Table 4

Summary of values of the coefficients of standard deviation function and K_α coefficients

No. of probe sets is approximate number of the probe sets on array, Cons. samp. size is number of the probe pairs in a consecutive sample, No. of arrays is a number of arrays tested, No. of comp. is the number of pair-wise comparisons among the replicates, coefficients a₁ and a₂ are the coefficients of standard deviation function and Kalpha is the coefficient determining probability interval; "h." stands for "human," "m." for "murine." Average values, sum of arrays and comparisons (in square brackets), standard deviations (SD) and coefficients of variation (CV) of each GeneChip type are printed in bold italics.

Data sources:

a1 – J. P. Novak et al., HuGeneFl, IMR90 human cell line [10].

a2 – J. P. Novak et al., HuGeneFl, mouse tissues, adult male C57BL/6 [10].

b – A.-M. Mes-Masson, P. Tonin and coworkers, HuGeneFL, normal ovarian surface epithelial (NOSE) primary cell cultures, private communication.

c – P. Permana, HuGeneFL, human skeletal muscle tissue [35].

d – P. Tonin and A.-M. Mes-Masson and coworkers, HG-U95A to E, epithelial ovarian cancer (EOC) cell line [36].

e1 – Affymetrix, HG-U95A, latin square, experiments 1 to 5.

e2 – Affymetrix, HG-U95A, latin square, experiments 6 to 10.

e3 – Affymetrix, HG-U95A, latin square experiments 11 to 15.

e4 – Affymetrix, HG-U95A, latin square, experiments 16 to 19.

e5 – Affymetrix, HG-U95A to E, Demo Data.

e6 – Affymetrix, HG-U133A, latin square, experiments 1 to 5.

e7 – Affymetrix, HG-U133A, latin square, experiments 6 to 10.

e8 – Affymetrix, HG-U133A, latin square, experiments 11 to 14.

f – M. S. Rolph, HG-U95Av2, primary human bronchial epithelial cells.

g1 – Z. Gatalica, HG-U95Av2, breast tumor tissues and normal breast tissue samples [37].

g2 – Z. Gatalica, MG-U74Av2, mouse kidney tissue.

h1 – M. Boerma, HG-U133A 2.0, primary human umbilical vein endothelial cells (HUVECs) and the immortalized HUVEC cell line EA.hy926 [38].

h2 – M. Boerma, RG-U34A, cultures enriched for neonatal rat cardiac myocytes or fibroblasts [39].

i1 – M. Hajduch, HG-U133A 2.0.

i2 – M. Hajduch, HG-U133 plus 2.

j – S. Y. Kim and D. J. Volsky, HG-U133A 2.0, human fetal astrocytes, normal and pseudotyped HIV-1 infected [40].

k1 – O. Modlich, HG-U133A 2.0, human superficial and invasive bladder tumors [41].

k2 – O. Modlich and Raschke, Focus arrays, human lymphoma cell line Kaspas-422, DSMZ no.: ACC 32 (follicular B cell).

l1 – C. Wang and J. Xu, HG-U133A 2.0, human lymphoblast cell line.

l2 – C. Wang and J. Xu, HG-U133A 2.0, human pancreatic islet.

l3 – C. Wang and J. Xu, HG-U133 Plus 2, Stratagene Universal Human Reference RNA, Ambion Human Brain Reference RNA and mixtures of both in different concentrations.

l4 – C. Wang and J. Xu, MG-U74Av2, mouse biliary epithelial cells.

l5 – C. Wang and J. Xu, MG-U430A, mouse spleen.

l6 – C. Wang and J. Xu, MG-U430A, myofibroblast cell line.

l7 – C. Wang and J. Xu, RG-U34A, rat livers.

l8 – C. Wang and J. Xu, RG-U34A, rat bone marrow stem cells.

m1 – McInnes and coworkers, MG-Mu11kSubA, SubB, retinal RNA samples from WT and Rom1 knock-out mice [36].

m2 – McInnes, Szego and coworkers, MG-Mu19kSubA, SubB, SubC, retinal RNA samples from WT and Rom1 knock-out mice [42].

n1 – Burton, McGehee and coworkers, MG-Mu11kSubA, SubB, 3T3-L1 adipocytes [43].

n2 – Burton, McGehee and coworkers, MG-U74Av2,3T3-L1 adipocyte cultures [44].

o – M. Cosio, MG-U74Av2, lung tissues, murine strains NZW and AKR.

p – R. St-Arnaud, MG-U74Av2, C2C12 cells [45].

q – J. Hidalgo, MG-U74Av2, cortex samples, C57B6 normal and IL6 KO mice [46].

r – D. Radzioch, C. Guilbault and coworkers, MG-U74Av2, C57BL/6 (B6) WT and C57BL/6-Cftr-/- (KO) inbred mice [15].

s – S. E. Choe, Drosophila, Drosophila Gene Collection release 1.0 cDNA clones [19].

t – F. Blattner, E. coli antisense genome, E. coli K-12 strain MG1655 and an isogenic fnr::Sp^r Sm^r strain [47].

u – J. Slonczewski and S. BonDurant, E. coli antisense genome, E. coli K-12 strain W3110 [48].

v1 – E. Blumwald and J. Sottosanto, ATH1, A. thaliana ecotype Wassilewskija, wild-type line (WS), nhx1 'knockout' line, and a knockout restoration line; [49] and unpublished data.

v2 – E. Blumwald and J. Sottosanto, arabidopsis, A. thaliana ecotype Wassilewskija, wild-type line (WS), and a nhx1 'knockout' line (unpublished data).

w – D. Honys and D. Twell, ATH1, Arabidopsis thaliana ecotype Landsberg erecta plants [50].

x – E. Nambara and K. Nakabayashi, ATH1, Arabidopsis thaliana (L.) Heynh of ecotype Columbia [51].

y – E. Nambara and K. Tatematsu, ATH1, Arabidopsis thaliana (L.) Heynh of ecotype Columbia [52].

Novak et al. Biology Direct 2006 1:27   doi:10.1186/1745-6150-1-27