![]() |
|||||
![]() |
![]() |
Noble Research Institute | Mt Gene Expression Atlas | |||
Medicago truncatula Gene Expression Atlas | |||||
![]() |
|||||
![]() |
|||||
Current Version: V3 (Feb 2015)
Quick Search:# of Experiments: 274 # of GeneChips: 739 MtGEA: Home / Introduction Microarray Sample Selection Multi-transcript Viewer Search by...
Subscribe to Our Mailing List and be updated with our project progress, new data release
and new functions provided at our database server (low email traffic):
External Links:
|
Introduction
The Medicago truncatula Gene Expression Atlas (MtGEA) Project
![]() The complete dataset can be downloaded from ArrayExpress, where complete MIAME information is also deposited.
The Medicago truncatula Gene Expression Atlas (MtGEA) Web Server
The Medicago truncatula Gene Expression Atlas (MtGEA) Web Server
was developed to maximize the use of publicly-available Affymetrix GeneChip data
and aid efforts to "interpret" the Medicago genome through functional genomics.
This web server aims to archive all publically-available M. truncatula gene
expression data derived from the use of the Affymetrix GeneChip.
The web service provided here allows the user to identify and analyze the expression of one or more genes of interest, using the Affymetrix Medicago probe-set identification number, gene sequence, gene annotation information (such as gene ID, keyword in description, GO term, KEGG bincode or protein domain name) as starting point. The web server also seamlessly inter-connects with our Mt genome browser, which allows the user to query using various genomics features (e.g. a particular chromosome coordinate or an EST ID mapped to the genome) and links back to the corresponding expression profiles in MtGEA. The user may further study gene expression profiles based on co-expression analysis and differential expression analysis. The user may also directly download the whole dataset organized by experiment. Data output can be selected by the user and is provided in a tabular form compatible with common analytical and visualization software. ![]() ![]() This service is under development to extend the range of data and processing options, and we welcome suggestions for additional services that could be provided to improve data mining and knowledge generation.
Funding Support and Contact
The Medicago truncatula Gene Expression Atlas project was supported
by the National Research Initiative (NRI)
Plant Genome Program of the USDA Cooperative State Research, Education
and Extension Service (CSREES). Current development on the MtGEA web server on gene regulatory network (GRN) prediction and visualization is supported by the Oklahoma Center for the Advancement of Science & Technology (OCAST) Oklahoma Plant Science Research (OPSR) program. The beta version of this GRN prediction pipeline can be accessed from here. For overall questions and collaboration opportunities regarding the MtGEA project, please contact the principle investigator of the project, For questions and suggestions regarding the MtGEA Web Server, please contact site administrator.
Citation(s)
News & Service Updates
[2015/02/17] Added Arbuscular mycorrhiza laser microdissection data(non-normalized)[2014/12/18] Added Root Hair, and Nodules LCM data(non-normalized) [2014/07/02] Added Medicago v4 annoation table: Include transcript id and description. [2012/10/20] Check out our new comparative gene regulatory network (GRN) server: LegumeGRN (http://legumegrn.noble.org) provides the community software tools for predicting GRNs based on the gene expression profiles we have curated, visualization interface for inspection of GRNs and query for genes of interests, and comparative functions even across multiple species. Three species are available, namely Medicago, Lotus and soybean. -- http://legumegrn.noble.org. [2011/10/29] Updated Mt 3.5 annotation: We have updated the probeset-gene mapping using the latest Mt 3.5 gene set. [2011/03/01] OCAST OPSR proposal funded: Our proposal on development of gene regulatory network (GRN) prediction pipeline has been funded by OCAST. [2010/09/09] MtGEA V3 in the plan: We are planning on a major update of the MtGEA. Work on the V3 will be primarily focused on curation of new publiclly available microarray chips. We welcome your inputs and recommendations for us to complie a full list of lately published chips since V2. [2010/05/19] MtGEA dedicated host: We have relocated the MtGEA server to a dedicate VM host http://mtgea.noble.org. Please update your bookmark. [2009/07/10] MtGEA V2: We are pleased to announce the 2nd major release of the MtGEA web server. In this version, we have tripled the gene expression data size (see "slides customization" page for more details). We have also added a number of new annotation data sets and new software features to improve your utilization of the web services. These include, but are not limited to, (1) a new set of transcription factors predicted based on Arabidopsis homologs; (2) a new set of GO annotations, also based on Arabidopsis homologs; (3) protein domain information based on InterProScan searches; (4) a "slides customization" page that allows you to choose a dynamic subset of gene expression data in your search and analysis session; and (5) an improved "multi-transcript viewer" that allows you to visualize and compare multiple gene expression profiles in the same chart. Check out the links marked with ![]() ![]() |
||||
© Noble Research Institute, LLC
|