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Number of citations per year for the bioinformatics software tool AMAP

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AMAP specifications


Unique identifier OMICS_22101
Alternative name Another Multidimensional Analysis Package
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 0.8-14
Stability Stable
Source code URL
Maintained Yes




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  • person_outline Antoine Lucas
  • person_outline Victor Padilha

Additional information

AMAP citations


RNA Sequencing Analysis Reveals a Regulatory Role for Transcription Factor Fezf2 in the Mature Motor Cortex

PMCID: 5594072
PMID: 28936162
DOI: 10.3389/fnmol.2017.00283

[…] erformed using R (version 3.2.5); first the top 8% most variable genes were identified across all eight samples, irrespective of treatment and a Euclidean distance matrix was produced using R package—Another Multidimensional Analysis Package (Lucas, ). The matrix was used as the input for unsupervised hierarchical clustering, which clusters samples according to the level of similarity identified b […]


The Mechanism of Starch Over Accumulation in Chlamydomonas reinhardtii High Starch Mutants Identified by Comparative Transcriptome Analysis

Front Microbiol
PMCID: 5440458
PMID: 28588557
DOI: 10.3389/fmicb.2017.00858

[…] e and t-test data. False discovery rate (FDR) was applied to identify the threshold of the p-value in multiple tests using DESeq. Correlation and hierarchical clustering analysis were carried out via AMAP library in R. Functional enrichment analysis for Gene Ontology (GO) and KEGG pathway were conducted using Gene Ontology Database and DAVID, respectively (). […]


High expression of EPB41L5, an integral component of the Arf6 driven mesenchymal program, correlates with poor prognosis of squamous cell carcinoma of the tongue

PMCID: 5117685
PMID: 27871329
DOI: 10.1186/s12964-016-0151-0

[…] ily dealt with breast cancer, the acquisition of mesenchymal properties has also been highly implicated in the malignancy of HNSCC []. We previously showed that the small GTPase ARF6 and its effector AMAP1 are often overexpressed in different types of cancers, including breast cancer and renal cancer, and play pivotal roles in promoting invasion, metastasis, and drug resistance [–]. We have moreov […]


Diversity in gut bacterial community of school age children in Asia

Sci Rep
PMCID: 4336934
PMID: 25703686
DOI: 10.1038/srep08397

[…] ndomForest/index.html). Calculated proximity matrices were plotted in two dimensions by using the MDSplot function in the randomForest package. Hierarchical analysis was performed using the R-package amap ( Distances based on Pearson correlations were calculated for input into an agglomerative algorithm through complete linkage, by using the […]


Indications of decreasing human PTS concentrations in North West Russia

PMCID: 3203838
PMID: 22043215
DOI: 10.3402/gha.v4i0.8427

[…] n (mean age:37) and 13 men (mean age: 25) from Nelmin-Nos as part of the PTS project in the Russian North (). The samples were analyzed for POPs and heavy metals and the results were published in the AMAP Assessment 2009: Human health in the Arctic () and by Sandanger et al. 2009 (). By comparing the results from the current study with the study in Nelmin-Nos in 2001–2003, a unique opportunity to […]

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AMAP institution(s)
Institute of Mathematics and Computer Sciences, University of São Paulo, São Carlos, Brazil; College of Science and Engineering, James Cook University, Townsville, QLD, Australia
AMAP funding source(s)
Supported by the São Paulo Research Foundation (FAPESP) (grants #2014/08840-0 and #2013/18698-4) and the Brazilian National Research Council (CNPq) (grant #304137/2013-8).

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