Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7577	0.098
27DAP/17DAP	1.3658	0.809
39DAP/27DAP	0.64515	0.382
41DAP/39DAP	0.78787	0.2
42DAP/41DAP	0.55994	0.397
43DAP/42DAP	1.06045	1
47DAP/43DAP	0.68315	0.137
52DAP/47DAP	0.94118	0.758
57DAP/52DAP	1.29332	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14073	0.049
17DAP/reference	1.1106	0.104
27DAP/reference	1.04183	0.75
39DAP/reference	1.03337	0.504
41DAP/reference	0.92319	0.267
42DAP/reference	0.86959	0.01
43DAP/reference	0.91765	0.211
47DAP/reference	0.89409	0.016
52DAP/reference	0.84199	0.042
57DAP/reference	0.83605	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36009	0.062
27DAP/17DAP	0.78484	0.179
39DAP/27DAP	0.66504	0.039
41DAP/39DAP	2.16432	0.008
42DAP/41DAP	0.71786	0.011
43DAP/42DAP	0.43604	0.022
47DAP/43DAP	0.95789	0.846
52DAP/47DAP	1.09693	0.799
57DAP/52DAP	1.1462	0.899
57DAP/7DAP	0.49542	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52081	0.049
17DAP/reference	1.37633	0.025
27DAP/reference	1.02566	1
39DAP/reference	1.08951	0.74
41DAP/reference	1.15032	0.136
42DAP/reference	0.99033	0.531
43DAP/reference	1.09648	0.569
47DAP/reference	0.91912	0.504
52DAP/reference	1.06446	0.732
57DAP/reference	1.20692	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24006	0.294
17DAP/reference	1.37468	0.012
27DAP/reference	1.13718	0.552
39DAP/reference	1.02778	0.912
41DAP/reference	1.01605	1
42DAP/reference	0.90026	0.108
43DAP/reference	0.95717	0.394
47DAP/reference	0.89355	0.145
52DAP/reference	1.11439	0.092
57DAP/reference	0.96064	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26556	0.079
17DAP/reference	1.24748	0.337
27DAP/reference	1.25651	0.085
39DAP/reference	1.07544	0.596
41DAP/reference	0.95684	0.417
42DAP/reference	0.88203	0.172
43DAP/reference	0.93165	0.384
47DAP/reference	0.84703	0.06
52DAP/reference	0.94955	0.551
57DAP/reference	0.9358	0.199

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09522	1
26DAP/20DAP	1.25493	0.924
34DAP/26DAP	0.4603	0.067
51DAP/34DAP	0.04601	0.049
52DAP/51DAP	0.89015
53DAP/52DAP	1.09291	0.944
55DAP/53DAP	0.80406	0.376
57DAP/55DAP	0.778	0.41
62DAP/57DAP	1.03879	1
68DAP/62DAP	1.11351	0.7
68DAP/14DAP	0.34277	0.09

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.65813	0.043

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	102.841	0.058
Mature Green Tomato/Ripe Tomato	7.57173	0.016
Immature Eggplant/Mature Eggplant	1.28321	0.058
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	31.9177	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.091
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	2.06543
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.80099
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.92794	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90131	0.31
IL12-4/WTpooled	1.09287	0.673
IL1-4/WTpooled	0.80107
WT/WTpooled	0.98622	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.75484	0.216

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15946	0.671
DC3000/delta hrp 6h	1.03627	1
DC3000/delta hrp 12h	0.98434	1
DC3000/delta hrp 24h	0.8281	0.14

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.4642
DC3000 delta B/DC3000 delta AB	N/A	N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.71348	0.328
Exp 36h	1.15222	1
Exp 60h	0.82793	0.278

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.00351	1
Var 0h	0.91023	1
Var 12h I row2-row1	1.06069	1
Var 12h NI row2-row1	1.16047	0.34
Var 36h I row2-row1	1.19757	1
Var 36h NI row2-row1	1.15671	1
Var 60h I row2-row1	1.20894	0.543
Var 60h NI row2-row1	1.36763	0.904
Time course 0hI-0hNI	1.07087	0.764
Time course 12hI-12hNI	0.94865	0.575
Time course 36hI-36hNI	0.6808	0.031
Time course 60hI-60hNI	0.33827	0.005

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.7193	0.315
transgenic ySAMdc/azygous control (breaker)	0.67224	0.173
transgenic ySAMdc/azygous control (red)	0.97737	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.20535	0.034

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.36096	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07236	1
Manapal/WT (break)	1.54288	0.381
Manapal/WT (red)	1.64916	0.413