Andromeda specifications


Unique identifier OMICS_19843
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Windows
Computer skills Medium
Stability Stable
Maintained Yes


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Additional information

Andromeda is available as a stand-alone, but also as a sub tool of MaxQuant.

Andromeda article

Andromeda citations

PMCID: 5788924

[…] and peptide areas were calculated using the precursor ions area detector node., identification and label-free quantification of ubiquitinated peptides in hela cells was performed using the andromeda56 and the maxlfq algorithm57, respectively, implemented in the maxquant computational proteomics platform (v1.5.1.2)58. ms2 spectra were searched against the human uniprot complete proteome […]

PMCID: 5772234

[…] of an unknown charge state were rejected for ms/ms. mass spectra were recorded with xcalibur software 2.2 sp1.48 (thermo scientific)., proteins under both culture conditions were identified with andromeda (82) and quantified with the lfq algorithm (25) embedded in maxquant version (81). the fasta protein database for identification was taken from the output of the functional […]

PMCID: 5338994

[…] using a target−decoy database to calculate the false discovery rate (fdr) using percolator supplemented with frequently observed contaminants and concatenated with reversed copies of all sequences. andromeda search engine was used, and data were searched with 6 ppm precursor tolerance and 20 mda tolerance for fragment ions. the protein modifications were carbamidomethylation (c) (fixed), […]

PMCID: 5325209

[…] and quantitated peptides/proteins using the piqmie proteomics server [30]. about one-fourth of the human or mouse proteome (as defined by the uniprotkb database) was identified by the maxquant/andromeda analysis (table 1, s1–s3 tables), with mean coverage of 27.30% for human and of 25.35% for mouse cells. approximately half of the identified protein accessions belong to the high-quality […]

PMCID: 4924658

[…] 60,000 at m/z 400. finally, sequence analysis was carried on the uniprot human protein database (, release 3.43, 72,340 sequences) and database retrieval was performed on the andromeda search engine based on probabilistic scoring [41]., relative protein abundance was calculated using maxquant [42] ( and pre-processed using the filter function […]

Andromeda institution(s)
Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Martinsried, Germany; Novo Nordisk Foundation Center for Protein Research, Faculty of Health Sciences, University of Copenhagen, Copenhagen, Denmark
Andromeda funding source(s)
Supported by the European Union seventh Framework Program (HEALTH-F4-2008-201648/ PROSPECTS).

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