Multi-modal co-attention for drug-target interaction annotation and Its Application to SARS-CoV-2

Related tags

Deep LearningCoaDTI
Overview

CoaDTI

Multi-modal co-attention for drug-target interaction annotation and Its Application to SARS-CoV-2

Abstract

Environment

The test was conducted in the linux server with GTX2080Ti and the running environment is as follows:

  • python 3.7
  • pytorch 1.7.1
  • rdkit
  • pytorch geometric 1.6.3
  • Cuda 10.0.130

Data

Human dataset

C.elegans dataset

Binding_DB dataset

How to run

CoaDTI

  1. Run ./code/data_prepare.py to preprocess the dataset.
  2. Run ./code/train.py to train the CoaDTI.

CoaDTI-pro

  1. Run ./code/data_prepare.py to preprocess the dataset.
  2. Run ./code/train.py to train the CoaDTI-pro.
Owner
Layne_Huang
Bioinformatics, BioNLP
Layne_Huang
GitHub Repository
MazeRL is an application oriented Deep Reinforcement Learning (RL) framework

MazeRL is an application oriented Deep Reinforcement Learning (RL) framework, addressing real-world decision problems. Our vision is to cover the complete development life cycle of RL applications ra

EnliteAI GmbH 222 Dec 24, 2022
Stereo Hybrid Event-Frame (SHEF) Cameras for 3D Perception, IROS 2021

For academic use only. Stereo Hybrid Event-Frame (SHEF) Cameras for 3D Perception Ziwei Wang, Liyuan Pan, Yonhon Ng, Zheyu Zhuang and Robert Mahony Th

Ziwei Wang 11 Jan 04, 2023
Python Wrapper for Embree

pyembree Python Wrapper for Embree Installation You can install pyembree (and embree) via the conda-forge package. $ conda install -c conda-forge pyem

Anthony Scopatz 67 Dec 24, 2022
StorSeismic: An approach to pre-train a neural network to store seismic data features

StorSeismic: An approach to pre-train a neural network to store seismic data features This repository contains codes and resources to reproduce experi

Seismic Wave Analysis Group 11 Dec 05, 2022
MINERVA: An out-of-the-box GUI tool for offline deep reinforcement learning

MINERVA is an out-of-the-box GUI tool for offline deep reinforcement learning, designed for everyone including non-programmers to do reinforcement learning as a tool.

Takuma Seno 80 Nov 06, 2022
Quantile Regression DQN a Minimal Working Example, Distributional Reinforcement Learning with Quantile Regression

Quantile Regression DQN Quantile Regression DQN a Minimal Working Example, Distributional Reinforcement Learning with Quantile Regression (https://arx

Arsenii Senya Ashukha 80 Sep 17, 2022
[ICLR2021] Unlearnable Examples: Making Personal Data Unexploitable

Unlearnable Examples Code for ICLR2021 Spotlight Paper "Unlearnable Examples: Making Personal Data Unexploitable " by Hanxun Huang, Xingjun Ma, Sarah

Hanxun Huang 98 Dec 07, 2022
Repository relating to the CVPR21 paper TimeLens: Event-based Video Frame Interpolation

TimeLens: Event-based Video Frame Interpolation This repository is about the High Speed Event and RGB (HS-ERGB) dataset, used in the 2021 CVPR paper T

Robotics and Perception Group 544 Dec 19, 2022
Constructing interpretable quadratic accuracy predictors to serve as an objective function for an IQCQP problem that represents NAS under latency constraints and solve it with efficient algorithms.

IQNAS: Interpretable Integer Quadratic programming Neural Architecture Search Realistic use of neural networks often requires adhering to multiple con

0 Oct 24, 2021
Face and Pose detector that emits MQTT events when a face or human body is detected and not detected.

Face Detect MQTT Face or Pose detector that emits MQTT events when a face or human body is detected and not detected. I built this as an alternative t

Jacob Morris 38 Oct 21, 2022
Convnet transfer - Code for paper How transferable are features in deep neural networks?

How transferable are features in deep neural networks? This repository contains source code necessary to reproduce the results presented in the follow

Jason Yosinski 143 Sep 13, 2022
An implementation of IMLE-Net: An Interpretable Multi-level Multi-channel Model for ECG Classification

IMLE-Net: An Interpretable Multi-level Multi-channel Model for ECG Classification The repostiory consists of the code, results and data set links for

12 Dec 26, 2022
Deep Learning Specialization by Andrew Ng, deeplearning.ai.

Deep Learning Specialization on Coursera Master Deep Learning, and Break into AI This is my personal projects for the course. The course covers deep l

Engen 1.5k Jan 07, 2023
Modelisation on galaxy evolution using PEGASE-HR

model_galaxy Modelisation on galaxy evolution using PEGASE-HR This is a labwork done in internship at IAP directed by Damien Le Borgne (https://github

Adrien Anthore 1 Jan 14, 2022
A very simple tool for situations where optimization with onnx-simplifier would exceed the Protocol Buffers upper file size limit of 2GB, or simply to separate onnx files to any size you want.

sne4onnx A very simple tool for situations where optimization with onnx-simplifier would exceed the Protocol Buffers upper file size limit of 2GB, or

Katsuya Hyodo 10 Aug 30, 2022
The pytorch implementation of the paper "text-guided neural image inpainting" at MM'2020

TDANet: Text-Guided Neural Image Inpainting, MM'2020 (Oral) MM | ArXiv This repository implements the paper "Text-Guided Neural Image Inpainting" by L

LisaiZhang 75 Dec 22, 2022
Optical machine for senses sensing using speckle and deep learning

# Senses-speckle [Remote Photonic Detection of Human Senses Using Secondary Speckle Patterns](https://doi.org/10.21203/rs.3.rs-724587/v1) paper Python

Zeev Kalyuzhner 0 Sep 26, 2021
Official Repository for the paper "Improving Baselines in the Wild".

iWildCam and FMoW baselines (WILDS) This repository was originally forked from the official repository of WILDS datasets (commit 7e103ed) For general

Kazuki Irie 3 Nov 24, 2022
audioLIME: Listenable Explanations Using Source Separation

audioLIME This repository contains the Python package audioLIME, a tool for creating listenable explanations for machine learning models in music info

Institute of Computational Perception 27 Dec 01, 2022
PyTorch implementation of the end-to-end coreference resolution model with different higher-order inference methods.

End-to-End Coreference Resolution with Different Higher-Order Inference Methods This repository contains the implementation of the paper: Revealing th

Liyan 52 Jan 04, 2023