Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.20.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01575	0.801
27DAP/17DAP	1.53679	0.579
39DAP/27DAP	1.21231	0.876
41DAP/39DAP	1.20553	0.359
42DAP/41DAP	0.93286	1
43DAP/42DAP	0.95518	0.9
47DAP/43DAP	0.84077	0.51
52DAP/47DAP	1.29607	0.487
57DAP/52DAP	1.34912	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39119	0.587
17DAP/reference	1.0974	0.248
27DAP/reference	0.94994	0.484
39DAP/reference	0.97028	0.624
41DAP/reference	0.99344	1
42DAP/reference	0.96188	0.225
43DAP/reference	1.18434
47DAP/reference	0.95584	0.174
52DAP/reference	0.9236	0.427
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27765	0.826
27DAP/17DAP	0.72125	0.206
39DAP/27DAP	0.99971	1
41DAP/39DAP	1.44814	0.304
42DAP/41DAP	0.87203	0.436
43DAP/42DAP	0.90945	0.665
47DAP/43DAP	0.9624	0.861
52DAP/47DAP	0.93891	0.857
57DAP/52DAP	1.69897	0.357
57DAP/7DAP	1.92521

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77241	0.1
17DAP/reference	0.88194	0.124
27DAP/reference	0.82551	0.017
39DAP/reference	0.71365	0.018
41DAP/reference	0.68805	0.018
42DAP/reference	0.87687	0.2
43DAP/reference	0.80599	0.079
47DAP/reference	0.82816	0.222
52DAP/reference	0.92372	0.213
57DAP/reference	0.88811	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00599	0.848
17DAP/reference	0.82114	0.012
27DAP/reference	0.84251	0.167
39DAP/reference	0.79809	0.102
41DAP/reference	0.87222	0.188
42DAP/reference	0.8504	0.039
43DAP/reference	0.93108	0.423
47DAP/reference	0.88756	0.081
52DAP/reference	0.847	0.01
57DAP/reference	0.8124	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94414	0.362
17DAP/reference	0.95895	0.579
27DAP/reference	1.01185	0.834
39DAP/reference	0.8462	0.018
41DAP/reference	0.87555	0.209
42DAP/reference	0.88468	0.108
43DAP/reference	1.0399	0.738
47DAP/reference	1.09255	0.372
52DAP/reference	2.32901	0.201
57DAP/reference	0.98859	0.693

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87931	0.071
26DAP/20DAP	0.44427	0.512
34DAP/26DAP	1.65331	1
51DAP/34DAP	1.25826	0.814
52DAP/51DAP	1.3494	0.708
53DAP/52DAP	0.8304	0.212
55DAP/53DAP	0.76369	0.282
57DAP/55DAP	1.00649	0.899
62DAP/57DAP	1.2612	0.8
68DAP/62DAP	1.06113	1
68DAP/14DAP	0.90259	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04542	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.72497	0.752
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.29058
Mature Eggplant/Ripe Tomato	0.06188

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	1.08124
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	0.92964	1
IL2-6/WTpooled	1.12041
IL7-5/WTpooled	0.91039	1
IL7-3/WTpooled	1.00484	1
IL12-4/WTpooled	1.33925	0.557
IL1-4/WTpooled	1.01638	1
WT/WTpooled	0.98105	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	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	N/A	N/A
DC3000/delta hrp 12h	1.44537
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	N/A	N/A
Var 12h I row2-row1	1.14265	0.654
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	2.43533	1
Var 36h NI row2-row1	1.42916
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	5.39203
Time course 0hI-0hNI	1.28728	0.852
Time course 12hI-12hNI	1.08031	0.678
Time course 36hI-36hNI	0.80764	0.355
Time course 60hI-60hNI	1.64772	0.254

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)	1.23479	0.312
transgenic ySAMdc/azygous control (breaker)	0.72915	0.139
transgenic ySAMdc/azygous control (red)	0.96356	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02244	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62033	0.172
Manapal/WT (break)	0.91252	1
Manapal/WT (red)	0.69309	0.229