Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.6.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9975	0.683
27DAP/17DAP	1.11376	0.872
39DAP/27DAP	0.76524	0.352
41DAP/39DAP	1.23844	0.696
42DAP/41DAP	0.782	1
43DAP/42DAP	0.83187	0.827
47DAP/43DAP	1.08291	0.926
52DAP/47DAP	1.04429	0.946
57DAP/52DAP	1.14301	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90395	0.14
17DAP/reference	0.88673	0.06
27DAP/reference	1.08834	0.587
39DAP/reference	1.29778	0.079
41DAP/reference	0.8999	0.201
42DAP/reference	0.89146	0.05
43DAP/reference	1.04502	0.758
47DAP/reference	0.96863	0.279
52DAP/reference	0.9706	0.461
57DAP/reference	1.12504	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16527
27DAP/17DAP	0.825
39DAP/27DAP	N/A	N/A
41DAP/39DAP	0.53035
42DAP/41DAP	1.05149	0.899
43DAP/42DAP	N/A	N/A
47DAP/43DAP	0.95454	0.843
52DAP/47DAP	1.55193	0.261
57DAP/52DAP	0.34526	0.043
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92562	0.495
17DAP/reference	0.73817	0.044
27DAP/reference	1.23454	0.371
39DAP/reference	0.90816	0.307
41DAP/reference	0.95623	0.412
42DAP/reference	1.03423	0.828
43DAP/reference	0.92522	0.305
47DAP/reference	1.02979	1
52DAP/reference	1.10288	0.732
57DAP/reference	1.10815	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96295	0.592
17DAP/reference	0.84117	0.159
27DAP/reference	1.0165	0.735
39DAP/reference	0.87957	0.165
41DAP/reference	0.85784	0.188
42DAP/reference	0.76818	0.073
43DAP/reference	0.98843	0.692
47DAP/reference	0.85832	0.041
52DAP/reference	1.06148	0.838
57DAP/reference	0.77742	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0851	1
17DAP/reference	1.0694	0.956
27DAP/reference	1.15789	0.575
39DAP/reference	1.11047	0.691
41DAP/reference	0.93957	0.264
42DAP/reference	0.81168	0.671
43DAP/reference	1.35725	0.59
47DAP/reference	0.89223	0.139
52DAP/reference	0.82749	0.31
57DAP/reference	1.03023	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16541	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	2.67235
51DAP/34DAP	0.38007	0.049
52DAP/51DAP	1.09113	0.904
53DAP/52DAP	0.46913	0.075
55DAP/53DAP	1.37312	0.111
57DAP/55DAP	1.03985	0.975
62DAP/57DAP	1.12482	0.393
68DAP/62DAP	1.1224
68DAP/14DAP	0.97875	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9771	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.55461	0.184
Mature Green Tomato/Ripe Tomato	1.91071	0.185
Immature Eggplant/Mature Eggplant	0.98651
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.15878
1-3/M82	N/A	N/A
2-1-1/M82	0.54127
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	0.99303
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.82438
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96561	1
IL2-6/WTpooled	1.09285	0.584
IL7-5/WTpooled	0.80244	0.559
IL7-3/WTpooled	0.85998	0.298
IL12-4/WTpooled	1.1515	0.624
IL1-4/WTpooled	0.88388	0.444
WT/WTpooled	1.04168	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94997	1
DC3000/delta hrp 6h	0.96636	0.95
DC3000/delta hrp 12h	0.81218	1
DC3000/delta hrp 24h	1.16997	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.15163	0.294
transgenic ySAMdc/azygous control (breaker)	0.72082	0.251
transgenic ySAMdc/azygous control (red)	0.86331	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97177	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71669	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9247	1
Manapal/WT (break)	1.8769	0.14
Manapal/WT (red)	1.21827	1