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Aids to the sequencing of peptides by interpreting mass spectra. SeqMS is designed to aid in de novo sequencing, which is based on high-energy collision-induced dissociation (CID) tandem mass spectrometry (MS/MS) spectra. The software permits the interpretation of other types of MS/MS data, such as those obtained via low energy CID-MS/MS and post-source decay (PSD) spectra of synthetic and proteolytic peptides. It should facilitate, in conjunction with high-quality data obtained with current high-performance MS, rapid and accurate sequencing of peptides.

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SeqMS classification

SeqMS specifications

Software type:
Restrictions to use:
Computer skills:
Command line interface
Operating system:
Unix/Linux, Windows

SeqMS distribution


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SeqMS support


  • Toshifumi Takao <>


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Division of Organic Chemistry, Osaka University, Suita, Japan; Division of Protein Metabolism, Institute for Protein Research, Osaka University, Suita, Japan; Center for Genetic Engineering and Biotechnology, Havana, Cuba

Funding source(s)

Supported in part by Special Coordination Funds for Promoting Science and Technology Agency of Japan and grants-in-Aid for Scientific Research (No. 10558099) from the Ministry of Education, Science and Culture of japan.

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