Identifying SNARE Proteins Using an Alignment-Free Method Based on Multiscan Convolutional Neural Network and PSSM Profiles

MFPS_CNN: Multi‐filter Pattern Scanning from Position‐specific Scoring Matrix with Convolutional Neural Network for Efficient Prediction of Ion Transporters

(2022) Trinh‐Trung‐Duong Nguyen et al.   Molecular Informatics

Dysfunction of the SNARE complex in neurological and psychiatric disorders

(2021) Feng Chen et al.   PHARMACOLOGICAL RESEARCH

mCNN-ETC: identifying electron transporters and their functional families by using multiple windows scanning techniques in convolutional neural networks with evolutionary information of protein sequences

(2021) Quang-Thai Ho et al.   BRIEFINGS IN BIOINFORMATICS

A secondary structure-based position-specific scoring matrix applied to the improvement in protein secondary structure prediction

(2021) Teng-Ruei Chen et al.   PLoS One

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

SNAREs-SAP: SNARE Proteins Identification With PSSM Profiles

(2021) Zixiao Zhang et al.   Frontiers in Genetics

The advantages of the Matthews correlation coefficient (MCC) over F1 score and accuracy in binary classification evaluation

(2020) Davide Chicco et al.   BMC GENOMICS

Improved protein structure prediction using potentials from deep learning

(2020) Andrew W. Senior et al.   NATURE

Function of the SNARE Ykt6 on autophagosomes requires the Dsl1 complex and the Atg1 kinase complex

(2020) Jieqiong Gao et al.   EMBO REPORTS

i6mA-Pred: Identifying DNA N6-methyladenine sites in the rice genome

(2019) Wei Chen et al.   BIOINFORMATICS

Occurrence of the potent mutagens 2- nitrobenzanthrone and 3-nitrobenzanthrone in fine airborne particles

(2019) Aldenor G. Santos et al.   Scientific Reports

Prosit: proteome-wide prediction of peptide tandem mass spectra by deep learning

(2019) Siegfried Gessulat et al.   NATURE METHODS

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

KRAS regulation by small non-coding RNAs and SNARE proteins

(2019) Yonglu Che et al.   Nature Communications

DeepFam: deep learning based alignment-free method for protein family modeling and prediction

(2018) Seokjun Seo et al.   BIOINFORMATICS

iFeature: a Python package and web server for features extraction and selection from protein and peptide sequences

(2018) Zhen Chen et al.   BIOINFORMATICS

Optimal classifier for imbalanced data using Matthews Correlation Coefficient metric

(2017) Sabri Boughorbel et al.   PLoS One

Applications of Deep Learning in Biomedicine

(2016) Polina Mamoshina et al.   MOLECULAR PHARMACEUTICS

Role of SNARE proteins in tumourigenesis and their potential as targets for novel anti-cancer therapeutics

(2015) Jianghui Meng et al.   BIOCHIMICA ET BIOPHYSICA ACTA-REVIEWS ON CANCER

Deep learning

(2015) Yann LeCun et al.   NATURE

Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning

(2015) Babak Alipanahi et al.   NATURE BIOTECHNOLOGY

The destructive effect of botulinum neurotoxins on the SNARE protein: SNAP-25 and synaptic membrane fusion

(2015) Bin Lu   PeerJ

Blockade of the SNARE Protein Syntaxin 1 Inhibits Glioblastoma Tumor Growth

(2015) Fausto Ulloa et al.   PLoS One

UniProt: a hub for protein information

(2014)   NUCLEIC ACIDS RESEARCH

On Position-Specific Scoring Matrix for Protein Function Prediction

(2010) Jong Cheol Jeong et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Chaperoning the SNAREs: a role in preventing neurodegeneration?

(2010) Robert D. Burgoyne et al.   NATURE CELL BIOLOGY

TI-VAMP/VAMP7 and VAMP3/cellubrevin: two v-SNARE proteins involved in specific steps of the autophagy/multivesicular body pathways

(2009) Claudio Marcelo Fader et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Membrane fusion

(2008) William Wickner et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY