Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.12.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.90584	0.414
27DAP/17DAP	3.50647	0.735
39DAP/27DAP	1.41486	0.876
41DAP/39DAP	0.93573	0.662
42DAP/41DAP	1.08976	1
43DAP/42DAP	1.33208	0.512
47DAP/43DAP	0.78	0.34
52DAP/47DAP	1.12443	0.964
57DAP/52DAP	0.95392	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63073	0.685
17DAP/reference	1.28262	0.185
27DAP/reference	1.47219	0.093
39DAP/reference	1.14418	0.474
41DAP/reference	1.333	0.062
42DAP/reference	1.29472	0.08
43DAP/reference	0.66953
47DAP/reference	1.18615	1
52DAP/reference	0.61372	0.022
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.77994
39DAP/27DAP	0.96819
41DAP/39DAP	0.74309
42DAP/41DAP	0.78299
43DAP/42DAP	0.70725	0.558
47DAP/43DAP	1.13531	0.926
52DAP/47DAP	0.88472	0.898
57DAP/52DAP	0.70023
57DAP/7DAP	1.25253	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.89553	0.024
17DAP/reference	1.17722	0.038
27DAP/reference	1.04056	0.804
39DAP/reference	0.83492	0.016
41DAP/reference	0.69255	0.015
42DAP/reference	0.69531	0.01
43DAP/reference	0.61367	0.011
47DAP/reference	0.87991	0.293
52DAP/reference	0.70145	0.013
57DAP/reference	0.92405	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48644	0.397
17DAP/reference	1.18607	0.789
27DAP/reference	1.19257	0.388
39DAP/reference	1.52983	1
41DAP/reference	1.11143	0.752
42DAP/reference	1.24717
43DAP/reference	0.89281	0.292
47DAP/reference	1.63551	0.012
52DAP/reference	1.17538	0.032
57DAP/reference	1.63554	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.20631	0.015
17DAP/reference	1.71078	0.111
27DAP/reference	1.17839	0.046
39DAP/reference	1.20261	0.035
41DAP/reference	1.00218	0.826
42DAP/reference	1.06396	0.716
43DAP/reference	1.07506	0.572
47DAP/reference	0.96741	0.574
52DAP/reference	1.0943	0.631
57DAP/reference	0.88311	0.321

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.58368	0.787
26DAP/20DAP	N/A	N/A
34DAP/26DAP	2.14911	0.819
51DAP/34DAP	0.80656
52DAP/51DAP	1.24403	0.965
53DAP/52DAP	1.32145	0.83
55DAP/53DAP	N/A	N/A
57DAP/55DAP	1.07391
62DAP/57DAP	0.79026
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.59281	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98279	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.42242	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.58243	0.062
Ripe Pepper/Ripe Tomato	7.45948	0.258
Mature Eggplant/Ripe Tomato	11.0442

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	N/A	N/A
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	N/A	N/A
IL2-6/WTpooled	0.70988
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10668	1
IL12-4/WTpooled	0.78781	0.566
IL1-4/WTpooled	1.1558	1
WT/WTpooled	0.70704

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	N/A	N/A
DC3000/delta hrp 6h	1.02329	1
DC3000/delta hrp 12h	1.52287	1
DC3000/delta hrp 24h	N/A	N/A

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	1.05555	0.936
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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.74187	0.186

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.08239	0.233

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)	N/A	N/A