The Functional GEnomics Data Society ( FGED ) (formerly known as the MGED Society ) was a non-profit, volunteer-run international organization of biologists, computer scientists, and data analysts that aims to facilitate biological and biomedical discovery through data integration. The approach of FGED was to promote the sharing of basic research data generated primarily via high-throughput technologies that generate large data sets within the domain of functional genomics .
30-584: MGED may refer to: The FGED Society , formerly known as the MGED Society , a genomics research data sharing organization. MGED, the "Multi-device Geometry EDitor", a computer program that is part of the BRL-CAD software. Topics referred to by the same term [REDACTED] This disambiguation page lists articles associated with the title MGED . If an internal link led you here, you may wish to change
60-523: A non-profit public benefit organization with the title Microarray Gene Expression Data Society and obtained permanent charity status in 2007. The MGED name was legally changed in 2007 to Microarray and Gene Expression Data Society to emphasize a broader scope. In September 2008, the Society decided to promote itself simply as the MGED Society to broaden the Society's scope beyond microarray technology and gene expression applications, yet still retain
90-594: A Microarray Experiment (MIAME) describes the Minimum Information About a Microarray Experiment that is needed to enable the interpretation of the results of the experiment unambiguously and potentially to reproduce the experiment and is aimed at facilitating the dissemination of data from microarray experiments. It was published by the FGED Society in 2001 and was the first published minimum information standard for high-throughput experiments in
120-532: A cross-section of those generating, analyzing, archiving, and publishing in the functional genomics area. Although there is no formal membership, the attendees of the annual FGED meetings are considered to be part of the FGED community. To date, FGED has produced a variety of standards specifications pertaining to DNA microarray experiments. These standards are designed to improve the annotation, communication, and sharing of data and findings from such experiments within
150-617: A flow cytometry experiment . Criteria for Minimum Information About a Phylogenetic Analysis were described in 2006. The MIRAGE project is supported and coordinated by the Beilstein-Institut to establish guidelines for data handling and processing in glycomics research [1] The Minimal Information Required In the Annotation of Models ( MIRIAM ), is a set of rules for the curation and annotation of quantitative models of biological systems. The Minimum Information About
180-491: A reader to interpret and critically evaluate the processes performed and the conclusions reached, and to support their experimental corroboration. In practice a MINI module comprises a checklist of information that should be provided (for example about the protocols employed) when a data set is described for publication. The full specification of the MINI module can be found here. Minimum Information About an RNAi Experiment (MIARE)
210-556: A standard terminology for describing components of a DNA microarray experiment. The Ontology for Biomedical Investigations (OBI) is being developed as a replacement for the MO. A mapping of ontology terms from MO to OBI is available. A major component of the FGED Society effort has been the annual FGED meeting to showcase cutting-edge scientific work and promote standards. The FGED Society has held its annual meeting at venues around
240-525: A wide variety of scales from single ion channel proteins to whole tissues. This document is a single module, as part of the Minimum Information about a Neuroscience investigation (MINI) family of reporting guideline documents, produced by community consultation and continually available for public comment. A MINI module represents the minimum information that should be reported about a dataset to facilitate computational access and analysis to allow
270-414: Is a data reporting guideline which describes the minimum information that should be reported about an RNAi experiment to enable the unambiguous interpretation and reproduction of the results. Advances in genomics and functional genomics have enabled large-scale analyses of gene and protein function by means of high-throughput cell biological analyses. Thereby, cells in culture can be perturbed in vitro and
300-454: Is a data content standard that describes the essential information needed to adequately document a DNA microarray experiment for the purpose of interpretation and replication of the results. It was the first published example of a minimum information standard for high-throughput experiments in the life sciences, and as such, laid the groundwork for similar standards in other bioscience domains. MAGE-OM (MicroArray Gene Expression Object Model)
330-622: Is a data exchange and data modeling standard for use in encoding data from microarray experiments for the purpose of export and import into software tools and databases via XML files. MAGE-OM is a platform-independent model implemented in the XML-based MAGE-ML format. A new version, MAGE-TAB , has been developed to be easier to understand and generate by data producers as it is in a format ( tab-delimited ) that can be viewed and edited using widely available spreadsheet software, such as Microsoft Excel . The MGED Ontology (MO) provides
SECTION 10
#1732793385213360-548: Is a set of reporting requirements – typically presented as a table or a checklist. Secondly, there is a data format. Information about an experiment needs to be converted into the appropriate data format for it to be submitted to the relevant database. In the case of MIAME , the data format is provided in spreadsheet format (MAGE-TAB). Some of the communities that maintain minimum information standards also provide tools to help experimental researchers to annotate their data. The individual minimum information standards are brought by
390-674: Is primarily maintained through the EMBL-EBI Industry program (www.ebi.ac.uk/industry). This specification is being developed by the Genomic Standards Consortium The Minimum Information about a Flow Cytometry Experiment (MIFlowCyt) is a standard related to flow cytometry which establishes criteria to record information on experimental overview, samples, instrumentation and data analysis. It promotes consistent annotation of clinical, biological and technical issues surrounding
420-522: Is since 2008 being harmonized by "Minimum Information about a Biomedical or Biological Investigation" (MIBBI) project. MIAPPE is an open, community driven project to harmonize data from plant phenotyping experiments. MIAPPE comprises both a conceptual checklist of metadata required to adequately describe a plant phenotyping experiment. Published in 2009 these guidelines for the basis of requirements by many journals when submitting QPCR data, sadly they are not adhered to enough. Minimum Information About
