Databases on lncRNA annotation and subcellular localization



Existing tools performing subcellular localization prediction

On this page, we have enlisted tools developed to predict subcellular localization. We have attempted to provide a brief overview of the existing tools. Following information is provided on this page - Year of development, Features used, Oversampling technique, Algorithm and the number of subcellular locations covered by the tool. Click on the headers to sort them accordingly.


Name of methodYearFeatures usedOversampling techniqueAlgorithmNo. of subcellular locationsPubmed link
lncLocator 2018 k-mer SOS Random forest , SVM, Autoencoder 5 (Nucleus, Ribosome, Cytoplasm, Exosome, Cytosol) 29462250
iLoc-lncRNA 2018 PseKNC - SVM 4 (Nucleus, Ribosome, Cytoplasm, Exosome) 29931187
DeepLncRNA 2018 k-mer, Genome loci, RNA binding motifs - Neural Networks 2 (Nucleus/Cytosol) 30401954
LncLocation 2020 k-mer, physicochemical properties - SVM 4 (Nucleus, Ribosome, Cytoplasm, Exosome) 33019721
Locate-R 2020 k-mer, n-gapped k-mer SMOTE Locally deep SVM 4 (Nucleus, Ribosome, Cytoplasm, Exosome) 32068122
lncLocPred 2020 k-mer, PseDNC - Logistic regression 4 (Nucleus, Ribosome, Cytoplasm, Exosome) 10.1109/ACCESS.2020.3007317
KD-KLNMF 2020 k-mer, Dinucleotide-based spatial autocorrelation - SVM 4 (Nucleus, Ribosome, Cytoplasm, Exosome) 33080214
lncLocator 2.0 2021 Word embedded sequences converted into fixed length vectors - GloVe + CNN + BiLSTM + MLP 2 (Nucleus/Cytoplasm) 33630066
DeepLncLoc 2022 k-mer, Subsequence embedding - TextCNN 5 (Nucleus, Ribosome, Cytoplasm, Exosome, Cytosol) 34498677
TACOS 2022 Composition-based, Dinucleotide physicochemical properties - AdaBoost 2 (Nucleus/Cytoplasm) 35753698
GM-lncLoc 2023 k-mer SMOTE Graph convolutional networks based on MAML 4/5 (Nucleus, Ribosome, Cytoplasm, Exosome)/Cytosol 36709266
GraphLncLoc 2023 de Bruijn graphs - Graph convolutional networks 4 (Nucleus, Ribosome, Cytoplasm, Exosome) 36545797