An international standardization programme towards the application of gene expression profiling in routine leukaemia diagnostics: the Microarray Innovations in LEukemia study prephase

被引:159
作者
Kohlmann, Alexander [1 ]
Kipps, Thomas J. [2 ]
Rassenti, Laura Z. [2 ]
Downing, James R. [3 ]
Shurtleff, Sheila A. [3 ]
Mills, Ken I. [4 ]
Gilkes, Amanda F. [4 ]
Hofmann, Wolf-Karsten [5 ]
Basso, Giuseppe [6 ]
Dell'Orto, Marta Campo [6 ]
Foa, Robin [7 ]
Chiaretti, Sabina [7 ]
De Vos, John [8 ]
Rauhut, Sonja [9 ]
Papenhausen, Peter R.
Hernandez, Jesus M. [10 ,11 ]
Lumbreras, Eva [10 ,11 ]
Yeoh, Allen E. [12 ,13 ]
Koay, Evelyn S. [12 ,13 ]
Li, Rachel [1 ]
Liu, Wei-Min [1 ]
Williams, Paul M. [1 ]
Wieczorek, Lothar [1 ]
Haferlach, Torsten [9 ]
机构
[1] Roche Mol Syst Inc, Dept Genom Oncol, Pleasanton, CA 94588 USA
[2] Univ Calif San Diego, Moores Canc Ctr, San Diego, CA 92103 USA
[3] St Jude Childrens Hosp, Dept Pathol, Memphis, TN 38105 USA
[4] Cardiff Univ, Dept Haematol, Cardiff, Wales
[5] Univ Hosp Benjamin Franklin, Chairte, Berlin, Germany
[6] Univ Padua, Dept Paediat, Padua, Italy
[7] Univ Roma La Sapienza, Dept Cellular Biotechnol & Haematol, Div Haematol, Rome, Italy
[8] CHU Montpellier, Inst Rech Biotherapie, Montpellier, France
[9] Munich Leukemia Lab, Munich, Germany
[10] Univ Salamanca, CSIC, CIC, E-37008 Salamanca, Spain
[11] Hosp Univ Salamanca, Salamanca, Spain
[12] Natl Univ Singapore, Dept Pathol, Singapore 117548, Singapore
[13] Natl Univ Singapore, Dept Paediat, Singapore 117548, Singapore
关键词
microarray; gene expression profiling; leukaemia; standardization; diagnostics;
D O I
10.1111/j.1365-2141.2008.07261.x
中图分类号
R5 [内科学];
学科分类号
1002 ; 100201 ;
摘要
Gene expression profiling has the potential to enhance current methods for the diagnosis of haematological malignancies. Here, we present data on 204 analyses from an international standardization programme that was conducted in 11 laboratories as a prephase to the Microarray Innovations in LEukemia (MILE) study. Each laboratory prepared two cell line samples, together with three replicate leukaemia patient lysates in two distinct stages: (i) a 5-d course of protocol training, and (ii) independent proficiency testing. Unsupervised, supervised, and r(2) correlation analyses demonstrated that microarray analysis can be performed with remarkably high intra-laboratory reproducibility and with comparable quality and reliability.
引用
收藏
页码:802 / 807
页数:6
相关论文
共 10 条
[1]   MLL translocations specify a distinct gene expression profile that distinguishes a unique leukemia [J].
Armstrong, SA ;
Staunton, JE ;
Silverman, LB ;
Pieters, R ;
de Boer, ML ;
Minden, MD ;
Sallan, SE ;
Lander, ES ;
Golub, TR ;
Korsmeyer, SJ .
NATURE GENETICS, 2002, 30 (01) :41-47
[2]   Standardizing global gene expression analysis between laboratories and across platforms [J].
Bammler, T ;
Beyer, RP ;
Bhattacharya, S ;
Boorman, GA ;
Boyles, A ;
Bradford, BU ;
Bumgarner, RE ;
Bushel, PR ;
Chaturvedi, K ;
Choi, D ;
Cunningham, ML ;
Dengs, S ;
Dressman, HK ;
Fannin, RD ;
Farun, FM ;
Freedman, JH ;
Fry, RC ;
Harper, A ;
Humble, MC ;
Hurban, P ;
Kavanagh, TJ ;
Kaufmann, WK ;
Kerr, KF ;
Jing, L ;
Lapidus, JA ;
Lasarev, MR ;
Li, J ;
Li, YJ ;
Lobenhofer, EK ;
Lu, X ;
Malek, RL ;
Milton, S ;
Nagalla, SR ;
O'Malley, JP ;
Palmer, VS ;
Pattee, P ;
Paules, RS ;
Perou, CM ;
Phillips, K ;
Qin, LX ;
Qiu, Y ;
Quigley, SD ;
Rodland, M ;
Rusyn, I ;
Samson, LD ;
Schwartz, DA ;
Shi, Y ;
Shin, JL ;
Sieber, SO ;
Slifer, S .
