Table 1 A brief overview of the previous works using ML based approach for mRNA subcellular localization prediction
From: Unified mRNA Subcellular Localization Predictor based on machine learning techniques
Reference | Year | Subcelular localizaiton | #location | Model | Approach and Features |
|---|---|---|---|---|---|
RNATracker [1] | 2019 | CeFra-Seq (Cytosol,Nuclear, Membrane, Insoluble); APEX-RIP (Cytosol, Nuclear, ER, Mitochondria) | 4 | Unified; CNN, BLSTM, Attention mechanism | One hot encoding of sequence |
iLoc-mRNA [22] | 2021 | Four customized locations by authors : C1, C2, C3, C4 covering Cytosol, Cytoplasm, Ribosome, ER, Nucleus, Exosome, Mitochondria, Dendrite | 4 | SVM | OvR; k-mer |
mRNALoc [23] | 2020 | Cytoplasm, Nucleus, ER, ExR, Mitochondria | 5 | SVM | OvR; Pse-KNC |
SubLocEP [27] | 2021 | Cytoplasm, Nucleus, ER, ExR, Mitochondria | 5 | LGBM | Unified; k-mer, PseKNC, physicochemical properties (PseEIIP) |
mRNALoacter [24] | 2021 | Cytoplasm, Nucleus, ER, ExR, Mitochondria | 5 | LGBM, XGBoost, CatBoost | Unified; PseKNC, physicochemical properties (PseEIIP) |
MSLP [28] | 2022 | Cytoplasm, Nucleus, ER, ExR, Mitochondria, Cytosol, Pseudopodium, Posterior, Ribosome, Exosome | 10 | CatBoost | OvR; k-mer, PseKNC, physicochemical properties PseEIIP, DPCP, TPCP, Z-curve |
DM3Loc [25] | 2021 | Cytosol, Nucleus, ER, Exosome, Ribosome, Membrane | 6 | CNN with multi-head self-attention | Sequence only |
RNALight [26] | 2023 | Cytoplasm, Nucleus | 2 | LightGBM | k-mer |