Protein remote homology detection and structural alignment using deep learning

T Hamamsy, JT Morton, R Blackwell, D Berenberg… - Nature …, 2024 - nature.com
Exploiting sequence–structure–function relationships in biotechnology requires improved
methods for aligning proteins that have low sequence similarity to previously annotated …

Atlas: End-to-end 3d scene reconstruction from posed images

Z Murez, T Van As, J Bartolozzi, A Sinha… - Computer Vision–ECCV …, 2020 - Springer
We present an end-to-end 3D reconstruction method for a scene by directly regressing a
truncated signed distance function (TSDF) from a set of posed RGB images. Traditional …

Causalm: Causal model explanation through counterfactual language models

A Feder, N Oved, U Shalit, R Reichart - Computational Linguistics, 2021 - direct.mit.edu
Understanding predictions made by deep neural networks is notoriously difficult, but also
crucial to their dissemination. As all machine learning–based methods, they are as good as …

Online mixed-integer optimization in milliseconds

D Bertsimas, B Stellato - INFORMS Journal on Computing, 2022 - pubsonline.informs.org
We propose a method to approximate the solution of online mixed-integer optimization (MIO)
problems at very high speed using machine learning. By exploiting the repetitive nature of …

How about bug-triggering paths?-understanding and characterizing learning-based vulnerability detectors

X Cheng, X Nie, N Li, H Wang… - IEEE Transactions on …, 2022 - ieeexplore.ieee.org
Machine learning and its promising branch deep learning have proven to be effective in a
wide range of application domains. Recently, several efforts have shown success in …

Automatic fault detection on seismic images using a multiscale attention convolutional neural network

K Gao, L Huang, Y Zheng, R Lin, H Hu, T Cladohous - Geophysics, 2022 - library.seg.org
High-fidelity fault detection on seismic images is one of the most important and challenging
topics in the field of automatic seismic interpretation. Conventional hand-picking-based and …

Descriptive modeling of textiles using FE simulations and deep learning

A Mendoza, R Trullo, Y Wielhorski - Composites Science and Technology, 2021 - Elsevier
In this work we propose a novel and fully automated method for extracting the yarn
geometrical features in woven composites so that a direct parametrization of the textile …

Autoablation: Automated parallel ablation studies for deep learning

S Sheikholeslami, M Meister, T Wang… - Proceedings of the 1st …, 2021 - dl.acm.org
Ablation studies provide insights into the relative contribution of different architectural and
regularization components to machine learning models' performance. In this paper, we …

NetSolP: predicting protein solubility in Escherichia coli using language models

V Thumuluri, HM Martiny, JJ Almagro Armenteros… - …, 2022 - academic.oup.com
Motivation Solubility and expression levels of proteins can be a limiting factor for large-scale
studies and industrial production. By determining the solubility and expression directly from …

A Bayesian neural network predicts the dissolution of compact planetary systems

M Cranmer, D Tamayo, H Rein… - Proceedings of the …, 2021 - National Acad Sciences
We introduce a Bayesian neural network model that can accurately predict not only if, but
also when a compact planetary system with three or more planets will go unstable. Our …