Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72465	0.097
27DAP/17DAP	0.94012	0.857
39DAP/27DAP	1.59045	0.864
41DAP/39DAP	1.05199	0.697
42DAP/41DAP	0.85697	1
43DAP/42DAP	1.44638	0.144
47DAP/43DAP	0.97266	0.825
52DAP/47DAP	1.29742	0.819
57DAP/52DAP	0.70993	0.71

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85814	0.094
17DAP/reference	0.90821	0.028
27DAP/reference	1.05061	0.623
39DAP/reference	0.90062	0.023
41DAP/reference	0.79094	0.021
42DAP/reference	0.83913	0.005
43DAP/reference	0.86835	0.036
47DAP/reference	0.84776	0.035
52DAP/reference	0.94119	0.33
57DAP/reference	1.03093	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22411	0.812
27DAP/17DAP	1.12911	0.909
39DAP/27DAP	1.2095	0.453
41DAP/39DAP	1.32988	0.024
42DAP/41DAP	0.76162	0.05
43DAP/42DAP	0.97688	0.801
47DAP/43DAP	1.05919	0.906
52DAP/47DAP	0.99601	0.962
57DAP/52DAP	1.8796	0.029
57DAP/7DAP	1.25785	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12291	0.325
17DAP/reference	1.03608	1
27DAP/reference	1.01698	1
39DAP/reference	1.12987	0.391
41DAP/reference	0.95192	0.412
42DAP/reference	0.89389	0.222
43DAP/reference	1.09204	0.511
47DAP/reference	1.13385	0.247
52DAP/reference	1.04183	0.781
57DAP/reference	1.15086	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86328	0.048
17DAP/reference	0.7542	0.018
27DAP/reference	0.78308	0.104
39DAP/reference	0.82618	0.069
41DAP/reference	0.94736	0.315
42DAP/reference	0.87345	0.098
43DAP/reference	0.77232	0.06
47DAP/reference	0.96794	0.4
52DAP/reference	0.91093	0.06
57DAP/reference	0.80808	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01502	1
17DAP/reference	0.91419	0.374
27DAP/reference	1.10779	0.171
39DAP/reference	0.97783	0.591
41DAP/reference	1.00484	0.826
42DAP/reference	1.11342	0.627
43DAP/reference	0.97869	0.59
47DAP/reference	0.92912	0.278
52DAP/reference	1.11622	0.664
57DAP/reference	0.91765	0.212

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20252	0.966
26DAP/20DAP	1.27553	0.374
34DAP/26DAP	0.69942	0.565
51DAP/34DAP	1.37175	0.081
52DAP/51DAP	1.10146	0.492
53DAP/52DAP	1.12644	0.895
55DAP/53DAP	0.91142	0.489
57DAP/55DAP	1.05219	1
62DAP/57DAP	1.05822	0.902
68DAP/62DAP	1.24977	0.115
68DAP/14DAP	1.2787	0.295

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.52748	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.3466
Ripe Pepper/Ripe Tomato	1.39363	1
Mature Eggplant/Ripe Tomato	0.58046	1

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	0.82739
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.69026	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.23695	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.12003	1
IL1-4/WTpooled	0.54622	0.476
WT/WTpooled	N/A	N/A

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	1.15502	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06621	0.921
DC3000/delta hrp 6h	1.22721	0.978
DC3000/delta hrp 12h	1.10929	1
DC3000/delta hrp 24h	1.23875	0.085

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.51953	0.045
DC3000 delta B/DC3000 delta AB	1.31011	0.457

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19376	1
Exp 36h	2.39986	0.693
Exp 60h	1.61278	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00912	1
Var 0h	0.65593	1
Var 12h I row2-row1	1.26952	0.198
Var 12h NI row2-row1	1.24683	0.281
Var 36h I row2-row1	0.87087	1
Var 36h NI row2-row1	6.52619	1
Var 60h I row2-row1	0.81223	0.285
Var 60h NI row2-row1	0.92142	0.818
Time course 0hI-0hNI	0.96378	0.758
Time course 12hI-12hNI	1.57292	0.005
Time course 36hI-36hNI	2.32131	0.005
Time course 60hI-60hNI	2.68262	0.008

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)	1.09849	0.511
transgenic ySAMdc/azygous control (breaker)	0.76301	0.173
transgenic ySAMdc/azygous control (red)	0.9381	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07973	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77418	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95696	1
Manapal/WT (break)	0.81428	0.299
Manapal/WT (red)	0.81666	0.181