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Table 3 The peptide redundancy ratio of two protein sequence databases

From: Speeding up tandem mass spectrometry-based database searching by longest common prefix

Database

Peptide Number

Full-specific

Semi-specific

Non-specific

 

Non-redundant

3549956

55908454

626871441

Human

Redundant

8022636

128308391

1401160777

 

Redundancy

55.7%

56.4%

55.2%

 

Non-redundant

24915278

395305609

4525189544

SwissProt

Redundant

37646081

601652577

6554527058

 

Redundancy

33.8%

34.2%

31.0%

  1. The peptide redundancy ratio of the IPI-Human V3.65 and Uniprot/SwissProt V56.2 protein sequence databases. The length of the peptides is limited from 6 to 60 amino acids.
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BMC Bioinformatics

ISSN: 1471-2105

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