Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84097	0.195
27DAP/17DAP	1.6136	0.474
39DAP/27DAP	1.36451	0.426
41DAP/39DAP	1.32367	0.575
42DAP/41DAP	0.99828	1
43DAP/42DAP	0.97297	0.912
47DAP/43DAP	0.88682	0.625
52DAP/47DAP	1.0298	0.949
57DAP/52DAP	1.30425	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03392	0.544
17DAP/reference	0.84437	0.079
27DAP/reference	0.83398	0.019
39DAP/reference	0.96095	0.575
41DAP/reference	0.75817	0.013
42DAP/reference	0.80947	0.007
43DAP/reference	0.91944	0.247
47DAP/reference	0.96859	0.392
52DAP/reference	1.10783	0.128
57DAP/reference	1.08054	0.141

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.63864	0.176
27DAP/17DAP	1.13059	0.706
39DAP/27DAP	1.01747	1
41DAP/39DAP	1.28914	0.157
42DAP/41DAP	1.00459	0.865
43DAP/42DAP	0.94193	0.336
47DAP/43DAP	1.26159	0.054
52DAP/47DAP	0.93415	0.746
57DAP/52DAP	1.56819	0.05
57DAP/7DAP	2.40818	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90673	0.088
17DAP/reference	1.10735	0.754
27DAP/reference	0.9555	0.264
39DAP/reference	0.75216	0.027
41DAP/reference	0.90764	0.166
42DAP/reference	0.72373	0.026
43DAP/reference	0.83288	0.04
47DAP/reference	0.96982	0.504
52DAP/reference	0.8728	0.126
57DAP/reference	0.92742	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0051	0.831
17DAP/reference	0.77407	0.068
27DAP/reference	1.17635	0.195
39DAP/reference	1.02494	1
41DAP/reference	1.03884	0.649
42DAP/reference	1.02252	0.723
43DAP/reference	0.97098	0.539
47DAP/reference	0.92447	0.094
52DAP/reference	0.9383	0.302
57DAP/reference	0.94946	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06413	0.444
17DAP/reference	0.98847	0.739
27DAP/reference	0.91864	0.155
39DAP/reference	0.94892	0.36
41DAP/reference	0.89813	0.264
42DAP/reference	1.01435	1
43DAP/reference	0.98691	0.66
47DAP/reference	0.88905	0.231
52DAP/reference	1.11763	0.631
57DAP/reference	1.04556	0.924

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08741	0.966
26DAP/20DAP	1.10277	1
34DAP/26DAP	1.11852	1
51DAP/34DAP	0.96564	0.844
52DAP/51DAP	1.16067	0.708
53DAP/52DAP	1.1138	0.712
55DAP/53DAP	1.11315	0.813
57DAP/55DAP	1.12422	0.87
62DAP/57DAP	0.96197	0.871
68DAP/62DAP	0.87644	0.747
68DAP/14DAP	1.34136	0.436

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.36621	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	0.98339	0.774
Immature Eggplant/Mature Eggplant	0.87455	0.448
Ripe Pepper/Ripe Tomato	0.38278	1
Mature Eggplant/Ripe Tomato	0.18496	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.24758	1
1-1-2/M82	1.26835	1
12-2/M82	1.20343	1
12-4/M82	0.99375
1-3/M82	1.54685	0.248
2-1-1/M82	1.17932	0.457
2-1/M82	0.64982
2-6/M82	0.41325	0.501
3-2/M82	0.83711
4-1-1/M82	0.61646	1
4-1/M82	1.22328
4-3-2/M82	N/A	N/A
4-3/M82	0.77781	1
5-3/M82	1.04698	1
6-2/M82	0.95978	1
6-3/M82	1.162	1
7-1/M82	0.92836	1
7-2/M82	N/A	N/A
9-3-2/M82	0.77535

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.65174	0.243
IL2-6/WTpooled	1.36913	0.441
IL7-5/WTpooled	0.84356	1
IL7-3/WTpooled	0.88702	1
IL12-4/WTpooled	0.97799	1
IL1-4/WTpooled	0.99121	1
WT/WTpooled	0.9974	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	0.78584	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0994	0.692
DC3000/delta hrp 6h	1.05081	1
DC3000/delta hrp 12h	0.98415	1
DC3000/delta hrp 24h	0.76375	0.041

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	0.81857	1
Exp 36h	N/A	N/A
Exp 60h	1.06918	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04502	1
Var 0h	1.02621	1
Var 12h I row2-row1	1.09192	0.692
Var 12h NI row2-row1	1.69976	0.649
Var 36h I row2-row1	0.91116	1
Var 36h NI row2-row1	0.63196	0.478
Var 60h I row2-row1	0.76272	0.285
Var 60h NI row2-row1	0.84716	0.818
Time course 0hI-0hNI	1.04579	0.833
Time course 12hI-12hNI	0.94229	0.637
Time course 36hI-36hNI	1.37085	0.005
Time course 60hI-60hNI	5.02507	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)	0.98674	0.789
transgenic ySAMdc/azygous control (breaker)	0.7501	0.251
transgenic ySAMdc/azygous control (red)	0.94165	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18472	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90184	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77133	0.172
Manapal/WT (break)	1.04143	1
Manapal/WT (red)	0.95264	0.728