A locally-built, LLM-digested index of recent arXiv papers in quant finance, geometry/topology, and statistical ML — keyword search served straight from SQLite on this machine.
Predicts cryptocurrency pump probability using sequence-based neural networks.
PANDA predicts protein binding affinity changes from sequences, outperforming existing methods.
This paper discusses about an R package that implements the Pattern Sequence based Forecasting (PSF) algorithm, which was developed for univariate time series forecasting. This algorithm has been successfully applied to many different fields. The PSF algorithm consists of two major parts: clustering and prediction. The…
A graph embedding is a representation of graph vertices in a low-dimensional space, which approximately preserves properties such as distances between nodes. Vertex sequence-based embedding procedures use features extracted from linear sequences of nodes to create embeddings using a neural network. In this paper, we pr…
The worldwide surge of multiresistant microbial strains has propelled the search for alternative treatment options. The study of Protein-Protein Interactions (PPIs) has been a cornerstone in the clarification of complex physiological and pathogenic processes, thus being a priority for the identification of vital compon…
Deep generative models have been successfully used to learn representations for high-dimensional discrete spaces by representing discrete objects as sequences and employing powerful sequence-based deep models. Unfortunately, these sequence-based models often produce invalid sequences: sequences which do not represent a…
Automated prediction of public speaking performance enables novel systems for tutoring public speaking skills. We use the largest open repository---TED Talks---to predict the ratings provided by the online viewers. The dataset contains over 2200 talk transcripts and the associated meta information including over 5.5 mi…
New method uses Cantor embeddings and Wasserstein distances to analyze predictive states in time series data.
Study predicts price predictability in ultra-high frequency financial data using entropy tests.
For autonomous agents to successfully operate in the real world, anticipation of future events and states of their environment is a key competence. This problem has been formalized as a sequence extrapolation problem, where a number of observations are used to predict the sequence into the future. Real-world scenarios …
Seq2Seq models speed up epidemic model predictions.
A CNN-based model improves stock price prediction accuracy.
We consider the setting of sequential prediction of arbitrary sequences based on specialized experts. We first provide a review of the relevant literature and present two theoretical contributions: a general analysis of the specialist aggregation rule of Freund et al. (1997) and an adaptation of fixed-share rules of He…
Biological data are extremely diverse, complex but also quite sparse. The recent developments in deep learning methods are offering new possibilities for the analysis of complex data. However, it is easy to be get a deep learning model that seems to have good results but is in fact either overfitting the training data …
Deep neural networks predict B-cell epitopes for SARS-CoV and SARS-CoV-2.
Szabó recently introduced a combinatorially-defined spectral sequence in Khovanov homology. After reviewing its construction and explaining our methodology for computing it, we present results of computations of the spectral sequence. Based on these computations, we make a number of conjectures concerning the structure…
Enhances solar flare prediction with advanced preprocessing and contrastive learning.
ISAAC audits deep models for drug-target interactions, revealing structural differences.
Bayes-assisted confidence sequences improve efficiency for bounded means.
EcoCast predicts biodiversity risks using satellite data and citizen science records.
One of the fundamental tasks in understanding genomics is the problem of predicting Transcription Factor Binding Sites (TFBSs). With more than hundreds of Transcription Factors (TFs) as labels, genomic-sequence based TFBS prediction is a challenging multi-label classification task. There are two major biological mechan…
Identification of high affinity drug-target interactions is a major research question in drug discovery. Proteins are generally represented by their structures or sequences. However, structures are available only for a small subset of biomolecules and sequence similarity is not always correlated with functional similar…
Framework for causal discovery using multi-modal data.
CoSE models complex drawings by treating strokes as a collection that can be composed.
Novel parallel GNN predicts protein-ligand interactions with high accuracy.
