Avoiding spots detection in analysis of electrophoretic gel images

被引：3

作者：

Daszykowski, M. ^{[1
]}

Bierczynska-Krzysik, A. ^{[2
]}

Silberring, J. ^{[3
]}

Walczak, B. ^{[1
]}

机构：

[1] Silesian Univ, Inst Chem, Dept Chemometr, PL-40006 Katowice, Poland

[2] IBA, Dept Chem Anal, PL-02516 Warsaw, Poland

[3] Jagiellonian Univ, Fac Chem, Dept Neurobiochem, PL-30060 Krakow, Poland

来源：

CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS | 2010年 / 104卷 / 01期

关键词：

Image segmentation; Significance analysis; Discriminant PLS;

D O I：

10.1016/j.chemolab.2009.10.001

中图分类号：

TP [自动化技术、计算机技术];

学科分类号：

0812 ;

摘要：

Analysis of proteomic data, presented in form of 2D gel electropherograms, is still a real challenge and requires further improvements. Three main problems in data analysis are associated with (1) 'software-induced variance' (due to the different methods of data pre-processing or their different input parameters), (2) univariate significance analysis, and (3) requirements of spots detection and quantification. In our study, the advantages of multivariate significance analysis and a pixel-based approach are demonstrated upon the example of the real data set. (C) 2009 Elsevier B.V. All rights reserved.

引用

页码：2 / 7

页数：6

共 19 条

[1] The state of the art in the analysis of two-dimensional gel electrophoresis images [J].

Berth, Matthias ;

Moser, Frank Michael ;

Kolbe, Markus ;

Bernhardt, Joerg .

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 2007, 76 (06) :1223-1243

[2]

Bierczynska-Krzysik A, 2006, INT J MOL MED, V18, P775

[3] Spot overlapping in two-dimensional maps: A serious problem ignored for much too long [J].

Campostrini, N ;

Areces, LB ;

Rappsilber, J ;

Pietrogrande, MC ;

Dondi, F ;

Pastorino, F ;

Ponzoni, M ;

Righetti, PG .

PROTEOMICS, 2005, 5 (09) :2385-2395

[4] Start-to-end processing of two-dimensional gel electrophoretic images [J].

Daszykowski, M. ;

Stanimirova, I. ;

Bodzon-Kulakowska, A. ;

Silberring, J. ;

Lubec, G. ;

Walczak, B. .

JOURNAL OF CHROMATOGRAPHY A, 2007, 1158 (1-2) :306-317

[5] Automatic preprocessing of electrophoretic images [J].

Daszykowski, M. ;

Wrobel, M. S. ;

Bierczynska-Krzysik, A. ;

Silberring, J. ;

Lubec, G. ;

Walczak, B. .

CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS, 2009, 97 (02) :132-140

[6] PNM-hased analysis of multiple images for the identification changes: A novel approach applied to unravel proteome patters of 2-D electrophoresis gel images [J].

Faergestad, Ellen Mosleth ;

Rye, Morten ;

Walczak, Beata ;

Gidskehaug, Lars ;

Wold, Jens Petter ;

Grove, Harald ;

Jia, Xiaohong ;

Hollung, Kristin ;

Indahl, Ulf G. ;

Westad, Frank ;

van den Berg, Frans ;

Martens, Harald .

PROTEOMICS, 2007, 7 (19) :3450-3461

[7] Challenges related to analysis of protein spot volumes from two-dimensional gel electrophoresis as revealed by replicate gels [J].

Grove, Harald ;

Hollung, Kristin ;

Uhlen, Anne Kjersti ;

Martens, Harald ;

Faergestad, Ellen Mosleth .

JOURNAL OF PROTEOME RESEARCH, 2006, 5 (12) :3399-3410

[8] An applied point pattern matching problem: comparing 2D patterns of protein spots [J].

Hoffmann, F ;

Kriegel, K ;

Wenk, C .

DISCRETE APPLIED MATHEMATICS, 1999, 93 (01) :75-88

[9] OPLS filtered data can be obtained directly from non-orthogonalized PLS1 [J].

Kemsley, E. K. ;

Tapp, H. S. .

JOURNAL OF CHEMOMETRICS, 2009, 23 (5-6) :263-264

[10]

Martens H., 1989, Mutivariate Calibration

← 1 2 →