ArticleBriefings in bioinformatics2009
A survey of available tools and web servers for analysis of protein-protein interactions and interfaces.
Article in Briefings in bioinformatics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
48 citing papers in PubMed.
- PDBe PISA: Enhanced Analysis of Macromolecular Interactions.Current protocols · 2026Article
- Design of novel PI3Kα and PI3Kγ inhibitors for cancer treatment using pharmacophore, protein-ligand contacts, and machine learning methods.Journal of computer-aided molecular design · 2026Article
- On the identification of potential novel therapeutic targets for spinocerebellar ataxia type 1 (SCA1) neurodegenerative disease using EvoPPI3.Journal of integrative bioinformatics · 2023Article
- Classification and prediction of protein-protein interaction interface using machine learning algorithm.Scientific reports · 2021Article
- Article
- Current Challenges and Opportunities in Designing Protein-Protein Interaction Targeted Drugs.Advances and applications in bioinformatics and chemistry : AABC · 2020Review
- In silico structure-based approaches to discover protein-protein interaction-targeting drugs.Methods (San Diego, Calif.) · 2017Review
- AnkPlex: algorithmic structure for refinement of near-native ankyrin-protein docking.BMC bioinformatics · 2017Article
- Intensification: A Resource for Amplifying Population-Genetic Signals with Protein Repeats.Journal of molecular biology · 2017Article
- Molecular modeling of the AhR structure and interactions can shed light on ligand-dependent activation and transformation mechanisms.Current opinion in toxicology · 2017Article
- Progress and challenges in predicting protein interfaces.Briefings in bioinformatics · 2016Review
- Ens-PPI: A Novel Ensemble Classifier for Predicting the Interactions of Proteins Using Autocovariance Transformation from PSSM.BioMed research international · 2016Article
- Article
- Sequence specificity between interacting and non-interacting homologs identifies interface residues--a homodimer and monomer use case.BMC bioinformatics · 2015Article
- Flexibility and small pockets at protein-protein interfaces: New insights into druggability.Progress in biophysics and molecular biology · 2015Review
- Integrated web visualizations for protein-protein interaction databases.BMC bioinformatics · 2015Article
- Algorithmic approaches to protein-protein interaction site prediction.Algorithms for molecular biology : AMB · 2015Article
- Drug-Like Protein-Protein Interaction Modulators: Challenges and Opportunities for Drug Discovery and Chemical Biology.Molecular informatics · 2014Review
- Improved multi-level protein-protein interaction prediction with semantic-based regularization.BMC bioinformatics · 2014Article
- DockRank: ranking docked conformations using partner-specific sequence homology-based protein interface prediction.Proteins · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
The unanimous agreement that cellular processes are (largely) governed by interactions between proteins has led to enormous community efforts culminating in overwhelming information relating to these proteins; to the regulation of their interactions, to the way in which they interact and to the function which is determined by these interactions. These data have been organized in databases and servers. However, to make these really useful, it is essential not only to be aware of these, but in particular to have a working knowledge of which tools to use for a given problem; what are the tool advantages and drawbacks; and no less important how to combine these for a particular goal since usually it is not one tool, but some combination of tool-modules that is needed. This is the goal of this review.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.