Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.14.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92	0.586
27DAP/17DAP	1.49441	0.599
39DAP/27DAP	1.38218	0.229
41DAP/39DAP	1.22691	0.535
42DAP/41DAP	0.58904	0.397
43DAP/42DAP	0.5753	0.454
47DAP/43DAP	0.68519	0.177
52DAP/47DAP	1.67382	0.446
57DAP/52DAP	1.03303	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03441	0.994
17DAP/reference	0.81893	0.06
27DAP/reference	0.84879	0.141
39DAP/reference	0.81788	0.041
41DAP/reference	0.74294	0.008
42DAP/reference	0.88815	0.054
43DAP/reference	0.84896	0.118
47DAP/reference	0.85532	0.038
52DAP/reference	0.84599	0.158
57DAP/reference	0.9946	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87292	0.148
27DAP/17DAP	0.97103	0.648
39DAP/27DAP	1.44954	0.32
41DAP/39DAP	0.95138	0.923
42DAP/41DAP	0.91412	0.568
43DAP/42DAP	1.73333	0.019
47DAP/43DAP	0.97073	0.87
52DAP/47DAP	0.92081	0.893
57DAP/52DAP	1.02345	0.895
57DAP/7DAP	1.54818	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33408	0.047
17DAP/reference	1.07899	0.269
27DAP/reference	0.99517	0.656
39DAP/reference	1.51612	0.038
41DAP/reference	1.22645	0.336
42DAP/reference	1.58426	0.01
43DAP/reference	1.45082	0.02
47DAP/reference	1.37774	0.039
52DAP/reference	1.24272	0.019
57DAP/reference	1.4446	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9787	0.736
17DAP/reference	0.95734	0.41
27DAP/reference	0.93583	0.327
39DAP/reference	1.16319	0.141
41DAP/reference	1.19284	0.248
42DAP/reference	0.95952	0.237
43DAP/reference	0.88122	0.162
47DAP/reference	1.03589	0.816
52DAP/reference	1.02561	1
57DAP/reference	0.80279	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27134	0.038
17DAP/reference	0.94375	0.189
27DAP/reference	1.27183	0.081
39DAP/reference	1.03639	0.773
41DAP/reference	1.23721	0.502
42DAP/reference	1.15943	0.194
43DAP/reference	0.98015	0.59
47DAP/reference	0.82252	0.009
52DAP/reference	1.42094	0.15
57DAP/reference	1.10038	0.614

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.71566	0.966
26DAP/20DAP	0.93178	1
34DAP/26DAP	0.91419	0.795
51DAP/34DAP	2.23151
52DAP/51DAP	1.14035	0.77
53DAP/52DAP	1.15998	0.413
55DAP/53DAP	1.18265	0.584
57DAP/55DAP	1.30887	0.915
62DAP/57DAP	1.04038	1
68DAP/62DAP	0.91993	0.722
68DAP/14DAP	1.20563	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.62405	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.23853	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.60961
Mature Eggplant/Ripe Tomato	0.4962	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.76001
1-1-2/M82	0.82231
12-2/M82	1.22885
12-4/M82	0.88879	0.619
1-3/M82	0.87812
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.87312
3-2/M82	0.76546
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	1.03134
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	1.06058	1
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.41489	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17692	0.914
DC3000/delta hrp 6h	1.29145	1
DC3000/delta hrp 12h	0.99963	1
DC3000/delta hrp 24h	1.7421	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.76026	0.087
DC3000 delta B/DC3000 delta AB	2.29082

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94492	0.235
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	1.07821	1
Var 0h	0.75829	1
Var 12h I row2-row1	1.03788	0.736
Var 12h NI row2-row1	0.88387	0.82
Var 36h I row2-row1	0.92984	1
Var 36h NI row2-row1	0.75053	0.61
Var 60h I row2-row1	1.05171	0.562
Var 60h NI row2-row1	1.11102	1
Time course 0hI-0hNI	0.99848	1
Time course 12hI-12hNI	1.00541	0.892
Time course 36hI-36hNI	1.18069	0.128
Time course 60hI-60hNI	1.11549	0.096

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)	1.5952	0.321
transgenic ySAMdc/azygous control (breaker)	0.66949	0.15
transgenic ySAMdc/azygous control (red)	1.0346	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94189	0.052

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.46149	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13409	1
Manapal/WT (break)	0.94147	1
Manapal/WT (red)	0.55195	0.187