Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.4.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.44226	0.017
27DAP/17DAP	0.49614	0.03
39DAP/27DAP	1.10997	0.749
41DAP/39DAP	0.45037	0.042
42DAP/41DAP	1.00411	1
43DAP/42DAP	1.23149	0.894
47DAP/43DAP	0.84754	0.499
52DAP/47DAP	1.02811	0.9
57DAP/52DAP	1.42628	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.25052	0.007
17DAP/reference	1.50408	0.013
27DAP/reference	1.62907	0.011
39DAP/reference	0.48572	0.01
41DAP/reference	0.50998	0.008
42DAP/reference	1.03938	0.517
43DAP/reference	0.24574
47DAP/reference	0.70719	0.098
52DAP/reference	0.3202	0.013
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.26115	0.027
27DAP/17DAP	2.39217	0.023
39DAP/27DAP	0.38203	0.028
41DAP/39DAP	0.26756	0.013
42DAP/41DAP	1.20647	0.708
43DAP/42DAP	1.8321	0.015
47DAP/43DAP	0.57372	0.013
52DAP/47DAP	0.81498	0.372
57DAP/52DAP	0.94425	0.697
57DAP/7DAP	0.14284	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.97944	0.024
17DAP/reference	1.82067	0.009
27DAP/reference	1.12924	0.197
39DAP/reference	0.76029	0.015
41DAP/reference	0.73539	0.076
42DAP/reference	1.11611	0.889
43DAP/reference	0.80063	0.018
47DAP/reference	0.5516	0.033
52DAP/reference	0.69705	0.017
57DAP/reference	0.68322	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49997	0.23
17DAP/reference	1.71902	0.11
27DAP/reference	1.54494	0.076
39DAP/reference	0.85338	0.274
41DAP/reference	1.344	0.814
42DAP/reference	1.26988	0.226
43DAP/reference	0.4518	0.002
47DAP/reference	0.53541	0.009
52DAP/reference	0.83243	0.302
57DAP/reference	0.44847	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	4.07896	0.015
17DAP/reference	2.27538	0.097
27DAP/reference	2.60065	0.014
39DAP/reference	1.13513	0.39
41DAP/reference	1.06154	0.984
42DAP/reference	0.78624	0.049
43DAP/reference	0.60495	0.051
47DAP/reference	0.34382	0.004
52DAP/reference	0.48304	0.051
57DAP/reference	0.74478	0.079

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15659	0.966
26DAP/20DAP	1.16631	0.574
34DAP/26DAP	0.79006	0.286
51DAP/34DAP	0.46227	0.049
52DAP/51DAP	1.04097	0.662
53DAP/52DAP	0.6257	0.049
55DAP/53DAP	0.37244	0.016
57DAP/55DAP	0.47024	0.03
62DAP/57DAP	0.85838
68DAP/62DAP	1.32289	0.616
68DAP/14DAP	0.18367	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.07059	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.40767	0.058
Mature Green Tomato/Ripe Tomato	14.7897	0.015
Immature Eggplant/Mature Eggplant	0.38522	0.064
Ripe Pepper/Ripe Tomato	33.6737	0.251
Mature Eggplant/Ripe Tomato	32.4586	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.03086	1
12-2/M82	N/A	N/A
12-4/M82	0.86708	0.358
1-3/M82	0.78615	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.00695	1
3-2/M82	0.81261
4-1-1/M82	0.5858
4-1/M82	1.45847
4-3-2/M82	N/A	N/A
4-3/M82	0.777
5-3/M82	1.10563	1
6-2/M82	0.97644
6-3/M82	0.97784	1
7-1/M82	0.82435	0.803
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03452	1
IL2-6/WTpooled	1.04452
IL7-5/WTpooled	0.84333
IL7-3/WTpooled	1.02991
IL12-4/WTpooled	1.10061	0.785
IL1-4/WTpooled	0.83933	0.457
WT/WTpooled	1.03478	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	0.77058	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93695	1
DC3000/delta hrp 6h	0.99615
DC3000/delta hrp 12h	1.28963	1
DC3000/delta hrp 24h	0.71501	0.194

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.55772	0.025
DC3000 delta B/DC3000 delta AB	0.5517	0.031

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92726	1
Exp 36h	0.86765	0.589
Exp 60h	0.88565	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.12821	1
Var 0h	0.70285	0.933
Var 12h I row2-row1	0.79541	0.627
Var 12h NI row2-row1	0.83874	0.327
Var 36h I row2-row1	0.63839	1
Var 36h NI row2-row1	1.2062	0.276
Var 60h I row2-row1	1.14233	0.543
Var 60h NI row2-row1	1.35915	0.904
Time course 0hI-0hNI	1.16462	0.764
Time course 12hI-12hNI	0.79608	0.334
Time course 36hI-36hNI	0.71889	0.023
Time course 60hI-60hNI	0.34128	0.006

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)	0.76837	0.33
transgenic ySAMdc/azygous control (breaker)	3.87101	0.248
transgenic ySAMdc/azygous control (red)	0.82011	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.61335	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	4.59237	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1305	0.14
Manapal/WT (break)	1.74311	1
Manapal/WT (red)	1.30882	1