Dataset Information

Half decimal place rule - Application of the half decimal place rule to increase the peptide identification rate

ABSTRACT: Many MS2 spectra in bottom-up proteomics experiments remain unassigned. To improve proteome coverage, we applied the half decimal place rule (HDPR) to remove non-peptidic molecules. The HDPR considers the ratio of the first digit after the decimal point to the full molecular mass and results in a relatively small permitted mass window for most peptides. Although the HDPR has been described previously, it has never been integrated into an acquisition strategy using high resolution mass spectrometers. The HDPR was applied to three technical replicates of an in-solution tryptic digest of HeLa cells which were analysed by LC-MS using a Q Exactive mass spectrometer.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Epithelial Cell, Cell Culture

DISEASE(S): Cervix Carcinoma

SUBMITTER: Christian Koehler

LAB HEAD: Bernd Thiede

PROVIDER: PXD004900 | Pride | 2016-12-23

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	160729_CJK_HeLa2PMoff_01.raw	Raw
	160729_CJK_HeLa2PMoff_02.raw	Raw
	160729_CJK_HeLa2PMoff_03.raw	Raw
	160729_CJK_HeLa2PMoff_excl_020Da_01.raw	Raw
	160729_CJK_HeLa2PMoff_excl_020Da_02.raw	Raw

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Publications

Application of the half decimal place rule to increase the peptide identification rate.

Koehler Christian J CJ Bollineni Ravi Chand RC Thiede Bernd B

Rapid communications in mass spectrometry : RCM 20170101 2

<h4>Rationale</h4>Many MS2 spectra in bottom-up proteomics experiments remain unassigned. To improve proteome coverage, we applied the half decimal place rule (HDPR) to remove non-peptidic molecules. The HDPR considers the ratio of the digits after the decimal point to the full molecular mass and results in a relatively small permitted mass window for most peptides.<h4>Methods</h4>First, the HDPR mass filter was calculated for the human and other proteomes. Subsequently, the HDPR was applied to ...[more]

PMID: 27806443

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