ArticleNucleic acids research2003
SPINE 2: a system for collaborative structural proteomics within a federated database framework.
Article in Nucleic acids research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- SpecDB: A relational database for archiving biomolecular NMR spectral data.Journal of magnetic resonance (San Diego, Calif. : 1997) · 2022Article
- Codon usage clusters correlation: towards protein solubility prediction in heterologous expression systems in E. coli.Scientific reports · 2018Article
- The accurate assessment of small-angle X-ray scattering data.Acta crystallographica. Section D, Biological crystallography · 2015Article
- Data management in the modern structural biology and biomedical research environment.Methods in molecular biology (Clifton, N.J.) · 2014Article
- The Protein Structure Initiative Structural Biology Knowledgebase Technology Portal: a structural biology web resource.Journal of structural and functional genomics · 2012Article
- MolabIS--an integrated information system for storing and managing molecular genetics data.BMC bioinformatics · 2011Article
- Large-scale experimental studies show unexpected amino acid effects on protein expression and solubility in vivo in E. coli.Microbial informatics and experimentation · 2011Article
- The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory.Acta crystallographica. Section D, Biological crystallography · 2011Article
- LabKey Server: an open source platform for scientific data integration, analysis and collaboration.BMC bioinformatics · 2011Article
- Structures of domains I and IV from YbbR are representative of a widely distributed protein family.Protein science : a publication of the Protein Society · 2011Article
- Preparation of protein samples for NMR structure, function, and small-molecule screening studies.Methods in enzymology · 2011Article
- The high-throughput protein sample production platform of the Northeast Structural Genomics Consortium.Journal of structural biology · 2010Article
- Advances in protein NMR provided by the NIGMS Protein Structure Initiative: impact on drug discovery.Current opinion in drug discovery & development · 2010Review
- Predicting protein crystallization propensity from protein sequence.Journal of structural and functional genomics · 2010Article
- Accurate automated protein NMR structure determination using unassigned NOESY data.Journal of the American Chemical Society · 2010Article
- A microscale protein NMR sample screening pipeline.Journal of biomolecular NMR · 2010Article
- PARPs database: a LIMS systems for protein-protein interaction data mining or laboratory information management system.BMC bioinformatics · 2007Article
- Natively unstructured loops differ from other loops.PLoS computational biology · 2007Article
- LinkHub: a Semantic Web system that facilitates cross-database queries and information retrieval in proteomics.BMC bioinformatics · 2007Review
- Development of an open source laboratory information management system for 2-D gel electrophoresis-based proteomics workflow.BMC bioinformatics · 2006Article
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Authors and funding
13 authors.
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Abstract
We present version 2 of the SPINE system for structural proteomics. SPINE is available over the web at http://nesg.org. It serves as the central hub for the Northeast Structural Genomics Consortium, allowing collaborative structural proteomics to be carried out in a distributed fashion. The core of SPINE is a laboratory information management system (LIMS) for key bits of information related to the progress of the consortium in cloning, expressing and purifying proteins and then solving their structures by NMR or X-ray crystallography. Originally, SPINE focused on tracking constructs, but, in its current form, it is able to track target sample tubes and store detailed sample histories. The core database comprises a set of standard relational tables and a data dictionary that form an initial ontology for proteomic properties and provide a framework for large-scale data mining. Moreover, SPINE sits at the center of a federation of interoperable information resources. These can be divided into (i) local resources closely coupled with SPINE that enable it to handle less standardized information (e.g. integrated mailing and publication lists), (ii) other information resources in the NESG consortium that are inter-linked with SPINE (e.g. crystallization LIMS local to particular laboratories) and (iii) international archival resources that SPINE links to and passes on information to (e.g. TargetDB at the PDB).
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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.