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Expresso specifications


Unique identifier OMICS_03662
Name Expresso
Interface Web user interface
Restrictions to use None
Input format FASTA
Output data The final result is a multiple sequence alignment of the original sequences based on the structural information of the templates.
Computer skills Basic
Stability Stable
Maintained Yes


Publication for Expresso

Expresso in publications

PMCID: 5919779
PMID: 29606582
DOI: 10.1016/j.neuron.2018.03.010

[…] regional kir4.1 mrna analysis, raw profiling. cel files were obtained from the gene expression omnibus website from the geo: gse16496 () accession id. expression values were generated in r using the expresso function of the affy r package with “mas” settings and no normalization. expression values were also quantile normalized () using the samplenetwork r function., motor neuron soma size […]

PMCID: 5904100
PMID: 29666365
DOI: 10.1038/s41467-018-03861-1

[…] very low similarity and different length among proteins, sequences of each subunit were separately aligned with 14 different methods: l-ins-i, e-ins-i and g-ins-i strategies of mafft v7; psi-coffee, expresso; t-coffee; probcons v1.12; probalign v1.3; prank; muscle v3.7; msaprobs v0.9.7; kalign; dialign-tx; and clustal omega. the 10 best alignments were selected after evaluation with mumsa based […]

PMCID: 5919687
PMID: 29659563
DOI: 10.1371/journal.pcbi.1006101

[…] topology of the catalytic domain within each aars class., sequence positions of all structures in the dataset were unified using a multiple sequence alignment (msa) generated with the t-coffee expresso pipeline [] (section mapping of binding sites, and files). this type of msa is backed by the additional structural alignment of protein structures. hence, the structurally conserved […]

PMCID: 5896349
DOI: 10.1155/2018/9391635

[…]   -data<-readaffy(),   -bgdata<-bg.correct.rma(data),   -normdata<-normalize.affybatch.quantiles(bgdata),    }, reducer function   reduce <- function(){   esetexp <- expresso (normdata, bg.correct = false, bgcorrect.method = null, normalize = false, normalize.method = null, pmcorrect.method = “pmonly”, summary.method = “medianpolish”)  write.exprs(esetexp, file = […]

PMCID: 5875014
PMID: 29598818
DOI: 10.1186/s12934-018-0901-3

[…] are included within the article., not applicable., not applicable., financial support from, a funding initiative of the local government of north rhine-westphalia is gratefully acknowledged (expresso, grant-no w0805wb003c). the scientific activities of the bioeconomy science center were financially supported by the ministry of innovation, science and research within the framework […]

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Expresso institution(s)
Laboratoire Information Génomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, Marseille France; Laboratoire de systèmes périphériques, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
Expresso funding source(s)
This project was supported by CNRS (Centre National de la Recherche Scientifique), Sanofi-Aventis Pharma SA., Marseille–Nice Genopole and the French National Genomic Network (RNG).

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