantic Role Labeling

Semantic role labeling (SRL) is the task of identifying predicates and labeling argument spans with semantic roles. Even though most semantic-role formalisms are built upon constituent syntax and only syntactic constituents can be labeled as arguments (e.g., FrameNet and PropBank), all the recent work on syntax-aware SRL relies on dependency representations of syntax. In contrast, we show how graph convolutional networks (GCNs) can be used to encode constituent structures and inform an SRL system. Nodes in our SpanGCN correspond to constituents. The computation is done in 3 stages. First, initial node representations are produced by `composing' word representations of the first and the last word in the constituent. Second, graph convolutions relying on the constituent tree are performed, yielding syntactically-informed constituent representations. Finally, the constituent representations are `decomposed' back into word representations which in turn are used as input to the SRL classifier. We evaluate SpanGCN against alternatives, including a model using GCNs over dependency trees, and show its effectiveness on standard CoNLL-2005, CoNLL-2012, and FrameNet benchmarks.
DESPERATE TIMES CALL FOR DESPERATE MEASURES: GOVERNMENT SPENDING MULTIPLIERS IN HARD TIMES

We investigate state‐dependent effects of fiscal multipliers and allow for endogenous sample splitting to determine whether the U.S. economy is in a slack state. When the endogenized slack state is estimated as the period of the unemployment rate higher than about 12%, the estimated cumulative multipliers are significantly larger during slack periods than nonslack periods and are above unity. We also examine the possibility of time‐varying regimes of slackness and find that our empirical results are robust under a more flexible framework. Our estimation results point out the importance of the heterogenous effects of fiscal policy and shed light on the prospect of fiscal policy in response to economic shocks from the current COVID‐19 pandemic.
Gluon mass scale through nonlinearities and vertex interplay

We present a novel analysis of the gluon gap equation, where its full nonlinear structure is duly taken into account. In particular, while in previous treatments the linearization of this homogeneous integral equation introduced an indeterminacy in the scale of the corresponding mass, the current approach determines it uniquely, once the value of the gauge coupling at a given renormalization point is used as input. A crucial ingredient for this construction is the "kinetic term" of the gluon propagator, whose form is not obtained from the complicated equation governing its evolution, but is rather approximated by suitable initial {\it Ansatze}, which are subsequently improved by means of a systematic iterative procedure. The multiplicative renormalization of the central equation is carried out following an approximate method, which is extensively employed in the studies of the standard quark gap equation. This approach amounts to the effective substitution of the vertex renormalization constants by kinematically simplified form factors of the three- and four-gluon vertices. The resulting numerical interplay, exemplified by the infrared suppression of the three-gluon vertex and the mild enhancement of the four-gluon vertex, is instrumental for obtaining positive-definite and monotonically decreasing running gluon masses. The resulting gluon propagators, put together from the gluon masses and kinetic terms obtained with this method, match rather accurately the data obtained from large-volume lattice simulations.
d-SEAMS: Deferred Structural Elucidation Analysis for Molecular Simulations

Structural analyses are an integral part of computational research on nucleation and supercooled water, whose accuracy and efficiency can impact the validity and feasibility of such studies. The underlying molecular mechanisms of these often elusive and computationally expensive processes can be inferred from the evolution of ice-like structures, determined using appropriate structural analysis techniques. We present d-SEAMS, a free and open-source post-processing engine for the analysis of molecular dynamics trajectories, which is specifically able to qualitatively classify ice structures, in both strong confinement and bulk systems. For the first time, recent algorithms for confined ice structure determination have been implemented, along with topological network criteria for bulk ice structure determination. We also propose and validate a new order parameter for identifying the building blocks of quasi-two-dimensional ice. Recognizing the need for customization in structural analysis, d-SEAMS has a unique code architecture, built with nix, employing a YAML-Lua scripting pipeline. The software has been designed to be user-friendly and extensible. The engine outputs are compatible with popular graphics software suites, allowing for immediate visual insights into the systems studied. We demonstrate the features of d-SEAMS by using it to analyze nucleation in the bulk regime and for quasi-one and quasi-two-dimensional systems. Structural time evolution and quantitative metrics are determined for heterogenous ice nucleation on a silver-exposed β-AgI surface, homogenous ice nucleation, flat monolayer square ice formation and freezing of an ice nanotube.
Invasiveness Prediction of Pulmonary Adenocarcinomas Using Deep Feature Fusion Networks

