A nonparametric model for quality control of database search results in shotgun proteomics

doi:10.1186/1471-2105-9-29

BMC Bioinformatics
Volume 9

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Methodology article

A nonparametric model for quality control of database search results in shotgun proteomics

Jiyang Zhang¹^,2 , Jianqi Li² , Xin Liu² , Hongwei Xie¹ , Yunping Zhu² and Fuchu He¹^,2

¹College of Mechanical & Electronic Engineering and Automatization, National University of Defense Technology, Changsha, 410073, China

²State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China

author email corresponding author email

BMC Bioinformatics 2008, 9:29doi:10.1186/1471-2105-9-29


Published:	21 January 2008

Additional files

Additional file 1:

The parameters of the nonparametric models for different datasets. This file collected the parameters of the nonparametric models and filter criteria for different datasets. The file was compressed as RAR archive to reduce the size.

Format: RAR Size: 87KB Download file

Additional file 2:

Program package. This file packaged all the programs used in this work, which include the Microsoft Windows executable EXE files and the Matlab script M files. A readme file is provided in this package to illustrate how to use these programs.

Format: RAR Size: 337KB Download file

Additional file 3:

The control sequences of the LCQ control dataset. This file includes the control sequences for the LCQ control dataset, which include the sequences of control proteins and the common contaminants. The file was compressed as RAR archive to reduce the size.

Format: RAR Size: 22KB Download file

Additional file 4:

The control sequences of the LTQ control dataset. This file includes the control sequences for the LTQ control dataset, which include the sequences of control proteins and the common contaminants. The file was compressed as RAR archive to reduce the size.

Format: RAR Size: 92KB Download file

Additional file 5:

The control sequences of the LTQ/FT control dataset. This file includes the control sequences for the LTQ/FT control dataset, which include the sequences of control proteins and the common contaminants.

Format: RAR Size: 17KB Download file

Additional file 6:

Validated matches in the LCQ control dataset. This file contains the validated correct matches for the LCQ control dataset. The file was compressed as RAR archive to reduce the size.

Format: RAR Size: 79KB Download file

Additional file 7:

Validated matches in the LTQ control dataset. This file contains the validated correct matches for the LTQ control dataset. The file was compressed as RAR archive to reduce the size.

Format: RAR Size: 612KB Download file

Additional file 8:

Validated matches in the LTQ/FT control dataset. This file contains the validated correct matches for the LTQ/FT control dataset. The file was compressed as RAR archive to reduce the size.

Format: RAR Size: 224KB Download file