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A transformer architecture based on BERT and 2D convolutional neural network to identify DNA enhancers from sequence information

Briefings in bioinformatics, 2021-09, Vol.22 (5)

2021

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DeepIon: Deep learning approach for classifying ion transporters and ion channels from membrane proteins

Journal of computational chemistry, 2019-06, Vol.40 (15), p.1521-1529

2019

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Recent advances in features generation for membrane protein sequences: From multiple sequence alignment to pre‐trained language models

Proteomics (Weinheim), 2023-12, Vol.23 (23-24), p.e2200494-n/a

2023

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Incorporating deep learning with convolutional neural networks and position specific scoring matrices for identifying electron transport proteins

Journal of computational chemistry, 2017-09, Vol.38 (23), p.2000-2006

2017

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Classifying the molecular functions of Rab GTPases in membrane trafficking using deep convolutional neural networks

Analytical biochemistry, 2018-08, Vol.555, p.33-41

2018

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Prediction of FAD binding sites in electron transport proteins according to efficient radial basis function networks and significant amino acid pairs

BMC bioinformatics, 2016-07, Vol.17 (1), p.298-298, Article 298

2016

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Using multiple convolutional window scanning of convolutional neural network for an efficient prediction of ATP‐binding sites in transport proteins

Proteins, structure, function, and bioinformatics, 2022-07, Vol.90 (7), p.1486-1492

2022

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Advantages and Constraints of a Hybrid Model K-12 E-Learning Assistant Chatbot

IEEE access, 2020, Vol.8, p.77788-77801

2020

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mCNN-ETC: identifying electron transporters and their functional families by using multiple windows scanning techniques in convolutional neural networks with evolutionary information of protein sequences

Briefings in bioinformatics, 2022-01, Vol.23 (1)

2022

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TRP-BERT: Discrimination of transient receptor potential (TRP) channels using contextual representations from deep bidirectional transformer based on BERT

Computers in biology and medicine, 2021-10, Vol.137, p.104821-104821, Article 104821

2021

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DeepETC: A deep convolutional neural network architecture for investigating and classifying electron transport chain's complexes

Neurocomputing (Amsterdam), 2020-01, Vol.375, p.71-79

2020

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MFPS_CNN: Multi‐filter Pattern Scanning from Position‐specific Scoring Matrix with Convolutional Neural Network for Efficient Prediction of Ion Transporters

Molecular informatics, 2022-09, Vol.41 (9), p.e2100271-n/a

2022

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Using word embedding technique to efficiently represent protein sequences for identifying substrate specificities of transporters

Analytical biochemistry, 2019-07, Vol.577, p.73-81

2019

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High-Density Assembly of Gold Nanoparticles on Multiwalled Carbon Nanotubes Using 1-Pyrenemethylamine as Interlinker

The journal of physical chemistry. B, 2006-02, Vol.110 (5), p.2031-2036

2006

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Incorporating distant sequence features and radial basis function networks to identify ubiquitin conjugation sites

PloS one, 2011-03, Vol.6 (3), p.e17331-e17331

2011

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Using k-mer embeddings learned from a Skip-gram based neural network for building a cross-species DNA N6-methyladenine site prediction model

Plant molecular biology, 2021-12, Vol.107 (6), p.533-542

2021

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Using Language Representation Learning Approach to Efficiently Identify Protein Complex Categories in Electron Transport Chain

Molecular informatics, 2020-10, Vol.39 (10), p.e2000033-n/a

2020

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GT-Finder: Classify the family of glucose transporters with pre-trained BERT language models

Computers in biology and medicine, 2021-04, Vol.131, p.104259-104259, Article 104259

2021

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Using two-dimensional convolutional neural networks for identifying GTP binding sites in Rab proteins

Journal of bioinformatics and computational biology, 2019-02, Vol.17 (1), p.1950005

2019

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TNFPred: identifying tumor necrosis factors using hybrid features based on word embeddings

