Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80828	0.373
27DAP/17DAP	1.39838	0.793
39DAP/27DAP	0.95917	0.782
41DAP/39DAP	1.12733	0.844
42DAP/41DAP	0.91107	1
43DAP/42DAP	1.4797	0.061
47DAP/43DAP	0.76798	0.34
52DAP/47DAP	1.0536	0.761
57DAP/52DAP	1.2158	0.892

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69612	0.026
17DAP/reference	0.8441	0.025
27DAP/reference	0.9327	0.359
39DAP/reference	0.86658	0.049
41DAP/reference	0.84993	0.026
42DAP/reference	1.00084	0.531
43DAP/reference	1.38414	0.01
47DAP/reference	1.90518	0.001
52DAP/reference	1.20297	0.011
57DAP/reference	1.4682	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86166
27DAP/17DAP	0.61981	0.241
39DAP/27DAP	0.71891	0.035
41DAP/39DAP	1.29633
42DAP/41DAP	30.6187
43DAP/42DAP	0.57446
47DAP/43DAP	1.71038	0.013
52DAP/47DAP	1.10159	0.9
57DAP/52DAP	2.15825	0.089
57DAP/7DAP	1.76865

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37914	0.1
17DAP/reference	1.17859	0.896
27DAP/reference	1.09735	0.551
39DAP/reference	1.29544	0.036
41DAP/reference	1.40741	0.023
42DAP/reference	1.55283	0.018
43DAP/reference	1.63807	0.008
47DAP/reference	1.22309	0.324
52DAP/reference	1.413	0.043
57DAP/reference	1.48092	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93336	0.503
17DAP/reference	0.73792	0.005
27DAP/reference	0.87005	0.155
39DAP/reference	0.95342	0.392
41DAP/reference	0.75464	0.016
42DAP/reference	0.86284	0.135
43DAP/reference	1.04026	1
47DAP/reference	0.86834	0.145
52DAP/reference	0.79506	0.005
57DAP/reference	0.78437	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26083	0.827
17DAP/reference	0.99184	0.658
27DAP/reference	1.48125	0.027
39DAP/reference	1.47577	0.018
41DAP/reference	1.23784	0.383
42DAP/reference	1.3214	0.239
43DAP/reference	1.31166	0.084
47DAP/reference	1.93283	0.005
52DAP/reference	1.50738	0.032
57DAP/reference	1.12346	0.255

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05536	0.966
26DAP/20DAP	0.97485	1
34DAP/26DAP	1.39767	0.819
51DAP/34DAP	0.88206	0.546
52DAP/51DAP	0.86548
53DAP/52DAP	1.33897	0.643
55DAP/53DAP	0.7529	0.577
57DAP/55DAP	0.92653	0.825
62DAP/57DAP	0.89646	0.681
68DAP/62DAP	1.15826	0.767
68DAP/14DAP	0.83516	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.50277	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	3.83174	0.05
Ripe Pepper/Ripe Tomato	0.11141	0.224
Mature Eggplant/Ripe Tomato	0.20852	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.21706	0.877
1-1-2/M82	1.00993	1
12-2/M82	2.19692	0.327
12-4/M82	0.86304	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.05509
2-1/M82	0.9672
2-6/M82	1.03802	0.395
3-2/M82	1.23832
4-1-1/M82	1.01319	1
4-1/M82	N/A	N/A
4-3-2/M82	1.15453
4-3/M82	1.4589	1
5-3/M82	0.82018	0.642
6-2/M82	0.84269
6-3/M82	1.05279	1
7-1/M82	0.82444	0.509
7-2/M82	0.89385	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19714
IL2-6/WTpooled	1.07176	1
IL7-5/WTpooled	0.83246
IL7-3/WTpooled	1.13572	1
IL12-4/WTpooled	1.05857	0.891
IL1-4/WTpooled	0.95245	0.402
WT/WTpooled	1.16608	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	0.86035	1
DC3000/delta hrp 6h	1.28095	1
DC3000/delta hrp 12h	1.09913	1
DC3000/delta hrp 24h	0.70354	0.058

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	1.05546	1
Exp 36h	1.33432	0.489
Exp 60h	1.49768	0.399

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	1.14427	0.98
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)	0.84202	0.348
transgenic ySAMdc/azygous control (breaker)	0.95651	1
transgenic ySAMdc/azygous control (red)	1.01277	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02168	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.30547	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.54875	0.172
Manapal/WT (break)	1.06323	0.381
Manapal/WT (red)	0.84398	0.229