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MAMA specifications


Unique identifier OMICS_13218
Alternative name Meta-Analysis of MicroArray data
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Microarray datasets
Output format XML
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 2.2.1
Stability Stable
methods, genefilter, metaMA, xtable, multtest, gtools, grid, GeneMetaPackage
Maintained Yes


  • Primates
    • Homo sapiens


No version available


  • person_outline Ivana Ihnatova

Publication for Meta-Analysis of MicroArray data

MAMA citations


Allele specific expression at the androgen receptor alpha gene in a hybrid unisexual fish, the Amazon molly (Poecilia formosa)

PLoS One
PMCID: 5638567
PMID: 29023530
DOI: 10.1371/journal.pone.0186411

[…] ime PCR has multiple advantages, with regard to sensitivity, specificity, and efficiency. Different strategies using Real-Time PCR with different primers, e.g., mismatch amplification mutation assay (MAMA), SYBR green with allele-specific primers, and fluorescence-labeled probes with primers, were employed in ASE and DNA SNPs allele frequency investigations [–]. An approach combining dual fluoresc […]


Traditional Birth Attendant reorientation and Motherpacks incentive’s effect on health facility delivery uptake in Narok County, Kenya: An impact analysis

PMCID: 5399849
PMID: 28431565
DOI: 10.1186/s12884-017-1307-7

[…] The maternal and child health project, Afya njema kwa mama na mtoto (Swahili phrase translated as ‘good health to the mother and child’), aimed to improve maternal and child health outcomes in a county that experiences a relatively low facility delivery […]


The Transcriptome of the Zebrafish Embryo After Chemical Exposure: A Meta Analysis

Toxicol Sci
PMCID: 5443304
PMID: 28329862
DOI: 10.1093/toxsci/kfx045

[…] t size for each gene based on the fold-change and significance was estimated using a permutation analysis (1000 permutations) based on Significance Analysis of Microarrays () applying the R-packages “MAMA “() in combination with “GeneMeta” (; ). Cutoff criteria for genes with a significant summary effect size (“meta-genes”) were |effect size|>1 and adj. P  < 0.05. This method is described in detai […]


Meta analysis of gene expression in relapsed childhood B acute lymphoblastic leukemia

BMC Cancer
PMCID: 5301337
PMID: 28183295
DOI: 10.1186/s12885-017-3103-1

[…] product’ method [, ]. RankProd is among the most popular tool which utilizes a non-parametric statistical method and outperforms other meta-analysis methods, including metaArray [], GeneMeta [], and MAMA [], by ranking the differentially expressed genes based on false discovery rate. Matched diagnosis and relapse samples represent the most ideal biological samples to study the mechanisms for rela […]


Analyses of caspase 1 regulated transcriptomes in various tissues lead to identification of novel IL 1β , IL 18 and sirtuin 1 independent pathways

PMCID: 5290602
PMID: 28153032
DOI: 10.1186/s13045-017-0406-2

[…] ovel pathways; and (6) The meta-analysis identified new cooperatively and non-cooperatively regulated genes in caspase-1, IL-1β, IL-18, and Sirt-1 pathways.As we previously mentioned in the section, meta-analysis of microarray data allows us to perform an integrative data analysis to synthesize and review the results from datasets that are independent but related []. In contrast to traditional an […]


Noncoding somatic and inherited single nucleotide variants converge to promote ESR1 expression in breast cancer

Nat Genet
PMCID: 5042848
PMID: 27571262
DOI: 10.1038/ng.3650

[…] ss-linking was reversed with decrosslinking buffer (1% SDS, 0.1 M NaHCO3) overnight at 65°C. DNA fragments were purified with a QIAquick Spin Kit (Qiagen, CA).Allele-biased binding was assessed using MAMA primers based qPCR and verified by Sanger sequencing (). Fold enrichment was calculated over input. Significance of the differential enrichment was calculated using the unpaired t-test. A complet […]


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MAMA institution(s)
Department of Biomedical Engineering, University of North Carolina, Chapel Hill, CN, USA; Biomedical Informatics Facility, Abramson Cancer Center, University of Pennsylvania, Philadelphia, PA, USA

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