BMC medical genomics, 2020-10, Vol.13 (Suppl 10), p.155-155, Article 155

2020

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An Extensive Examination of Discovering 5-Methylcytosine Sites in Genome-Wide DNA Promoters Using Machine Learning Based Approaches

IEEE/ACM transactions on computational biology and bioinformatics, 2022-01, Vol.19 (1), p.87-94

2022

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Classification of transporters using efficient radial basis function networks with position-specific scoring matrices and biochemical properties

Proteins, structure, function, and bioinformatics, 2010-05, Vol.78 (7), p.1789-1797

2010

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Protein disorder prediction by condensed PSSM considering propensity for order or disorder

BMC bioinformatics, 2006-06, Vol.7 (1), p.319-319, Article 319

2006

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Anti-Drugs Chatbot: Chinese BERT-Based Cognitive Intent Analysis

IEEE transactions on computational social systems, 2024-02, Vol.11 (1), p.1-8

2024

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Integrating Pre-Trained protein language model and multiple window scanning deep learning networks for accurate identification of secondary active transporters in membrane proteins

Methods (San Diego, Calif.), 2023-12, Vol.220, p.11-20

2023

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A transformer architecture based on BERT and 2D convolutional neural network to identify DNA enhancers from sequence information

DeepIon: Deep learning approach for classifying ion transporters and ion channels from membrane proteins

Recent advances in features generation for membrane protein sequences: From multiple sequence alignment to pre‐trained language models

Incorporating deep learning with convolutional neural networks and position specific scoring matrices for identifying electron transport proteins

Classifying the molecular functions of Rab GTPases in membrane trafficking using deep convolutional neural networks

Prediction of FAD binding sites in electron transport proteins according to efficient radial basis function networks and significant amino acid pairs

Using multiple convolutional window scanning of convolutional neural network for an efficient prediction of ATP‐binding sites in transport proteins

Advantages and Constraints of a Hybrid Model K-12 E-Learning Assistant Chatbot

mCNN-ETC: identifying electron transporters and their functional families by using multiple windows scanning techniques in convolutional neural networks with evolutionary information of protein sequences

TRP-BERT: Discrimination of transient receptor potential (TRP) channels using contextual representations from deep bidirectional transformer based on BERT

DeepETC: A deep convolutional neural network architecture for investigating and classifying electron transport chain's complexes

MFPS_CNN: Multi‐filter Pattern Scanning from Position‐specific Scoring Matrix with Convolutional Neural Network for Efficient Prediction of Ion Transporters

Using word embedding technique to efficiently represent protein sequences for identifying substrate specificities of transporters

High-Density Assembly of Gold Nanoparticles on Multiwalled Carbon Nanotubes Using 1-Pyrenemethylamine as Interlinker

Incorporating distant sequence features and radial basis function networks to identify ubiquitin conjugation sites

Using k-mer embeddings learned from a Skip-gram based neural network for building a cross-species DNA N6-methyladenine site prediction model

Using Language Representation Learning Approach to Efficiently Identify Protein Complex Categories in Electron Transport Chain

GT-Finder: Classify the family of glucose transporters with pre-trained BERT language models

Using two-dimensional convolutional neural networks for identifying GTP binding sites in Rab proteins

TNFPred: identifying tumor necrosis factors using hybrid features based on word embeddings

An Extensive Examination of Discovering 5-Methylcytosine Sites in Genome-Wide DNA Promoters Using Machine Learning Based Approaches

Classification of transporters using efficient radial basis function networks with position-specific scoring matrices and biochemical properties

Protein disorder prediction by condensed PSSM considering propensity for order or disorder

Anti-Drugs Chatbot: Chinese BERT-Based Cognitive Intent Analysis

Integrating Pre-Trained protein language model and multiple window scanning deep learning networks for accurate identification of secondary active transporters in membrane proteins

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