Experimental determination of protein function is resource-consuming. As an alternative, computational prediction of protein function has received attention. In this context, protein structural classification (PSC) can help, by allowing for determining structural classes of currently unclassified proteins based on thei…
Recommendations are broadly used in marketplaces to match users with items relevant to their interests and needs. To understand user intent and tailor recommendations to their needs, we use deep learning to explore various heterogeneous data available in marketplaces. This paper focuses on the challenge of measuring re…
Inferring the structural properties of a protein from its amino acid sequence is a challenging yet important problem in biology. Structures are not known for the vast majority of protein sequences, but structure is critical for understanding function. Existing approaches for detecting structural similarity between prot…
The effective representation of proteins is a crucial task that directly affects the performance of many bioinformatics problems. Related proteins usually bind to similar ligands. Chemical characteristics of ligands are known to capture the functional and mechanistic properties of proteins suggesting that a ligand base…
Nowadays, hyperspectral image classification widely copes with spatial information to improve accuracy. One of the most popular way to integrate such information is to extract hierarchical features from a multiscale segmentation. In the classification context, the extracted features are commonly concatenated into a lon…
Hidden semi-Markov models (HSMMs) are latent variable models which allow latent state persistence and can be viewed as a generalization of the popular hidden Markov models (HMMs). In this paper, we introduce a novel spectral algorithm to perform inference in HSMMs. Unlike expectation maximization (EM), our approach cor…
Graph-structured data appears frequently in domains including chemistry, natural language semantics, social networks, and knowledge bases. In this work, we study feature learning techniques for graph-structured inputs. Our starting point is previous work on Graph Neural Networks (Scarselli et al., 2009), which we modif…
In this paper we propose a deep neural network model with an encoder-decoder architecture that translates images of math formulas into their LaTeX markup sequences. The encoder is a convolutional neural network (CNN) that transforms images into a group of feature maps. To better capture the spatial relationships of mat…
We propose a Text-to-Speech method to create an unseen expressive style using one utterance of expressive speech of around one second. Specifically, we enhance the disentanglement capabilities of a state-of-the-art sequence-to-sequence based system with a Variational AutoEncoder (VAE) and a Householder Flow. The propos…
Amino acid sequence portrays most intrinsic form of a protein and expresses primary structure of protein. The order of amino acids in a sequence enables a protein to acquire a particular stable conformation that is responsible for the functions of the protein. This relationship between a sequence and its function motiv…
We propose a novel adversarial learning strategy for mixture models of Hawkes processes, leveraging data augmentation techniques of Hawkes process in the framework of self-paced learning. Instead of learning a mixture model directly from a set of event sequences drawn from different Hawkes processes, the proposed metho…
Modeling a temporal process as if it is Markovian assumes the present encodes all of the process's history. When this occurs, the present captures all of the dependency between past and future. We recently showed that if one randomly samples in the space of structured processes, this is almost never the case. So, how d…
We present a probabilistic model for unsupervised alignment of high-dimensional time-warped sequences based on the Dirichlet Process Mixture Model (DPMM). We follow the approach introduced in (Kazlauskaite, 2018) of simultaneously representing each data sequence as a composition of a true underlying function and a time…
Paper proves convergence of MDL to Einstein-Hilbert with boundary term.
Complex structures are typical in machine learning. Tailoring learning algorithms for every structure requires an effort that may be saved by defining a generic learning procedure adaptive to any complex structure. In this paper, we propose to map any complex structure onto a generic form, called serialization, over wh…
In a 1967 paper, Banchoff stated that a certain type of polyhedral curvature, that applies to all finite polyhedra, was zero at all vertices of an odd-dimensional polyhedral manifold; one then obtains an elementary proof that odd-dimensional manifolds have zero Euler characteristic. In a previous paper, the author defi…
Deviance-style normalization for sparse, jointly overdispersed count matrices
Deep learning techniques have been hugely successful for traditional supervised and unsupervised machine learning problems. In large part, these techniques solve continuous optimization problems. Recently however, discrete generative deep learning models have been successfully used to efficiently search high-dimensiona…
We propose an autoencoding sequence-based transceiver for communication over dispersive channels with intensity modulation and direct detection (IM/DD), designed as a bidirectional deep recurrent neural network (BRNN). The receiver uses a sliding window technique to allow for efficient data stream estimation. We find t…
This paper studies when particle filtering is efficient for planning in partially observed systems.
CR-AIS improves AIS efficiency by constant rate annealing.
Enzyme sequences and structures are routinely used in the biological sciences as queries to search for functionally related enzymes in online databases. To this end, one usually departs from some notion of similarity, comparing two enzymes by looking for correspondences in their sequences, structures or surfaces. For a…
Rough Transformers improve efficiency for medical time-series data.