Early diagnosis of pathological invasiveness of pulmonary adenocarcinomas using computed tomography (CT) imaging would alter the course of treatment of adenocarcinomas and subsequently improve the prognosis. Most of the existing systems use either conventional radiomics features or deep-learning features alone to predict the invasiveness. In this study, we explore the fusion of the two kinds of features and claim that radiomics features can be complementary to deep-learning features. An effective deep feature fusion network is proposed to exploit the complementarity between the two kinds of features, which improves the invasiveness prediction results. We collected a private dataset that contains lung CT scans of 676 patients categorized into four invasiveness types from a collaborating hospital. Evaluations on this dataset demonstrate the effectiveness of our proposal.
Multiagent Evaluation under Incomplete Information

This paper investigates the evaluation of learned multiagent strategies in the incomplete information setting, which plays a critical role in ranking and training of agents. Traditionally, researchers have relied on Elo ratings for this purpose, with recent works also using methods based on Nash equilibria. Unfortunately, Elo is unable to handle intransitive agent interactions, and other techniques are restricted to zero-sum, two-player settings or are limited by the fact that the Nash equilibrium is intractable to compute. Recently, a ranking method called $\alpha$-Rank, relying on a new graph-based game-theoretic solution concept, was shown to tractably apply to general games. However, evaluations based on Elo or $\alpha$-Rank typically assume noise-free game outcomes, despite the data often being collected from noisy simulations, making this assumption unrealistic in practice. This paper investigates multiagent evaluation in the incomplete information regime, involving general-sum many-player games with noisy outcomes. We derive sample complexity guarantees required to confidently rank agents in this setting. We propose adaptive algorithms for accurate ranking, provide correctness and sample complexity guarantees, then introduce a means of connecting uncertainties in noisy match outcomes to uncertainties in rankings. We evaluate the performance of these approaches in several domains, including Bernoulli games, a soccer meta-game, and Kuhn poker.
An Investigation of Quantum Deep Clustering Framework with Quantum Deep SVM & Convolutional Neural Network Feature Extractor

In this paper, we have proposed a deep quantum SVM formulation, and further demonstrated a quantum-clustering framework based on the quantum deep SVM formulation, deep convolutional neural networks, and quantum K-Means clustering. We have investigated the run time computational complexity of the proposed quantum deep clustering framework and compared with the possible classical implementation. Our investigation shows that the proposed quantum version of deep clustering formulation demonstrates a significant performance gain (exponential speed up gains in many sections) against the possible classical implementation. The proposed theoretical quantum deep clustering framework is also interesting & novel research towards the quantum-classical machine learning formulation to articulate the maximum performance.
Advances in Computer-Aided Diagnosis of Diabetic Retinopathy

Diabetic Retinopathy is a critical health problem influences 100 million individuals worldwide, and these figures are expected to rise, particularly in Asia. Diabetic Retinopathy is a chronic eye disease which can lead to irreversible vision loss. Considering the visual complexity of retinal images, the early-stage diagnosis of Diabetic Retinopathy can be challenging for human experts. However, Early detection of Diabetic Retinopathy can significantly help to avoid permanent vision loss. The capability of computer-aided detection systems to accurately and efficiently detect the diabetic retinopathy had popularized them among researchers. In this review paper, the literature search was conducted on PubMed, Google Scholar, IEEE Explorer with a focus on the computer-aided detection of Diabetic Retinopathy using either of Machine Learning or Deep Learning algorithms. Moreover, this study also explores the typical methodology utilized for the computer-aided diagnosis of Diabetic Retinopathy. This review paper is aimed to direct the researchers about the limitations of current methods and identify the specific areas in the field to boost future research.