ArticleNucleic acids research2016
APID interactomes: providing proteome-based interactomes with controlled quality for multiple species and derived networks.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
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- Interactomics: Dissecting Protein Networks in Living Systems.Advances in experimental medicine and biology · 2026Review
- A collaborative network analysis for the interpretation of transcriptomics data in Huntington's disease.Scientific reports · 2025Article
- Multitask Learning-Based Approaches for Protein Function Prediction.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Expression of Network Medicine-Predicted Genes in Human Macrophages Infected withInternational journal of molecular sciences · 2024Article
- An integrative network-based approach to identify driving gene communities in chronic obstructive pulmonary disease.NPJ systems biology and applications · 2024Article
- System-level analysis of genes mutated in muscular dystrophies reveals a functional pattern associated with muscle weakness distribution.Scientific reports · 2024Article
- Evaluating GPT and BERT models for protein-protein interaction identification in biomedical text.Bioinformatics advances · 2024Article
- Evaluation of GPT and BERT-based models on identifying proteinprotein interactions in biomedical text.ArXiv · 2023Article
- Analysis of asymptomatic Drosophila models for ALS and SMA reveals convergent impact on functional protein complexes linked to neuro-muscular degeneration.BMC genomics · 2023Article
- Link Prediction with Continuous-Time Classical and Quantum Walks.Entropy (Basel, Switzerland) · 2023Article
- Interactomes of Glycogen Synthase Kinase-3 Isoforms.Journal of proteome research · 2023Article
- Computational Methods and Deep Learning for Elucidating Protein Interaction Networks.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Identifying novel interactions of the colon-cancer related APC protein with Wnt-pathway nuclear transcription factors.Cancer cell international · 2022Article
- Analysis of host-pathogen gene association networks reveals patient-specific response to streptococcal and polymicrobial necrotising soft tissue infections.BMC medicine · 2022Article
- MP-VHPPI: Meta predictor for viral host protein-protein interaction prediction in multiple hosts and viruses.Frontiers in medicine · 2022Article
- A multitask transfer learning framework for the prediction of virus-human protein-protein interactions.BMC bioinformatics · 2021Article
- Revealing protein-protein interactions at the transcriptome scale by sequencing.Molecular cell · 2021Article
- Global effects of RAB3GAP1 dysexpression on the proteome of mouse cortical neurons.Amino acids · 2021Article
- Predicting Protein-Protein Interactions Using Symmetric Logistic Matrix Factorization.Journal of chemical information and modeling · 2021Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
APID (Agile Protein Interactomes DataServer) is an interactive web server that provides unified generation and delivery of protein interactomes mapped to their respective proteomes. This resource is a new, fully redesigned server that includes a comprehensive collection of protein interactomes for more than 400 organisms (25 of which include more than 500 interactions) produced by the integration of only experimentally validated protein-protein physical interactions. For each protein-protein interaction (PPI) the server includes currently reported information about its experimental validation to allow selection and filtering at different quality levels. As a whole, it provides easy access to the interactomes from specific species and includes a global uniform compendium of 90,379 distinct proteins and 678,441 singular interactions. APID integrates and unifies PPIs from major primary databases of molecular interactions, from other specific repositories and also from experimentally resolved 3D structures of protein complexes where more than two proteins were identified. For this purpose, a collection of 8,388 structures were analyzed to identify specific PPIs. APID also includes a new graph tool (based on Cytoscape.js) for visualization and interactive analyses of PPI networks. The server does not require registration and it is freely available for use at http://apid.dep.usal.es.
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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.