Papers Protein Secondary Structure Prediction
“Protein Secondary Structure Prediction” 태그가 달린 논문 29편 · 필터 해제
Multi-objective Genetic Programming with Multi-view Multi-level Feature for Enhanced Protein Secondary Structure Prediction
Predicting protein secondary structure is essential for understanding protein function and advancing drug discovery. However, the intricate sequence-structure relationship poses significant challenges for accurate modeli…
Protein Secondary Structure PredictionDrug DiscoveryProtein Secondary Structure Prediction Using Transformers
Predicting protein secondary structures such as alpha helices, beta sheets, and coils from amino acid sequences is essential for understanding protein function. This work presents a transformer-based model that applies a…
Protein Secondary Structure PredictionData AugmentationProtein Secondary Structure Prediction Using 3D Graphs and Relation-Aware Message Passing Transformers
In this study, we tackle the challenging task of predicting secondary structures from protein primary sequences, a pivotal initial stride towards predicting tertiary structures, while yielding crucial insights into prote…
Protein Secondary Structure PredictionProtein Language ModelSingle-Sequence-Based Protein Secondary Structure Prediction using One-Hot and Chemical Encodings of Amino Acids
In protein secondary structure prediction, each amino acid in sequence is typically treated as a distinct category and represented by a one-hot vector. In this study, we developed two novel chemical representations for a…
Dimensionality ReductionProtein Secondary Structure PredictionA Protein Structure Prediction Approach Leveraging Transformer and CNN Integration
Proteins are essential for life, and their structure determines their function. The protein secondary structure is formed by the folding of the protein primary structure, and the protein tertiary structure is formed by t…
Language ModelingLanguage ModellingPredictionProtein Language Model+2PS4: a Next-Generation Dataset for Protein Single Sequence Secondary Structure Prediction
Protein secondary structure prediction is a subproblem of protein folding. A lightweight algorithm capable of accurately predicting secondary structure from only the protein residue sequence could therefore provide a use…
PredictionProtein FoldingProtein Secondary Structure PredictionConvolutional ProteinUnetLM competitive with long short-term memory-based protein secondary structure predictors
The protein secondary structure (SS) prediction plays an important role in the characterization of general protein structure and function. In recent years, a new generation of algorithms for SS prediction based on embedd…
Multiple Sequence AlignmentPredictionProtein Secondary Structure PredictionUNET SegmentationApproximate Conditional Coverage & Calibration via Neural Model Approximations
A typical desideratum for quantifying the uncertainty from a classification model as a prediction set is class-conditional singleton set calibration. That is, such sets should map to the output of well-calibrated selecti…
ClassificationDocument ClassificationFact VerificationGrammatical Error Detection+3DistilProtBert: A distilled protein language model used to distinguish between real proteins and their randomly shuffled counterparts
Recently, Deep Learning models, initially developed in the field of Natural Language Processing (NLP), were applied successfully to analyze protein sequences. A major drawback of these models is their size in terms of th…
Dimensionality ReductionKnowledge DistillationLanguage ModelingLanguage Modelling+3ProteinBERT: a universal deep-learning model of protein sequence and function
Self-supervised deep language modeling has shown unprecedented success across natural language tasks, and has recently been repurposed to biological sequences. However, existing models and pretraining methods are designe…
Language ModelingLanguage ModellingProtein Secondary Structure PredictionProtein Structure PredictionAdaptive Residue-wise Profile Fusion for Low Homologous Protein SecondaryStructure Prediction Using External Knowledge
Protein secondary structure prediction (PSSP) is essential for protein function analysis. However, for low homologous proteins, the PSSP suffers from insufficient input features. In this paper, we explicitly import exter…
Protein Secondary Structure PredictionDLPAlign: A Deep Learning based Progressive Alignment Method for Multiple Protein Sequences
This paper proposed a novel and straightforward approach to improve the accuracy of progressive multiple protein sequence alignment method. We trained a decision-making model based on the convolutional neural networks an…
Decision MakingMultiple Sequence AlignmentProtein Secondary Structure PredictionPS8-Net: A Deep Convolutional Neural Network to Predict the Eight-State Protein Secondary Structure
Protein secondary structure is crucial to creating an information bridge between the primary and tertiary (3D) structures. Precise prediction of eight-state protein secondary structure (PSS) has significantly utilized in…
PredictionProtein Secondary Structure PredictionProtTrans: Towards Cracking the Language of Life's Code Through Self-Supervised Deep Learning and High Performance Computing
Computational biology and bioinformatics provide vast data gold-mines from protein sequences, ideal for Language Models taken from NLP. These LMs reach for new prediction frontiers at low inference costs. Here, we traine…
Dimensionality ReductionProtein Secondary Structure PredictionDeeper Profiles and Cascaded Recurrent and Convolutional Neural Networks for state-of-the-art Protein Secondary Structure Prediction
Protein Secondary Structure prediction has been a central topic of research in Bioinformatics for decades. In spite of this, even the most sophisticated ab initio SS predictors are not able to reach the theoretical limit…
Protein Secondary Structure PredictionSeq-SetNet: Exploring Sequence Sets for Inferring Structures
Sequence set is a widely-used type of data source in a large variety of fields. A typical example is protein structure prediction, which takes an multiple sequence alignment (MSA) as input and aims to infer structural in…
Multiple Sequence AlignmentProtein Secondary Structure PredictionProtein Structure PredictionProteinNet: a standardized data set for machine learning of protein structure
Rapid progress in deep learning has spurred its application to bioinformatics problems including protein structure prediction and design. In classic machine learning problems like computer vision, progress has been drive…
BIG-bench Machine LearningProtein Secondary Structure PredictionProtein Structure PredictionNeural Edit Operations for Biological Sequences
The evolution of biological sequences, such as proteins or DNAs, is driven by the three basic edit operations: substitution, insertion, and deletion. Motivated by the recent progress of neural network models for biologic…
Protein Secondary Structure PredictionHigh Quality Prediction of Protein Q8 Secondary Structure by Diverse Neural Network Architectures
We tackle the problem of protein secondary structure prediction using a common task framework. This lead to the introduction of multiple ideas for neural architectures based on state of the art building blocks, used in t…
Protein Secondary Structure PredictionPorter 5: fast, state-of-the-art ab initio prediction of protein secondary structure in 3 and 8 classes
Motivation: Although secondary structure predictors have been developed for decades, current ab initio methods have still some way to go to reach their theoretical limits. Moreover, the continuous effort towards harnessi…
Protein Secondary Structure Prediction