Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.15.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29869	0.534
27DAP/17DAP	0.69482	0.184
39DAP/27DAP	0.99442	0.84
41DAP/39DAP	0.82792	0.436
42DAP/41DAP	1.07447	0.962
43DAP/42DAP	1.09073	0.937
47DAP/43DAP	1.28631	0.825
52DAP/47DAP	0.62747	0.195
57DAP/52DAP	0.84398	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17366	0.101
17DAP/reference	1.13954	0.178
27DAP/reference	1.07349	0.806
39DAP/reference	1.15819	0.149
41DAP/reference	1.41554	0.027
42DAP/reference	1.15154	0.174
43DAP/reference	1.09255	0.518
47DAP/reference	1.05107	1
52DAP/reference	0.91841	0.183
57DAP/reference	0.83713	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20984	0.473
27DAP/17DAP	1.32053	0.156
39DAP/27DAP	0.66925	0.046
41DAP/39DAP	1.00699	1
42DAP/41DAP	0.9339	0.589
43DAP/42DAP	1.00384	0.991
47DAP/43DAP	0.92837	0.781
52DAP/47DAP	0.9664	0.899
57DAP/52DAP	1.61739	0.236
57DAP/7DAP	0.87119	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82224	0.138
17DAP/reference	1.05149	0.971
27DAP/reference	0.76721	0.01
39DAP/reference	0.8633	0.109
41DAP/reference	1.00951	0.811
42DAP/reference	0.78807	0.058
43DAP/reference	0.85862	0.175
47DAP/reference	1.00123	1
52DAP/reference	0.75157	0.061
57DAP/reference	0.80624	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12302	0.75
17DAP/reference	1.41633	0.25
27DAP/reference	1.19005	0.359
39DAP/reference	1.0504	1
41DAP/reference	1.06607	0.878
42DAP/reference	1.02538	0.987
43DAP/reference	1.24023	0.087
47DAP/reference	1.01802	1
52DAP/reference	1.0559	0.761
57DAP/reference	1.1316	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89214	0.169
17DAP/reference	1.09079	0.712
27DAP/reference	1.10516	0.903
39DAP/reference	0.9491	0.328
41DAP/reference	0.88911	0.148
42DAP/reference	0.87628	0.172
43DAP/reference	0.87387	0.267
47DAP/reference	1.22507	0.239
52DAP/reference	1.25075	0.558
57DAP/reference	0.74776	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.38276	0.966
26DAP/20DAP	0.88239	0.512
34DAP/26DAP	1.23425	0.819
51DAP/34DAP	0.94822	0.791
52DAP/51DAP	1.28002	0.281
53DAP/52DAP	1.10554	0.738
55DAP/53DAP	1.17324	0.629
57DAP/55DAP	0.98522	0.812
62DAP/57DAP	1.16812	0.868
68DAP/62DAP	0.56251	0.126
68DAP/14DAP	0.43714	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.58153	0.048

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.52306	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	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	0.76862	0.243
IL2-6/WTpooled	0.85046	1
IL7-5/WTpooled	0.81951	1
IL7-3/WTpooled	0.53365	0.298
IL12-4/WTpooled	0.74233	0.566
IL1-4/WTpooled	0.90038	0.699
WT/WTpooled	1.02506	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	0.72855	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01876	0.921
DC3000/delta hrp 6h	0.70576
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.49321	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58517	0.027
DC3000 delta B/DC3000 delta AB	0.46346	0.02

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82463	1
Exp 36h	0.72515	0.539
Exp 60h	0.62935	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0241	1
Var 0h	0.56823	0.258
Var 12h I row2-row1	0.71687	0.363
Var 12h NI row2-row1	0.965	0.906
Var 36h I row2-row1	0.80056	0.805
Var 36h NI row2-row1	1.33915	0.253
Var 60h I row2-row1	1.83429	0.562
Var 60h NI row2-row1	1.11164	0.904
Time course 0hI-0hNI	1.02097	0.867
Time course 12hI-12hNI	0.88859	0.133
Time course 36hI-36hNI	0.77735	0.023
Time course 60hI-60hNI	0.11063	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)	1.08622	0.347
transgenic ySAMdc/azygous control (breaker)	0.71456	0.251
transgenic ySAMdc/azygous control (red)	0.702	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0159	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.03147	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.01444	0.093
Manapal/WT (break)	1.00565	1
Manapal/WT (red)	N/A	N/A