DeepLoc: prediction of protein subcellular localization using deep learning

By Almagro Armenteros. 2017

802 citations recorded by the source corpus.

Subfields: Biophysics, Molecular Biology

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Citations in the corpus

Modeling aspects of the language of life through transfer-learning protein sequences (2019, positive): “For predicting subcellular localization (cellular compartments) in ten classes, DeepLoc [47] is top with Q10 = 78% (Fig.”
NetSurfP-2.0: improved prediction of protein structural features by integrated deep learning (2018, positive): “Since then, deep learning techniques have affected the application of machine learning in biology expanding the ability of prediction tools to produce more accurate results on complex datasets (11-18).”
Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms. (2020, positive): “To compare the predicted versus the experimentally determined locations, for each protein we took the top scoring sequence-based localization prediction from DeepLoc (43) if the score was >1.”
Modeling the language of life – Deep Learning Protein Sequences (2019, positive): “Panel C compared per5 protein predictions for subcellular localization between top methods (numbers taken from DeepLoc [39] 6 and encodings based on single sequences (ProtVec [64] and our SeqVec).”
ProtTrans: Towards Cracking the Language of Life’s Code Through Self-Supervised Learning (2021, positive): “…pooling: For the prediction of features for entire proteins (analogous to the classiﬁcation of whole sentences in NLP), the DeepLoc [16] data set was used to classify proteins into (i) membrane-bound vs. water-soluble and (ii) ten classes of subcellular localization (also referred…”
Machine learning in protein engineering (2018, neutral): “Importance weights assigned to different regions of proteins in a model trained to predict intracellular location (Sønderby et al., 2015). localization (Almagro Armenteros et al., 2017).”
SaProt: Protein Language Modeling with Structure-aware Vocabulary (2024, positive): “Figure 5 depicts the results of fine-tuning SaProt on the DeepLoc (Almagro Armenteros et al., 2017) dataset.”
Deep learning in bioinformatics: introduction, application, and perspective in big data era (2019, neutral): “For recurrent neural networks, the more advanced architectures help people deal with the gradient vanishing or explosion issue and accelerate the execution of RNN.”
BUSCA: an integrative web server to predict subcellular localization of proteins (2018, neutral): “Method MCC Compartment Dataset LocTree3 SubCons DeepLoc Cello2.”