Improved Prediction Model of Protein and Peptide Toxicity by Integrating Channel Attention into a Convolutional Neural Network and Gated Recurrent Units

ToxIBTL: prediction of peptide toxicity based on information bottleneck and transfer learning

(2022) Lesong Wei et al.   BIOINFORMATICS

Novel Solubility Prediction Models: Molecular Fingerprints and Physicochemical Features vs Graph Convolutional Neural Networks

(2022) Sumin Lee et al.   ACS Omega

iDHS-Deep: an integrated tool for predicting DNase I hypersensitive sites by deep neural network

(2021) Fu-Ying Dao et al.   BRIEFINGS IN BIOINFORMATICS

ATSE: a peptide toxicity predictor by exploiting structural and evolutionary information based on graph neural network and attention mechanism

(2021) Lesong Wei et al.   BRIEFINGS IN BIOINFORMATICS

FEGS: a novel feature extraction model for protein sequences and its applications

(2021) Zengchao Mu et al.   BMC BIOINFORMATICS

Predicting Chromosome Flexibility from the Genomic Sequence Based on Deep Learning Neural Networks

(2021) Jinghao Peng et al.   Current Bioinformatics

Deep-4mCW2V: A sequence-based predictor to identify N4-methylcytosine sites in Escherichia coli

(2021) Hasan Zulfiqar et al.   METHODS

Improved Prediction Model of Protein Lysine Crotonylation Sites Using Bidirectional Recurrent Neural Networks

(2021) Sian Soo Tng et al.   JOURNAL OF PROTEOME RESEARCH

Potential of deep representative learning features to interpret the sequence information in proteomics

(2021) Nguyen Quoc Khanh Le   PROTEOMICS

ToxDL: Deep learning using primary structure and domain embeddings for assessing protein toxicity

(2020) Xiaoyong Pan et al.   BIOINFORMATICS

Effective use of the McNemar test

(2020) Matilda Q. R. Pembury Smith et al.   BEHAVIORAL ECOLOGY AND SOCIOBIOLOGY

Transfer learning enables the molecular transformer to predict regio- and stereoselective reactions on carbohydrates

(2020) Giorgio Pesciullesi et al.   Nature Communications

Fertility-GRU: Identifying fertility-related proteins by incorporating deep gated recurrent units and original PSSM profiles

(2019) Nguyen Quoc Khanh Le   JOURNAL OF PROTEOME RESEARCH

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

(2019) Nguyen Quoc Khanh Le et al.   NEUROCOMPUTING

The SCOP database in 2020: expanded classification of representative family and superfamily domains of known protein structures

(2019) Antonina Andreeva et al.   NUCLEIC ACIDS RESEARCH

HMMER web server: 2018 update

(2018) Simon C Potter et al.   NUCLEIC ACIDS RESEARCH

OUP accepted manuscript

(2016)   NUCLEIC ACIDS RESEARCH

Peptide therapeutics: current status and future directions

(2015) Keld Fosgerau et al.   DRUG DISCOVERY TODAY

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

In Silico Approach for Predicting Toxicity of Peptides and Proteins

(2013) Sudheer Gupta et al.   PLoS One

ClanTox: a classifier of short animal toxins

(2009) G. Naamati et al.   NUCLEIC ACIDS RESEARCH