Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05065	0.932
27DAP/17DAP	1.12396	0.92
39DAP/27DAP	1.10977	0.922
41DAP/39DAP	0.84145	0.566
42DAP/41DAP	1.07965	0.938
43DAP/42DAP	1.29085	0.861
47DAP/43DAP	0.93324	0.701
52DAP/47DAP	1.22507	0.843
57DAP/52DAP	0.98547	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88516	0.054
17DAP/reference	0.88373	0.085
27DAP/reference	1.11054	0.17
39DAP/reference	0.87904	0.033
41DAP/reference	0.86741	0.065
42DAP/reference	0.97332	0.196
43DAP/reference	0.97101	0.631
47DAP/reference	0.98327	0.473
52DAP/reference	1.00795	1
57DAP/reference	1.16197	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.61334	0.036
27DAP/17DAP	0.79856	0.58
39DAP/27DAP	0.58933	0.088
41DAP/39DAP	1.15985	0.656
42DAP/41DAP	0.86585	0.365
43DAP/42DAP	1.1181	0.147
47DAP/43DAP	1.05011	0.973
52DAP/47DAP	0.95094	0.898
57DAP/52DAP	1.45052	0.434
57DAP/7DAP	1.22162	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10205	0.338
17DAP/reference	0.98991	0.599
27DAP/reference	1.20995	0.551
39DAP/reference	0.99531	0.64
41DAP/reference	0.96805	0.449
42DAP/reference	0.97537	0.482
43DAP/reference	1.0507	1
47DAP/reference	1.018	1
52DAP/reference	0.93272	0.15
57DAP/reference	1.32682	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01442	0.965
17DAP/reference	0.94657	0.367
27DAP/reference	1.13363	0.133
39DAP/reference	1.05646	0.868
41DAP/reference	1.02398	0.718
42DAP/reference	0.91057	0.081
43DAP/reference	0.87074	0.068
47DAP/reference	0.84575	0.032
52DAP/reference	1.05633	0.417
57DAP/reference	0.7939	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08871	0.456
17DAP/reference	6.63573	0.558
27DAP/reference	1.18196	0.067
39DAP/reference	1.02152	0.858
41DAP/reference	1.14717	0.343
42DAP/reference	1.30746	0.063
43DAP/reference	1.13117	0.459
47DAP/reference	1.07563	0.324
52DAP/reference	0.99141	0.732
57DAP/reference	1.49428	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17309	0.966
26DAP/20DAP	0.82876	1
34DAP/26DAP	2.09867	1
51DAP/34DAP	0.70503	0.606
52DAP/51DAP	0.80157	1
53DAP/52DAP	1.03071	0.961
55DAP/53DAP	1.11067	0.927
57DAP/55DAP	0.73521	0.37
62DAP/57DAP	1.09059	0.767
68DAP/62DAP	3.01848	0.049
68DAP/14DAP	1.46401	0.189

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35488	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	5.4869	0.086
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.14888
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	1.14402
12-2/M82	N/A	N/A
12-4/M82	1.24808	1
1-3/M82	N/A	N/A
2-1-1/M82	0.58829
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.80971
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	0.94687
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	1.25272	0.277
IL2-6/WTpooled	0.90459	0.383
IL7-5/WTpooled	1.22954
IL7-3/WTpooled	0.88639	1
IL12-4/WTpooled	1.09736	0.785
IL1-4/WTpooled	1.43883	1
WT/WTpooled	1.13553	0.911

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	0.83464	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97296	1
DC3000/delta hrp 6h	0.99235	0.95
DC3000/delta hrp 12h	0.94036	1
DC3000/delta hrp 24h	1.02869	0.743

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	0.86994	1
Exp 36h	0.60327	0.406
Exp 60h	0.46356	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99401	1
Var 0h	0.94513	1
Var 12h I row2-row1	0.77908	0.39
Var 12h NI row2-row1	1.11582	1
Var 36h I row2-row1	0.95576	1
Var 36h NI row2-row1	2.00366	1
Var 60h I row2-row1	1.06849
Var 60h NI row2-row1	0.84226	0.977
Time course 0hI-0hNI	0.94322	0.618
Time course 12hI-12hNI	1.01454	0.85
Time course 36hI-36hNI	0.80411	0.026
Time course 60hI-60hNI	0.16893	0.005

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)	1.04038	0.798
transgenic ySAMdc/azygous control (breaker)	1.33857	0.172
transgenic ySAMdc/azygous control (red)	1.3891	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03498	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.50237	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.17965	0.083
Manapal/WT (break)	1.53458	0.381
Manapal/WT (red)	1.99009	0.137