Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23647	0.561
27DAP/17DAP	1.35223	0.744
39DAP/27DAP	0.95124	0.663
41DAP/39DAP	1.44998	0.392
42DAP/41DAP	0.97358	1
43DAP/42DAP	1.38622	0.299
47DAP/43DAP	1.66257	0.455
52DAP/47DAP	0.69551	0.357
57DAP/52DAP	1.28926	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98734	0.645
17DAP/reference	1.06247	0.201
27DAP/reference	1.0151	0.794
39DAP/reference	1.03426	0.335
41DAP/reference	1.06722	0.587
42DAP/reference	0.97787	0.295
43DAP/reference	1.0194	0.812
47DAP/reference	0.93674	0.224
52DAP/reference	0.88365	0.111
57DAP/reference	0.84243	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.63388	0.055
27DAP/17DAP	1.11044	0.842
39DAP/27DAP	1.046	1
41DAP/39DAP	1.24512	0.799
42DAP/41DAP	0.83445	0.109
43DAP/42DAP	0.76055	0.235
47DAP/43DAP	1.33245	0.593
52DAP/47DAP	0.98611	0.935
57DAP/52DAP	1.48482	0.169
57DAP/7DAP	0.97758	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04532	0.894
17DAP/reference	1.09904	0.399
27DAP/reference	0.81326	0.146
39DAP/reference	1.13409	0.297
41DAP/reference	0.93462	0.375
42DAP/reference	1.09086	0.534
43DAP/reference	1.15848	0.226
47DAP/reference	1.08394	0.761
52DAP/reference	1.12823	0.183
57DAP/reference	1.17916	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02609	0.712
17DAP/reference	0.99641	0.766
27DAP/reference	0.88611	0.119
39DAP/reference	0.99191	0.603
41DAP/reference	0.91174	0.148
42DAP/reference	0.90701	0.237
43DAP/reference	0.93086	0.32
47DAP/reference	0.92447	0.028
52DAP/reference	1.05755	0.181
57DAP/reference	1.08427	0.345

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0414	0.758
17DAP/reference	1.12006	0.551
27DAP/reference	1.22765	0.024
39DAP/reference	1.14157	0.496
41DAP/reference	1.33434	0.369
42DAP/reference	0.95007	0.552
43DAP/reference	1.28261	0.505
47DAP/reference	0.9438	0.224
52DAP/reference	1.11454	0.683
57DAP/reference	0.76889	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09441	0.966
26DAP/20DAP	1.0431	1
34DAP/26DAP	0.90052	0.917
51DAP/34DAP	0.95493	0.785
52DAP/51DAP	1.17506	0.579
53DAP/52DAP	1.01436	0.97
55DAP/53DAP	1.20346	0.722
57DAP/55DAP	1.09207	1
62DAP/57DAP	1.00384	0.994
68DAP/62DAP	0.86223	0.641
68DAP/14DAP	0.8318	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15905	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.89819	0.226
Immature Eggplant/Mature Eggplant	0.77194
Ripe Pepper/Ripe Tomato	0.56075	0.224
Mature Eggplant/Ripe Tomato	0.97786	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99087	1
1-1-2/M82	0.8012	1
12-2/M82	0.92173
12-4/M82	1.22698
1-3/M82	0.87963
2-1-1/M82	0.46129	0.683
2-1/M82	N/A	N/A
2-6/M82	1.12803	0.505
3-2/M82	0.96151	1
4-1-1/M82	1.08028	0.968
4-1/M82	N/A	N/A
4-3-2/M82	0.76798	0.698
4-3/M82	0.88334	0.46
5-3/M82	1.03412	1
6-2/M82	0.82814	0.497
6-3/M82	1.06936	1
7-1/M82	1.26145	1
7-2/M82	1.12957	1
9-3-2/M82	0.79243	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73157	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.20176	0.557
IL1-4/WTpooled	0.75048
WT/WTpooled	0.9348	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	1.29268	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.24229	0.875
DC3000/delta hrp 6h	0.8526
DC3000/delta hrp 12h	1.03642	1
DC3000/delta hrp 24h	1.0643	0.633

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	0.90465	1
Exp 36h	1.71331	1
Exp 60h	1.22412	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0608	1
Var 0h	0.95716	1
Var 12h I row2-row1	0.86698	0.467
Var 12h NI row2-row1	3.30109	1
Var 36h I row2-row1	1.18419	0.742
Var 36h NI row2-row1	1.00171
Var 60h I row2-row1	0.84129	0.285
Var 60h NI row2-row1	0.7769	0.866
Time course 0hI-0hNI	0.94909	0.745
Time course 12hI-12hNI	0.91745	0.436
Time course 36hI-36hNI	1.1783	0.114
Time course 60hI-60hNI	2.32241	0.017

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)	1.05229	0.292
transgenic ySAMdc/azygous control (breaker)	1.00627	1
transgenic ySAMdc/azygous control (red)	0.97026	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99014	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87325	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86704	1
Manapal/WT (break)	0.94619	1
Manapal/WT (red)	1.09558	0.222