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Multiple Sequence Alignment

Papers

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Showing 1–50 of 54 papers

TitleStatusHype
Expert-guided protein language models enable accurate and blazingly fast fitness predictionCode1
MSAGPT: Neural Prompting Protein Structure Prediction via MSA Generative Pre-TrainingCode1
PEvoLM: Protein Sequence Evolutionary Information Language ModelCode1
PoET: A generative model of protein families as sequences-of-sequencesCode1
Enhancing the Protein Tertiary Structure Prediction by Multiple Sequence Alignment GenerationCode1
ApHMM: Accelerating Profile Hidden Markov Models for Fast and Energy-Efficient Genome AnalysisCode1
Exploring evolution-aware & -free protein language models as protein function predictorsCode1
Neural Distance Embeddings for Biological SequencesCode1
Align-RUDDER: Learning From Few Demonstrations by Reward RedistributionCode1
Accurate Protein Structure Prediction by Embeddings and Deep Learning RepresentationsCode1
Riemannian Time Warping: Multiple Sequence Alignment in Curved Spaces—0
State-aware protein-ligand complex prediction using AlphaFold3 with purified sequences—0
CVTree for 16S rRNA: Constructing Taxonomy-Compatible All-Species Living Tree Effectively and Efficiently—0
Advanced Deep Learning Methods for Protein Structure Prediction and Design—0
Deep Time Warping for Multiple Time Series Alignment—0
ContactNet: Geometric-Based Deep Learning Model for Predicting Protein-Protein Interactions—0
PenSLR: Persian end-to-end Sign Language Recognition Using Ensembling—0
ESM-NBR: fast and accurate nucleic acid-binding residue prediction via protein language model feature representation and multi-task learningCode0
High Performance Multiple Sequence Alignment Algorithms for Comparison of Microbial Genomes—0
Dynamic Programming Algorithms for Discovery of Antibiotic Resistance in Microbial Genomes—0
Linear normalised hash function for clustering gene sequences and identifying reference sequences from multiple sequence alignments—0
Aligning Speakers: Evaluating and Visualizing Text-based Diarization Using Efficient Multiple Sequence Alignment (Extended Version)—0
Convolutional ProteinUnetLM competitive with long short-term memory-based protein secondary structure predictorsCode0
Small Coupling Expansion for Multiple Sequence Alignment—0
Pairwise sequence alignment at arbitrarily large evolutionary distance—0
Few Shot Protein Generation—0
Un nouvel algorithme pour la detection des transferts horizontaux de genes partiels entre les especes et pour la classification des transferts inferes—0
PEACH Tree: A Multiple Sequence Alignment and Tree Display Tool for Epidemiologists—0
Pre-training Co-evolutionary Protein Representation via A Pairwise Masked Language Model—0
Application of Sequence Embedding in Protein Sequence-Based Predictions—0
MNHN-Tree-Tools: a toolbox for tree inference using multi-scale clustering of a set of sequencesCode0
MSA Transformer—0
DLPAlign: A Deep Learning based Progressive Alignment Method for Multiple Protein SequencesCode0
Pairwise heuristic sequence alignment algorithm based on deep reinforcement learning—0
Neural Time Warping For Multiple Sequence Alignment—0
Boltzmann machine learning and regularization methods for inferring evolutionary fields and couplings from a multiple sequence alignment—0
Seq-SetNet: Exploring Sequence Sets for Inferring Structures—0
Privacy Preserving Location Data Publishing: A Machine Learning Approach—0
Influence of Multiple Sequence Alignment Depth on Potts Statistical Models of Protein Covariation—0
Multiple Sequence Alignment is not a Solved Problem—0
Optimizing scoring function of dynamic programming of pairwise profile alignment using derivative free neural networkCode0
Full Reconstruction of Non-Stationary Strand-Symmetric Models on Rooted Phylogenies—0
QuickProbs 2: towards rapid construction of high-quality alignments of large protein familiesCode0
Aligning 415 519 proteins in less than two hours on PC—0
Identifying relevant positions in proteins by Critical Variable Selection—0
Statistically-Consistent k-mer Methods for Phylogenetic Tree Reconstruction—0
Predicting diverse M-best protein contact maps—0
Multiple sequence alignment for short sequences—0
Liquid-theory analogy of direct-coupling analysis of multiple-sequence alignment and its implications for protein structure prediction—0
Ultra-large alignments using Phylogeny-aware ProfilesCode0
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All datasetsBAliBASE v3OXBenchSABMark v1.65

Benchmark Results

#ModelMetricClaimedVerifiedStatus
1dlpalign_cnn_bilstmTotal Column Score65.47—Unverified
#ModelMetricClaimedVerifiedStatus
1dlpalign_cnn_bilstmTotal Column Score82.52—Unverified
#ModelMetricClaimedVerifiedStatus
1dlpalign_cnn_bilstmTotal Column Score42.59—Unverified