Research graph
References from Integrating AlphaFold2 models and clinical data to improve the assessment of Short Linear Motifs (SLiMs) and their variants’ pathogenicity. Local targets link to admitted publications; unresolved targets remain external evidence.
Short linear motifs: ubiquitous and functionally diverse protein interaction modules directing cell regulation
10.1021/cr400585q · 2014 · External reference
Novel peptide-mediated interactions derived from high-resolution 3-dimensional structures
10.1371/journal.pcbi.1000789 · 2010 · External reference
The identification of short linear motif-mediated interfaces within the human interactome
10.1093/bioinformatics/bts072 · 2012 · External reference
A million peptide motifs for the molecular biologist
10.1016/j.molcel.2014.05.032 · 2014 · External reference
ELM-the Eukaryotic Linear Motif resource-2024 update
10.1093/nar/gkad1058 · 2024 · External reference
Computational prediction of short linear motifs from protein sequences
10.1007/978-1-4939-2285-7_6 · 2015 · External reference
Minimotif Miner 4: a million peptide minimotifs and counting
2018 · External reference
The MEME Suite
10.1093/nar/gkv416 · 2015 · External reference
PSSMSearch: a server for modeling, visualization, proteome-wide discovery and annotation of protein motif specificity determinants
10.1093/nar/gky426 · 2018 · External reference
Structure-templated predictions of novel protein interactions from sequence information
10.1371/journal.pcbi.0030182 · 2007 · External reference
DILIMOT: discovery of linear motifs in proteins
10.1093/nar/gkl159 · 2006 · External reference
PROSITE: a documented database using patterns and profiles as motif descriptors
10.1093/bib/3.3.265 · 2002 · External reference
SLiM-Enrich: computational assessment of protein-protein interaction data as a source of domain-motif interactions
2018 · External reference
MotSASi: Functional short linear motifs (SLiMs) prediction based on genomic single nucleotide variants and structural data
10.1016/j.biochi.2022.02.002 · 2022 · External reference
RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences
10.1093/nar/gkaa1038 · 2021 · External reference
FoldX 5.0: working with RNA, small molecules and a new graphical interface
10.1093/bioinformatics/btz184 · 2019 · External reference
ClinVar: improving access to variant interpretations and supporting evidence
10.1093/nar/gkx1153 · 2018 · External reference
A genomic mutational constraint map using variation in 76,156 human genomes
10.1038/s41586-023-06045-0 · 2024 · External reference
Flanking regions, amyloid cores, and polymorphism: the potential interplay underlying structural diversity
10.1016/j.jbc.2023.105122 · 2023 · External reference
Flanking regions, amyloid cores, and polymorphism: the potential interplay underlying structural diversity
10.1016/j.jbc.2023.105122 · 2023 · External reference
Uncovering domain motif interactions using high-throughput protein-protein interaction detection methods
10.1002/1873-3468.14841 · 2024 · External reference
Accurate prediction of protein structures and interactions using a three-track neural network
10.1126/science.abj8754 · 2021 · External reference
Evolutionary-scale prediction of atomic-level protein structure with a language model
10.1126/science.ade2574 · 2023 · External reference
Highly accurate protein structure prediction with AlphaFold
10.1038/s41586-021-03819-2 · 2021 · External reference
10.1101/2021.10.04.463034
10.1101/2021.10.04.463034 · 2021 · External reference
Ranking Peptide Binders by Affinity with AlphaFold**
10.1002/ange.202213362 · 2023 · External reference
Unresolved reference
2023 · External reference
UniProt: the Universal Protein Knowledgebase in 2025
10.1093/nar/gkae1010 · 2025 · External reference
Study of the impact of ClinGen Revisions on ACMG/AMP variant semi-automatic classification for Rare Diseases diagnosis
10.1016/j.cca.2024.120065 · 2025 · External reference
MAFFT multiple sequence alignment software version 7: improvements in performance and usability
10.1093/molbev/mst010 · 2013 · External reference
Predicting functionally important residues from sequence conservation
10.1093/bioinformatics/btm270 · 2007 · External reference
Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles
10.1002/prot.10082 · 2002 · External reference
Unresolved reference
External reference
FreeSASA: An open source C library for solvent accessible surface area calculations
10.12688/f1000research.7931.1 · 2016 · External reference
The Gene Ontology knowledgebase in 2023
10.1093/genetics/iyad031 · 2023 · External reference
VMD: visual molecular dynamics
10.1016/0263-7855(96)00018-5 · 1996 · External reference
seaborn: statistical data visualization
10.21105/joss.03021 · 2021 · External reference
AlphaFold2 protein structure prediction: Implications for drug discovery
10.1016/j.sbi.2022.102526 · 2023 · External reference
AlphaFold two years on: validation and impact
2024 · External reference
AlphaFold2-Based Characterization of Apo and Holo Protein Structures and Conformational Ensembles Using Randomized Alanine Sequence Scanning Adaptation: Capturing Shared Signature Dynamics and Ligand-Induced Conformational Changes
10.3390/ijms252312968 · 2024 · External reference
Structural basis for the regulation of L-type voltage-gated calcium channels: interactions between the N-terminal cytoplasmic domain and Ca(2+)-calmodulin
2012 · External reference
Loss of Ca(v)1.3 (CACNA1D) function in a human channelopathy with bradycardia and congenital deafness
10.1038/nn.2694 · 2011 · External reference
10.1101/2022.03.17.484479
10.1101/2022.03.17.484479 · 2022 · External reference
Highly accurate protein structure prediction for the human proteome
10.1038/s41586-021-03828-1 · 2021 · External reference
Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology
10.1038/gim.2015.30 · 2015 · External reference
Analysis of AlphaMissense data in different protein groups and structural context
10.1038/s41597-024-03327-8 · 2024 · External reference
The advantages of the Matthews correlation coefficient (MCC) over F1 score and accuracy in binary classification evaluation
10.1186/s12864-019-6413-7 · 2020 · External reference
ACMG SF v3.2 list for reporting of secondary findings in clinical exome and genome sequencing: A policy statement of the American College of Medical Genetics and Genomics (ACMG)
10.1016/j.gim.2023.100866 · 2023 · External reference
