Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.5.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.9215	0.77
27DAP/17DAP	1.06275	0.91
39DAP/27DAP	0.93455	0.67
41DAP/39DAP	1.17123	0.833
42DAP/41DAP	1.37759	0.691
43DAP/42DAP	1.07355	1
47DAP/43DAP	1.06678	0.756
52DAP/47DAP	0.84814	0.598
57DAP/52DAP	1.10433	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45492	0.017
17DAP/reference	0.51264	0.007
27DAP/reference	0.76422	0.137
39DAP/reference	0.58696	0.018
41DAP/reference	0.64442	0.039
42DAP/reference	0.79316	0.009
43DAP/reference	0.96956	0.691
47DAP/reference	0.60166	0.001
52DAP/reference	0.50277	0.013
57DAP/reference	0.90305	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.33596
27DAP/17DAP	1.19349
39DAP/27DAP	0.98702	1
41DAP/39DAP	1.43938
42DAP/41DAP	0.8703	0.746
43DAP/42DAP	2.19547	0.212
47DAP/43DAP	1.71347	0.88
52DAP/47DAP	1.0116	0.991
57DAP/52DAP	1.73661
57DAP/7DAP	0.91321	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36661	0.036
17DAP/reference	1.36543	0.009
27DAP/reference	1.35532	0.073
39DAP/reference	1.56187	0.007
41DAP/reference	1.86762	0.009
42DAP/reference	2.02625	0.007
43DAP/reference	1.33408	0.02
47DAP/reference	0.9415	0.504
52DAP/reference	1.16485	0.055
57DAP/reference	1.35076	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33356	0.284
17DAP/reference	0.66229	0.021
27DAP/reference	0.59117	0.018
39DAP/reference	0.77843	0.041
41DAP/reference	0.89534	0.152
42DAP/reference	0.76562	0.016
43DAP/reference	0.64102	0.003
47DAP/reference	1.23409	0.24
52DAP/reference	0.60953	0.005
57DAP/reference	0.71539	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34309	0.162
17DAP/reference	1.12068	0.966
27DAP/reference	1.38174	0.131
39DAP/reference	1.05648	1
41DAP/reference	1.13699	0.383
42DAP/reference	1.17602	0.51
43DAP/reference	1.04021	1
47DAP/reference	0.57271	0.004
52DAP/reference	1.40209	0.542
57DAP/reference	0.78382	0.09

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11508	0.966
26DAP/20DAP	0.93728	1
34DAP/26DAP	0.99316
51DAP/34DAP	0.58041
52DAP/51DAP	1.15288	0.146
53DAP/52DAP	0.76088	0.089
55DAP/53DAP	2.10126	0.755
57DAP/55DAP	1.09214	1
62DAP/57DAP	0.9731	0.994
68DAP/62DAP	1.16243
68DAP/14DAP	1.3035	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.39249	0.478
Immature Eggplant/Mature Eggplant	4.63927	0.05
Ripe Pepper/Ripe Tomato	0.16532
Mature Eggplant/Ripe Tomato	4.03376

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	0.65511
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	0.71515
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	1.03278	1
IL2-6/WTpooled	0.65877
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86635	0.294
IL12-4/WTpooled	0.72381	0.71
IL1-4/WTpooled	1.5226	1
WT/WTpooled	1.01574	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	1.01132	1
DC3000/delta hrp 12h	0.71988	1
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	1.08398	1
Exp 36h	1.98821	1
Exp 60h	1.24712	1

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	1.20317	0.374
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.24261	0.256
transgenic ySAMdc/azygous control (breaker)	0.78494	0.251
transgenic ySAMdc/azygous control (red)	1.00228	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93271	0.191

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)	1.02439	1
Manapal/WT (break)	0.65079	1
Manapal/WT (red)	N/A	N/A