450-591: Is to ensure the data generated by these methods can be easily verified, analysed and interpreted by the wider scientific community . Ultimately, they facilitate the transfer of data from journal articles (unstructured data) into databases (structured data) in a form that enables data to be mined across multiple data sets. Minimal information standards are available for a vast variety of experiment types including microarray ( MIAME ), RNAseq ( MINSEQE ), metabolomics (MSI) and proteomics ( MIAPE ). Minimum information standards typically have two parts. Firstly, there
480-414: The FGED Society ceased operations. The FGED Society was formed in 1999 at a meeting on Microarray Gene Expression Databases in recognition of the need to establish standards for sharing and storing data from DNA microarray experiments. Originally named the "MGED Society," the society began with a focus on DNA microarrays and gene expression data. The original MGED Society was incorporated in 2002 as
510-789: The Molecular Interaction worktrack of the HUPO-PSI (www.psidev.info) and describes the Minimum Information about a Molecular Interaction experiment. The Minimum Information About a Protein Affinity Reagent has been developed and maintained by the Molecular Interaction worktrack of the HUPO-PSI (www.psidev.info)in conjunction with the HUPO Antibody Initiative and a European consortium of binder producers and seeks to encourage users to improve their description of binding reagents, such as antibodies, used in
540-509: The biological processes addressed and understand biological principles. We propose the Minimum Information About a Cellular Assay (MIACA) for reporting a cellular assay, and CA-OM, the modular cellular assay object model, to facilitate exchange of data and accompanying information, and to compare and integrate data that originate from different, albeit complementary approaches, and to elucidate higher order principles. Documents describing MIACA are available and provide further information as well as
570-435: The checklist of terms that should be reported. The Minimum Information About a Proteomic Experiment documents describe information which should be given along with a proteomic experiment. The parent document describes the processes and principles underpinning the development of a series of domain specific documents which now cover all aspects of a MS-based proteomics workflow. This document has been developed and maintained by
600-546: The communities of cross-disciplinary specialists focused on the problematic of the specific method used in experimental biology. The standards then provide specifications what information about the experiments ( metadata ) is crucial and important to be reported together with the resultant data to make it comprehensive. The need for this standardization is largely driven by the development of high-throughput experimental methods that provide tremendous amounts of data. The development of minimum information standards of different methods
630-445: The effective sharing and reproducibility of functional genomics data; facilitate the creation of standards and software tools that leverage the standards; and promote the sharing of high quality, well annotated data within the life sciences and biomedical communities. Founded in 1999 as the "Microarray Gene Expression Data (MGED) Society", this organization changed its name to the "Functional Genomics Data Society" in 2010 to reflect
SECTION 20
#1732793385213660-405: The fact that it has broadened its focus beyond the application of DNA microarrays for gene expression analysis to include technologies such as high-throughput sequencing . The scope of the FGED Society includes data generated using any functional genomics technology when applied to genome-scale studies of gene expression, binding, modification and other related applications. In September 2021,
690-434: The induced effects recorded and analyzed. Perturbations can be triggered in several ways, for instance with molecules (siRNAs, expression constructs, small chemical compounds, ligands for receptors, etc.), through environmental stresses (such as temperature shift, serum starvation, oxygen deprivation, etc.), or combinations thereof. The cellular responses to such perturbations are analyzed in order to identify molecular events in
720-405: The life science research community. Minimal Information about a high-throughput SEQuencing Experiment (MINSEQE) is a data content minimum information standard that describes the essential information needed to adequately document a high-throughput sequencing experiment for the purpose of interpretation and replication of the results. MIAME (Minimal Information About a Microarray Experiment)
750-439: The life sciences. MIAME contains a number of extensions to cover specific biological domains, including MIAME-env, MIAME-nut and MIAME-tox, covering environmental genomics, nutritional genomics and toxogenomics, respectively. Electrophysiology is a technology used to study the electrical properties of biological cells and tissues. Electrophysiology typically involves the measurements of voltage change or electric current flow on
780-429: The link to point directly to the intended article. Retrieved from " https://en.wikipedia.org/w/index.php?title=MGED&oldid=1194327892 " Category : Disambiguation pages Hidden categories: Short description is different from Wikidata All article disambiguation pages All disambiguation pages FGED Society Members of the FGED Society worked with other organizations to support
810-426: The process of protein identification. The Minimum Information About a Bioactive Entity was produced by representatives from both large pharma and academia who are looking to improve the description of usually small molecules which bind to, and potentially modulate the activity of, specific targets in a living organism. This document encompasses drug-like molecules as well as herbicides, pesticides and food additives. It
840-511: The recognized value of the MGED name within the community. In July 2010, the society voted to change its name to the "Functional Genomics Data (FGED) Society" to reflect its current mission which goes beyond microarrays and gene expression to encompass data generated using any functional genomics technology applied to genomic -scale studies of gene expression, binding , modification (such as DNA methylation ), and other related applications. This
870-507: The world since 1999, coordinating with a local scientific organization that provides space for talks, poster sessions, workshops, and tutorials. Here is a list of the annual meeting dates and locations for past meetings of the FGED Society. All meetings from 2010 and prior were held under the name "MGED Society". Minimum Information Standards Minimum information standard s are sets of guidelines and formats for reporting data derived by specific high-throughput methods. Their purpose
900-452: Was formally announced on 14 July 2010 at the society's "MGED13" annual meeting. Board members and officers of the FGED Society are elected annually each May and start serving in June. Presidents of the FGED Society along with their terms in office are as follows: The FGED Board of Directors and Advisory Board consist of volunteers from academia, industry, government, and journals representing
#212787