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MADIBA specifications

Information


Unique identifier OMICS_26861
Name MADIBA
Alternative name MicroArray Data Interface for Biological Annotation
Interface Web user interface
Restrictions to use None
Programming languages Javascript
Computer skills Basic
Stability No
Maintained No

Maintainers


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Additional information


http://www.bi.up.ac.za/MADIBA/doc/Tutorial_madiba.php

Publication for MicroArray Data Interface for Biological Annotation

MADIBA citations

 (5)
library_books

Analysis of drought responsive signalling network in two contrasting rice cultivars using transcriptome based approach

2017
Sci Rep
PMCID: 5299611
PMID: 28181537
DOI: 10.1038/srep42131

[…] enome Browser version 7) highlighted in microarray expression data allowed mining of differentially expressed gene loci underlying the QTLs. The mapping of DEGs on rice chromosome was performed using MicroArray Data Interface for Biological Annotation (MADIBA) (http://madiba.bi.up.ac.za/).To generate the metabolic profile of the differentially expressed genes, the microarray expression data were i […]

call_split

In vitro anti plasmodial activity of Dicoma anomala subsp. gerrardii (Asteraceae): identification of its main active constituent, structure activity relationship studies and gene expression profiling

2011
Malar J
PMCID: 3200184
PMID: 21985233
DOI: 10.1186/1475-2875-10-295
call_split See protocol

[…] encies were used to calculate relative expression in a mathematical model described by Pfaffl []. Gene ontology analyses were performed using the Micro Array Data Interface for Biological Annotation (MADIBA) software []. […]

library_books

Maize microarray annotation database

2011
Plant Methods
PMCID: 3198759
PMID: 21961731
DOI: 10.1186/1746-4811-7-31

[…] reporters with the Maize Microarray Annotation Database can be useful for refining lists of "differentially expressed" reporters for subsequent global analyses (e.g. GO enrichment using tools such as MADIBA []). In addition, the database is also essential to confirm the annotation of candidate genes identified from a microarray experiment before detailed functional analyses (e.g. gene knockouts) a […]

library_books

Comparative Transcriptional Profiling and Preliminary Study on Heterosis Mechanism of Super Hybrid Rice

2010
Mol Plant
PMCID: 2993235
PMID: 20729474
DOI: 10.1093/mp/ssq046

[…] ries, and eight biological process categories (denoted by stars). We further classified DGs at detailed levels based on Gene Ontology (GO) by the Micro Array Data Interface for Biological Annotation (MADIBA) web tool () (Supplemental Tables 3–6). Interestingly, among the 26 significant DG-involved GO terms of cellular component (FDR corrected P-values < 0.05), over 50% were photosynthesis-related, […]

library_books

Integration and mining of malaria molecular, functional and pharmacological data: how far are we from a chemogenomic knowledge space?

2006
Malar J
PMCID: 1665468
PMID: 17112376
DOI: 10.1186/1475-2875-5-110

[…] nect the biological space with the chemical space, following the "reverse chemical genetic" way, i.e. "from known drugs to biological response" (toxicity, mode of action). Basic analytical tools like MADIBA and sophisticated mining approaches will be needed to understand and compare the biological responses to anti-malarial drugs. The other door to connect the biological space and the chemical spa […]

Citations

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MADIBA institution(s)
Bioinformatics and Computational Biology Unit, African Centre for Gene Technologies (ACGT), Department of Biochemistry, Faculty of Natural and Agricultural Sciences, University of Pretoria, Pretoria, South Africa; Department of Plant Science, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa; Laboratoire de Biologie Cellulaire et Moléculaire, Biogemma, Domaine de Sandreau, Mondonville, France
MADIBA funding source(s)
Supported by the University of Pretoria, the NRF (National Research Foundation), the NBN (National Bioinformatics Network) of South Africa, the University of Pretoria (CCR) and received a bursary from the NB.

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