ULDNA
Category: [Protein-DNA binding site prediction]
Description: ULDNA: Integrating unsupervised multi-source language models with LSTM-attention network for high-accuracy protein-DNA binding site prediction
Journal: Briefings in Bioinformatics
DOI:  10.1093/bib/bbae040
Year: 2024

ICCPred
Category: [Protein-protein contact map prediction]
Description: Integrating unsupervised Language Model with Multi-View Multiple Sequence Alignments for High-Accuracy Inter-Chain Contact Prediction
Journal: Computers in Biology and Medicine
DOI:  10.1016/j.compbiomed.2023.107529
Year: 2023

ATGO
Category: [Protein function prediction]
Description: Integrating unsupervised language model with triplet neural networks for protein gene ontology prediction
Journal: PLOS Computational Biology
DOI:  10.1371/journal.pcbi.1010793
Year: 2022

TripletGO
Category: [Protein function prediction]
Description: Integrating Transcript Expression Profiles with Protein Homology Inferences for Gene Function Prediction
Journal: Genomics Proteomics Bioinformatics
DOI:  10.1016/j.gpb.2022.03.001
Year: 2022

DCFCrystal
Category: [Protein Crystallization Prediction]
Description: Accurate Multi-Stage Prediction of Protein Crystallization Propensity Using Deep-Cascade Forest with Sequence-Based Features
Journal: Briefings in Bioinformatics
DOI:  10.1093/bib/bbaa076
Year: 2021

DNAPred
Category: [Protein-DNA binding site prediction]
Description: Accurate Identification of DNA-binding Sites from Protein Sequence by Ensembled Hyperplane-Distance-Based Support Vector Machines
Journal: Journal of Chemical Information and Modeling
DOI:  10.1021/acs.jcim.8b00749
Year: 2019

BGSVM-NUC
Category: [Protein-nucleotide binding sites prediction]
Description: Boosting Granular Support Vector Machines for the Accurate Prediction of Protein-Nucleotide Binding Sites
Journal: Combinatorial Chemistry & High Throughput Screening
DOI: 10.2174/1386207322666190925125524
Year: 2019

GCMapCrys
Category: [Protein Crystallization Prediction]
Description: Integrating Graph Attention Network with Predicted Contact Map for Multi-Stage Protein Crystallization Propensity Prediction
Journal: Analytical Biochemistry
DOI: 10.1016/j.ab.2022.115020
Year: 2023