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Search results for deep learning protein
deep-learning
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protein
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62 search results found
Awesome Deepbio
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1,467
A curated list of awesome deep learning applications in the field of computational biology
Graphein
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932
Protein Graph Library
Deeppurpose
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826
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
Paddlehelix
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729
Bio-Computing Platform Featuring Large-Scale Representation Learning and Multi-Task Deep Learning “螺旋桨”生物计算工具集
Proteinnet
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623
Standardized data set for machine learning of protein structure
Tape
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348
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.
Rgn
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263
Recurrent Geometric Networks for end-to-end differentiable learning of protein structure
Sidechainnet
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256
An all-atom protein structure dataset for machine learning.
Protein Sequence Embedding Iclr2019
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203
Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019
Masif
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196
MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.
Deepfri
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156
Deep functional residue identification
Deeprank
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145
This repository has been integrated in https://github.com/DeepRank/deeprank2
Tape Neurips2019
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115
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)
Flexs
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112
Fitness landscape exploration sandbox for biological sequence design.
Deeplearning In Bioinformatics
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104
For anyone who are eager to applying deep learning in bioinformatics!
Proteinsecondarystructure Cnn
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93
Protein Secondary Structure predictor using Convolutional Neural Networks
Proteinworkshop
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93
Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models and training/task utilities.
Lasagne4bio
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88
Equidock_public
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81
EquiDock: geometric deep learning for fast rigid 3D protein-protein docking
Transformercpi
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71
TransformerCPI: Improving compound–protein interaction prediction by sequence-based deep learning with self-attention mechanism and label reversal experiments(BIOINFORMATICS 2020) https://doi.org/10.1093/bioinformatics/btaa524
Deepnovo
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67
Protein Identification with Deep Learning
Awesome Deep Learning 4 Life Sciences
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65
A collection of resources for Deep Learning in Python for Life Sciences (with focus on biotech and pharma).
Cytoself
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58
Self-supervised models for encoding protein localization patterns from microscopy images
Udsmprot
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58
Protein sequence classification with self-supervised pretraining
Neodti
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54
NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions
Awesome Structural Bioinformatics
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54
Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.
Raptorx Contact
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52
Deep residual neural network for protein contact/distance prediction developed by Xu group
Dove
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52
A Deep-learning based dOcking decoy eValuation mEthod
Dmpfold
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51
De novo protein structure prediction using iteratively predicted structural constraints
D Script
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49
A structure-aware interpretable deep learning model for sequence-based prediction of protein-protein interactions
Proteingcn
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47
ProteinGCN: Protein model quality assessment using Graph Convolutional Networks
Deepgo
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45
Function prediction using a deep ontology-aware classifier
Prismnet
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41
Predicting dynamic cellular protein-RNA interactions using deep learning and in vivo RNA structure
Progen
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36
Implementation and replication of ProGen, Language Modeling for Protein Generation, in Jax
Dips Plus
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34
The Enhanced Database of Interacting Protein Structures for Interface Prediction
Flu Sequence Predictor
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34
An experimental deep learning & genotype network-based system for predicting new influenza protein sequences.
Ssm Dta
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34
SSM-DTA: Breaking the Barriers of Data Scarcity in Drug-Target Affinity Prediction (Briefings in Bioinformatics 2023)
Deepinteract
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33
A geometric deep learning pipeline for predicting protein interface contacts.
Deep Proteomics
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33
Dlscore
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31
DLSCORE: A deep learning based scoring function for predicting protein-ligand binding affinity
Kaggle Human Protein Atlas Image Classification
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28
Kaggle 2018 @ Human Protein Atlas Image Classification
Porter5
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28
Fast, state-of-the-art ab initio prediction of protein secondary structure in 3 and 8 classes
Deepram
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25
End-to-end deep learning toolkit for predicting protein binding sites and motifs.
Pdnet
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25
PDNET: A fully open-source framework for deep learning protein real-valued distances
Biotrainer
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24
Deepsurf
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24
A surface-based deep learning approach for the prediction of ligand binding sites on proteins
Deepnf
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23
Deep Network Fusion (deepNF)
Padme
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20
This is the repository containing the source code for my Master's thesis research, about predicting drug-target interaction using deep learning.
Vde_metadynamics
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20
Enhanced protein mutational sampling using time-lagged variational autoencoders
Tip
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19
TIP: Tri-graph Interaction Propagation model for Polypharmacy Side Effect Prediction (GRL@NeurIPS, 2019)
Deepdist
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19
Deep learning prediction of protein residue-residue distances
Deep Learning For Contact_map_v2
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19
Prediction of protein contact map
Multitask Learning Protein Prediction
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19
Multitask learning: protein secondary structure prediction, b-values prediction and solvent-accessibility prediction
Noise2noise Cryo Em Image Denoising
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18
pytorch implementation of noise2noise for Cryo-EM image denoising
Pdbench
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16
PDBench is a dataset and software package for evaluating fixed-backbone sequence design algorithms.
