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22 search results found

Proteinnet ⭐ 623

Standardized data set for machine learning of protein structure

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.

Sidechainnet ⭐ 256

An all-atom protein structure dataset for machine learning.

Dspp Keras ⭐ 160

Protein order and disorder data for Keras, Tensor Flow and Edward frameworks with automated update cycle made for continuous learning applications.

Compbiodatasetsformachinelearning ⭐ 120

A Curated List of Computational Biology Datasets Suitable for Machine Learning

Mol Instructions ⭐ 116

Mol-Instructions is a Large-Scale Biomolecules Instruction Dataset for Large Language Models.

Tape Neurips2019 ⭐ 115

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)

Proteinworkshop ⭐ 93

Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models and training/task utilities.

Cpi_prediction ⭐ 80

This is a code for compound-protein interaction (CPI) prediction based on a graph neural network (GNN) for compounds and a convolutional neural network (CNN) for proteins.

This is the repository for PIPR. This repository contains the source code and links to some datasets used in the ISMB/ECCB-2019 paper "Multifaceted Protein-Protein Interaction Prediction Based on Siamese Residual RCNN".

Paired_cell_inpainting ⭐ 44

Self-supervised learning for microscopy images

Deepconv Dti ⭐ 43

DeepConv-DTI: Prediction of drug-target interactions via deep learning with convolution on protein sequences

Macsyfinder ⭐ 38

MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.

Dips Plus ⭐ 34

The Enhanced Database of Interacting Protein Structures for Interface Prediction

Preforms De novo protein design using machine learning and PyRosetta to generate a novel protein structure

Biomedical Nlp Corpus ⭐ 29

Corpus (datasets) collection about biology and medical NLP.

Predicting Drug Protein Interaction using Quasi-Visual Question Answering System

A web application from the Raphael Lab for mutation annotation and genome interpretation.

Prospr is a universal toolbox for protein structure prediction within the HP-model. The Python package is based on a C++ core, which gives Prospr its high performance. The C++ core is made available as a separate zip file to facilitate high-performance computing applications. The package comes with many prediction algorithms and datasets to use.

P2rank Datasets ⭐ 14

Datasets for P2Rank project. https://github.com/rdk/p2rank

Manuscript_ab_epitope_interaction ⭐ 14

Gcn For Structure And Function ⭐ 14

Code for reproducing results of "Unsupervised embeddings is all you need for protein function prediction"

Biobtree ⭐ 13

A bioinformatics tool to search, map and retrieve identifiers, keywords and attributes

Database of Interacting Protein Structures (DIPS)

Analysis and Visualization of Ribosome Profiling Data

Dms2structure ⭐ 9

Scripts for "Determining protein structures using deep mutagenesis", Schmiedel & Lehner, Nature Genetics, 2019

Improved ab initio protein structure reconstruction

Predicting protein subcellular localization using deep learning

Deepppisp ⭐ 6

Protein-protein interaction sites prediction through combining local and global features with deep neural networks

REALDIST: Real-valued protein distance prediction

Ccprofiler ⭐ 5

Analysis of co-fractionation MS datasets

a tool to search for linked gene arrays in bacterial datasets

Annotation Service ⭐ 5

The gene annotation service maps human gene symbols to their biological context as represented in an OpenCog Knowledge Hypergraph

Hierarchical Pooling ⭐ 5

Implemenation of the paper "Towards Sparse Hierarchical Graph Classifier" tested on Enzymes and Proteins datasets using Python 3.6 and Tensorflow 2.0.

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