Quartz 4

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Homology

Created Sep 26, 2026Modified Sep 07, 2026

Homology detection, sequence and structural alignment, remote similarity, and conservation across related proteins.

21 items with this tag.

Aug 25, 2026
Most assignments of genetic novelty due to homolog detection failure
- evolution/homology
- evolution/selection
Aug 25, 2026
PLM searches can improve remote-homology detection beyond profile HMMs
- evolution/homology
- inference/feature-extraction
Apr 21, 2026
Discrete structure tokens are worse than continuous representations for structural alignment tasks
- evolution/homology
- model-design/multimodal
Apr 21, 2026
Larger PLMs are better at homolog detection
- evolution/homology
- training/pretraining-and-scaling
Apr 21, 2026
Most viral proteins are structurally distinct from eukaryotic proteins
- evolution/selection
- evolution/homology
Apr 21, 2026
Multiple sequence alignments
- evolution/homology
Apr 21, 2026
PLM embeddings contain enough information to align proteins without fine-tuning
- evolution/homology
- inference/feature-extraction
Apr 21, 2026
PLM-based sequence searches outperform sequence- and matches structure-based search methods
- evolution/homology
- inference/feature-extraction
Apr 21, 2026
Protein structure more conserved than sequence
- evolution/homology
- evolution/selection
Apr 21, 2026
Structural classifications can be learned from PLM-based alignment prediction
- evolution/homology
- inference/feature-extraction
Apr 21, 2026
Structure-derived embeddings outperform sequence-derived embeddings on LM-based alignment
- evolution/homology
- model-design/multimodal
Apr 21, 2026
The AlphaFold and ESMFold databases can be mined for alternate conformations
- prediction/ensembles
- evolution/homology
Apr 21, 2026
Contrastive learning of PLM embeddings on functional annotation improves variant effect prediction and homolog detection
Apr 21, 2026
Dynamic time warping
- evolution/homology
- antibodies/architecture
Apr 21, 2026
Length independent clustering improves CDR prediction
- prediction/antibody-structure
- evolution/homology
Apr 21, 2026
Sequence clusters and structural clusters of CDRH3 do not overlap
- antibodies/architecture
- evolution/homology
Apr 21, 2026
Structural models can be aligned at their ligand-binding sites using weighted-exponential term
- prediction/ligand-docking
- evolution/homology
Apr 21, 2026
Viral protein MSAs fail to recapitulate contacts from evolutionary coupling analyses
- evolution/homology
- evidence/generalization
Apr 20, 2026
BLOSUM62
- evolution/homology
- evolution/mutation-effects
Apr 20, 2026
Protein structure tokenization
- model-design/multimodal
- evolution/homology
Apr 20, 2026
Alignment
- evolution/homology

Created with Quartz v4.5.2 © 2026

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