Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57233	0.018
27DAP/17DAP	0.94161	0.894
39DAP/27DAP	2.55081	0.105
41DAP/39DAP	0.74745	0.153
42DAP/41DAP	1.39064	0.342
43DAP/42DAP	1.2168	0.867
47DAP/43DAP	0.90643	0.64
52DAP/47DAP	1.27533	0.626
57DAP/52DAP	0.81447	0.824

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02744	0.693
17DAP/reference	1.11142	0.457
27DAP/reference	1.4081	0.043
39DAP/reference	1.03776	0.76
41DAP/reference	1.20353	0.171
42DAP/reference	1.50092	0.002
43DAP/reference	1.26882	0.202
47DAP/reference	1.63353	0.001
52DAP/reference	1.48044	0.011
57DAP/reference	1.58334	0.088

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95534	0.613
27DAP/17DAP	0.84501	0.312
39DAP/27DAP	1.14238	0.57
41DAP/39DAP	0.86242	0.236
42DAP/41DAP	1.14866	0.159
43DAP/42DAP	2.09218	0.013
47DAP/43DAP	0.98415	0.919
52DAP/47DAP	0.88118	0.446
57DAP/52DAP	1.16852	0.442
57DAP/7DAP	0.96765	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38991	0.046
17DAP/reference	0.84898	0.039
27DAP/reference	0.90308	0.117
39DAP/reference	0.90921	0.109
41DAP/reference	0.92547	0.284
42DAP/reference	0.98636	0.554
43DAP/reference	1.12096	0.364
47DAP/reference	1.12442	0.377
52DAP/reference	0.85467	0.043
57DAP/reference	0.78316	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07058	0.952
17DAP/reference	0.92084	0.297
27DAP/reference	1.03265	1
39DAP/reference	0.86212	0.214
41DAP/reference	1.25821	0.122
42DAP/reference	1.31633	0.009
43DAP/reference	0.94958	0.459
47DAP/reference	1.23928	0.025
52DAP/reference	1.20631	0.498
57DAP/reference	0.95	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.59896	0.023
17DAP/reference	1.04052	0.865
27DAP/reference	0.86711	0.056
39DAP/reference	0.92463	0.031
41DAP/reference	0.80791	0.031
42DAP/reference	1.30673	0.068
43DAP/reference	1.68171	0.012
47DAP/reference	0.95514	0.465
52DAP/reference	1.79738	0.091
57DAP/reference	1.26175	0.717

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.63268	0.43
26DAP/20DAP	1.27927	0.325
34DAP/26DAP	0.94811	0.879
51DAP/34DAP	0.96339	0.743
52DAP/51DAP	1.10008	0.616
53DAP/52DAP	0.95522	0.797
55DAP/53DAP	0.75825	0.032
57DAP/55DAP	1.55389	0.348
62DAP/57DAP	0.93397	0.871
68DAP/62DAP	1.31124	0.759
68DAP/14DAP	0.89002	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.31988	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.43836	0.02
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.62878	0.224
Mature Eggplant/Ripe Tomato	0.45767	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.32893	0.742
1-1-2/M82	1.30319	1
12-2/M82	1.07177	1
12-4/M82	1.65045	1
1-3/M82	1.43563	1
2-1-1/M82	0.87949
2-1/M82	0.74925	0.325
2-6/M82	1.52394	0.374
3-2/M82	0.9057	0.455
4-1-1/M82	1.31521	1
4-1/M82	1.29425	1
4-3-2/M82	1.05081	0.241
4-3/M82	1.61642	0.268
5-3/M82	0.93411	1
6-2/M82	0.9329	1
6-3/M82	0.94556	1
7-1/M82	0.88185	0.466
7-2/M82	1.15599	1
9-3-2/M82	1.34615	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.17745	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.22628	1
IL12-4/WTpooled	0.97363	1
IL1-4/WTpooled	1.09909
WT/WTpooled	0.99142	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	0.94999	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91346	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.08834
DC3000/delta hrp 24h	0.98904	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.7538	0.023
DC3000 delta B/DC3000 delta AB	1.07518	0.479

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	0.99105	1
Var 0h	0.51078	1
Var 12h I row2-row1	0.90238	0.705
Var 12h NI row2-row1	1.06456	1
Var 36h I row2-row1	1.21287	0.601
Var 36h NI row2-row1	0.96757	0.791
Var 60h I row2-row1	0.85901	0.582
Var 60h NI row2-row1	0.89659	0.408
Time course 0hI-0hNI	0.80467	0.074
Time course 12hI-12hNI	1.1542	0.071
Time course 36hI-36hNI	1.05225	0.874
Time course 60hI-60hNI	0.61786	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)	0.65121	0.377
transgenic ySAMdc/azygous control (breaker)	1.21199	1
transgenic ySAMdc/azygous control (red)	1.19399	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85512	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91554	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.32857	0.222