A global view of gene expression in lithium and zinc treated sea urchin embryos: new components of gene regulatory networks

Table 3 Differential expression data based on array experiments and Q-PCR of genes with unknown or ubiquitous expression pattern

Other genes	Expression	Regulation	P Value	Q-PCR ratio
Arginine kinase 536REAsu4_15B20	?	Li 2.20 Zn na	7.29 × e^-07 na	1.95 ± 0.15 2.07 ± 0.47
ß-catenin 538REA_2O22 RUDIREA_22E13	Ubiquitous	Li 0.39 Zn na	4.77 × e^-03 na	0.85 ± 0.11 0.79 ± 0.16
SpZ12	?	Li 1.44 Zn 2.29	2.55 × e^-01 2.05 × e^-02	2.03 ± 0.37 2.66 ± 0.40
Hmx, NkX5.1 537REA_6C02	?	Li 0.20 Zn 1.86	1.18 × e^-14 5.87 × e^-03	0.05 ± 0.03 1.20 ± 0.32
Tcf/Lef 536REAsu4_11P24	?	Li 1.37 Zn na	7.88 × e^-02 na	0.73 ± 0.13^a 1.42 ± 0.29
WntA RUDIREA_33L4	?	Li 1.07 Zn nd	8.13 × e^-01 nd	0.39 ± 0.13^a 0.24 ± 0.12
Wnt1	?	Li na Zn na	na na	ne ne
Wnt4 536REAsu4_6C19	?	Li 1.09 Zn NA	6.69 × e^-01 NA	1.66 ± 0.36 1.73 ± 0.21
Wnt6	?	Li na Zn na	na na	1.55 ± 0.19 0.24 ± 0.01
Wnt7	?	Li na Zn na	na na	ne 0.03 ± 0.02
Wnt9	?	Li na Zn na	na na	ne 0.29 ± 0.03
Wnt10	?	Li na Zn na	na na	1.43 ± 0.29 1.30 ± 0.14
Wnt16	?	Li na Zn na	na na	2.79 ± 0.81^a 0.84 ± 0.12

The first column gives the gene name and the clone ID, both of which can be used to query the described database [22] for additional data. In the second column the localization of expression in the embryo is given. The third column (Regulation) gives the differential expression ratios (expression in treatment/expression control) based on the array experiment for lithium (Li) and zinc (Zn) treated embryos (values above 1 indicate upregulation and values below 1 indicate downregulation). The column 'P value' indicates the statistical probability that the regulation could happen by chance (see Materials and methods for detail). The column Q-PCR (quantitative real-time polymerase chain reaction) gives the differential expression ratios (expression in treatment/expression control) and the error, as determined by Q-PCR. (Values expressed in copies of mRNA molecules/embryo are provided via the expressed sequence tag database [75]; see Materials and methods for details on Q-PCR). ^aDifferential expression based on array and Q-PCR data do not correlate. na, not analyzed; nd, no statistically relevant differential expression; ne, not expressed; ?, expression pattern unknown.

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