ArticleNucleic acids research2006
MIPS: analysis and annotation of proteins from whole genomes in 2005.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 141 papers.
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Who cites it
141 citing papers in PubMed.
- PCIPG: A comprehensive framework for protein complex identification based on a probabilistic graphical model.PLoS computational biology · 2026Article
- PCIPG2.0: multi-omics fusion and structure-aware graph autoencoding for protein complex identification.Bioinformatics (Oxford, England) · 2026Article
- A deep learning model for predicting essential proteins based on an attention mechanism.Frontiers in genetics · 2026Article
- Integration of protein sequence and protein-protein interaction data by hypergraph learning to identify novel protein complexes.Briefings in bioinformatics · 2024Article
- A protein network refinement method based on module discovery and biological information.BMC bioinformatics · 2024Article
- EPI-SF: essential protein identification in protein interaction networks using sequence features.PeerJ · 2024Article
- An application of node and edge nonlinear hypergraph centrality to a protein complex hypernetwork.PloS one · 2024Article
- PCGAN: a generative approach for protein complex identification from protein interaction networks.Bioinformatics (Oxford, England) · 2023Article
- Comparative analysis of gene ontology-based semantic similarity measurements for the application of identifying essential proteins.PloS one · 2023Article
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- A disease-related essential protein prediction model based on the transfer neural network.Frontiers in genetics · 2022Article
- Inference of pan-cancer related genes by orthologs matching based on enhanced LSTM model.Frontiers in microbiology · 2022Article
- Comparative Genomics across Three Ensifer Species Using a New Complete Genome Sequence of the Medicago SymbiontMicroorganisms · 2021Article
- An iteration model for identifying essential proteins by combining comprehensive PPI network with biological information.BMC bioinformatics · 2021Article
- A novel essential protein identification method based on PPI networks and gene expression data.BMC bioinformatics · 2021Article
- Predicting Protein-Protein Interactions Using Symmetric Logistic Matrix Factorization.Journal of chemical information and modeling · 2021Article
- Analysing the yeast complexome-the Complex Portal rising to the challenge.Nucleic acids research · 2021Article
- A Novel Model for Identifying Essential Proteins Based on Key Target Convergence Sets.Frontiers in genetics · 2021Article
- Method for Identifying Essential Proteins by Key Features of Proteins in a Novel Protein-Domain Network.Frontiers in genetics · 2021Article
81 more citing papers are in PubMed but not listed here.
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The Munich Information Center for Protein Sequences (MIPS at the GSF), Neuherberg, Germany, provides resources related to genome information. Manually curated databases for several reference organisms are maintained. Several of these databases are described elsewhere in this and other recent NAR database issues. In a complementary effort, a comprehensive set of >400 genomes automatically annotated with the PEDANT system are maintained. The main goal of our current work on creating and maintaining genome databases is to extend gene centered information to information on interactions within a generic comprehensive framework. We have concentrated our efforts along three lines (i) the development of suitable comprehensive data structures and database technology, communication and query tools to include a wide range of different types of information enabling the representation of complex information such as functional modules or networks Genome Research Environment System, (ii) the development of databases covering computable information such as the basic evolutionary relations among all genes, namely SIMAP, the sequence similarity matrix and the CABiNet network analysis framework and (iii) the compilation and manual annotation of information related to interactions such as protein-protein interactions or other types of relations (e.g. MPCDB, MPPI, CYGD). All databases described and the detailed descriptions of our projects can be accessed through the MIPS WWW server (http://mips.gsf.de).
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