NATURE METHODS, 2005, 2 (05) :351-356
[3]   Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring [J].
Golub, TR ;
Slonim, DK ;
Tamayo, P ;
Huard, C ;
Gaasenbeek, M ;
Mesirov, JP ;
Coller, H ;
Loh, ML ;
Downing, JR ;
Caligiuri, MA ;
Bloomfield, CD ;
Lander, ES .
SCIENCE, 1999, 286 (5439) :531-537
[4]   Global approach to the diagnosis of leukemia using gene expression profiling [J].
Haferlach, T ;
Kohlmann, A ;
Schnittger, S ;
Dugas, M ;
Hiddemann, W ;
Kern, W ;
Schoch, C .
BLOOD, 2005, 106 (04) :1189-1198
[5]  
Haferlach T, 2006, BLOOD, V108, p34A
[6]   Molecular characterization of acute leukemias by use of microarray technology [J].
Kohlmann, A ;
Schoch, C ;
Schnittger, S ;
Dugas, M ;
Hiddemann, W ;
Kern, W ;
Haferlach, T .
GENES CHROMOSOMES & CANCER, 2003, 37 (04) :396-405
[7]   Pattern robustness of diagnostic gene expression signatures in leukemia [J].
Kohlmann, A ;
Schoch, C ;
Dugas, M ;
Rauhut, S ;
Weninger, F ;
Schnittger, S ;
Kern, W ;
Haferlach, T .
GENES CHROMOSOMES & CANCER, 2005, 42 (03) :299-307
[8]   Acute myeloid leukemias with reciprocal rearrangements can be distinguished by specific gene expression profiles [J].
Schoch, C ;
Kohlmann, A ;
Schnittger, S ;
Brors, B ;
Dugas, M ;
Mergenthaler, S ;
Kern, W ;
Hiddemann, W ;
Eils, R ;
Haferlach, T .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (15) :10008-10013
[9]   The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements [J].
Shi, Leming ;
Reid, Laura H. ;
Jones, Wendell D. ;
Shippy, Richard ;
Warrington, Janet A. ;
Baker, Shawn C. ;
Collins, Patrick J. ;
de Longueville, Francoise ;
Kawasaki, Ernest S. ;
Lee, Kathleen Y. ;
Luo, Yuling ;
Sun, Yongming Andrew ;
Willey, James C. ;
Setterquist, Robert A. ;
Fischer, Gavin M. ;
Tong, Weida ;
Dragan, Yvonne P. ;
Dix, David J. ;
Frueh, Felix W. ;
Goodsaid, Federico M. ;
Herman, Damir ;
Jensen, Roderick V. ;
Johnson, Charles D. ;
Lobenhofer, Edward K. ;
Puri, Raj K. ;
Scherf, Uwe ;
Thierry-Mieg, Jean ;
Wang, Charles ;
Wilson, Mike ;
Wolber, Paul K. ;
Zhang, Lu ;
Amur, Shashi ;
Bao, Wenjun ;
Barbacioru, Catalin C. ;
Lucas, Anne Bergstrom ;
Bertholet, Vincent ;
Boysen, Cecilie ;
Bromley, Bud ;
Brown, Donna ;
Brunner, Alan ;
Canales, Roger ;
Cao, Xiaoxi Megan ;
Cebula, Thomas A. ;
Chen, James J. ;
Cheng, Jing ;
Chu, Tzu-Ming ;
Chudin, Eugene ;
Corson, John ;
Corton, J. Christopher ;
Croner, Lisa J. .
NATURE BIOTECHNOLOGY, 2006, 24 (09) :1151-1161
[10]   Classification, subtype discovery, and prediction of outcome in pediatric acute lymphoblastic leukemia by gene expression profiling [J].
Yeoh, EJ ;
Ross, ME ;
Shurtleff, SA ;
Williams, WK ;
Patel, D ;
Mahfouz, R ;
Behm, FG ;
Raimondi, SC ;
Relling, MV ;
Patel, A ;
Cheng, C ;
Campana, D ;
Wilkins, D ;
Zhou, XD ;
Li, JY ;
Liu, HQ ;
Pui, CH ;
Evans, WE ;
Naeve, C ;
Wong, LS ;
Downing, JR .
CANCER CELL, 2002, 1 (02) :133-143