Deepnog
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16
Protein orthologous group assignment with deep learning
Topefind Public
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14
Finding the pitfalls of deep learning predictors of interacting residues in antibodies 🦠
Parapred Pytorch
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14
PyTorch implementation of Parapred (Liberis et al., 2018) with Paratyping (Richardson et al., 2021)
Bmi219 2017 Proteinfolding
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14
UCSF BMI219 Deep Learning (2017), Coding example (Prediction of protein folding with RNN and CNN)
Deepcrystal
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14
DeepCrystal: A Deep Learning Framework for sequence-based Protein Crystallization Prediction
Lib310
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13
lib310 python package
Lm Gvp
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13
LM-GVP: A Generalizable Deep Learning Framework for Protein Property Prediction from Sequence and Structure
Deepseq
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12
Code for paper titled, "Beyond Homology Transfer: Deep Learning for Automated Annotation of Proteins". Preprint available at: http://www.biorxiv.org/content/early/2017/07/25/16
Brewery
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12
State-of-the-art ab initio prediction of 1D protein structure annotations
Deeppbs
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12
Protein Backbone Strurcture Prediction based on deeplearning
Deep Learning Mhci
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10
For MHC-I protein-peptide binding predictions: Deep Learning model with CNN and Snakemake workflow
Lncadeep
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10
LncADeep is an ab initio lncRNA identification and functional annotation tool based on deep learning
Deepfam
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10
Deep learning based alignment-free method for protein family modeling and prediction
Deeppep
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10
Deep proteome inference from peptide profiles
Protein Feature Extraction
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10
Python code to extract features from Protein sequences for Machine Learning/Deep Learning
Ipminer
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9
Predicting ncRNA-protein interaction using high-level features based on deep learning
Pipred
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9
Deep learning based prediction of pi-helices in protein sequences
Deeprel
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9
A convolutional neural network model for relation extraction.
Deepmetapsicov
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9
Deep ResNet-based protein contact prediction
Paccmann_sarscov2
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9
Code for paper on automation of discovery and synthesis of targeted molecules: https://iopscience.iop.org/article/10.1088/2632-21
Pocket2drug
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9
Pytorch implementation of Pocket2Drug: a generative deep learning model to predict binding drugs for ligand-binding sites.
Dms2structure
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9
Scripts for "Determining protein structures using deep mutagenesis", Schmiedel & Lehner, Nature Genetics, 2019
Ponder
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8
PointNet for Deep Rank: protein-protein interaction scoring using neural networks
Deepfr
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8
Improving Protein Fold Recognition by Extracting Fold-specific Features from Predicted Residue-residue Contacts
Dognet
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8
A Deep Architecture for Synapse Detection in Multiplexed Fluorescence Images
Deeploc
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7
Predicting protein subcellular localization using deep learning
Convolutional Generative Stochastic Network For Protein Secondary Structure Prediction
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7
An implementation for Deep Supervised and Convolutional Generative Stochastic Network for Protein Secondary Structure Prediction, https://arxiv.org/abs/1403.1347
Cdeepbind
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7
cDeepbind: A context sensitive deep learning model of RNA-protein binding
Bifusion
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7
Protein Reconstruction
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7
Learning to recover orientations from projections in single-particle cryo-EM
Cancer Suppressor Gene Deep Learning
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7
Cancer Suppressor Gene and Oncogene Prediction using Deep Learning (CNN)
Cu Tsp
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6
Implementation of Accurate Protein Structure Prediction by Embeddings and Deep Learning Representations
Deepripe
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6
Dlprb
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6
DLPRB: A Deep Learning Approach for Predicting Protein-RNA Binding
Comet
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6
Learning hierarchical motif representations for proteins.
Utgn
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6
Universal Transforming Geometric Network for protein structure prediction.
Enzyme Classification
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5
Predict the enzyme class of a given FASTA sequence using deep learning methods including CNNs, LSTM, BiLSTM, GRU, and attention models along with a host of other ML methods.
Deeptrajectory
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5
A deep learning method that identifies improved protein conformational states in trajectory data from refinement simulations
Pointsite
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5
PointSite: a point cloud segmentation tool for identification of protein ligand binding atoms
Genomics Dl Papers
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5
"The human interpretation of a disability is a primitive departmentalized view of ignorance." ― Alastair Agutter
Unsupervised Supervised Protein Genes Diseases Organisms Extraction
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5
Extract Proteins, Genes, and Diseases from text
Medusa
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5
A Deep Learning based protein flexibility prediction tool.
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