Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9531	0.558
27DAP/17DAP	1.00523	0.927
39DAP/27DAP	0.93415	0.544
41DAP/39DAP	1.09181	0.788
42DAP/41DAP	0.89426	0.774
43DAP/42DAP	1.04221	1
47DAP/43DAP	0.84763	0.51
52DAP/47DAP	0.81366	0.463
57DAP/52DAP	1.087	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08167	0.366
17DAP/reference	0.93345	0.474
27DAP/reference	0.98411	0.595
39DAP/reference	0.9422	0.213
41DAP/reference	0.97657	0.542
42DAP/reference	1.13042	0.011
43DAP/reference	0.97059	0.538
47DAP/reference	1.03653	0.448
52DAP/reference	1.07805	0.371
57DAP/reference	1.10333	0.153

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92981
27DAP/17DAP	1.22525	0.564
39DAP/27DAP	0.99437	1
41DAP/39DAP	0.68206
42DAP/41DAP	3.82978	0.514
43DAP/42DAP	1.66217
47DAP/43DAP	1.36389	0.54
52DAP/47DAP	1.43487	0.71
57DAP/52DAP	1.37407	0.5
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02803	0.793
17DAP/reference	0.93466	0.02
27DAP/reference	0.94464	0.037
39DAP/reference	0.98868	0.474
41DAP/reference	0.91253	0.062
42DAP/reference	0.93482	0.04
43DAP/reference	0.97834	0.459
47DAP/reference	0.90124	0.293
52DAP/reference	1.03345	0.428
57DAP/reference	0.94932	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14058	0.156
17DAP/reference	1.17185	0.229
27DAP/reference	1.16941	0.068
39DAP/reference	1.07891	0.247
41DAP/reference	1.01121	1
42DAP/reference	1.04899	0.621
43DAP/reference	1.06163	0.396
47DAP/reference	1.00637	1
52DAP/reference	0.96399	0.537
57DAP/reference	1.20965	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05801	0.244
17DAP/reference	1.11247	0.139
27DAP/reference	0.98415	0.416
39DAP/reference	1.07003	0.108
41DAP/reference	0.98892	0.56
42DAP/reference	1.02859	0.68
43DAP/reference	1.06363	0.531
47DAP/reference	1.00628	1
52DAP/reference	0.91685	0.223
57DAP/reference	1.27209	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02054	0.966
26DAP/20DAP	1.62503	0.988
34DAP/26DAP	1.01533	1
51DAP/34DAP	0.922
52DAP/51DAP	0.91498
53DAP/52DAP	2.64835	0.662
55DAP/53DAP	1.56095	0.477
57DAP/55DAP	N/A	N/A
62DAP/57DAP	0.6815
68DAP/62DAP	1.44651	0.455
68DAP/14DAP	1.25471	0.103

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90869

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.04051	0.058
Mature Green Tomato/Ripe Tomato	1.63653	0.119
Immature Eggplant/Mature Eggplant	0.78144	0.1
Ripe Pepper/Ripe Tomato	2.43872	0.258
Mature Eggplant/Ripe Tomato	6.76402	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9782	0.961
1-1-2/M82	0.90172	1
12-2/M82	0.97371	0.955
12-4/M82	1.08026	0.694
1-3/M82	0.9897	1
2-1-1/M82	0.95101	0.92
2-1/M82	0.85678	0.519
2-6/M82	0.94176	1
3-2/M82	0.99466	1
4-1-1/M82	0.99024	1
4-1/M82	0.98876	1
4-3-2/M82	0.94717	1
4-3/M82	0.93739	1
5-3/M82	0.98623	1
6-2/M82	0.95867	1
6-3/M82	1.0057	1
7-1/M82	1.00021	1
7-2/M82	1.0245	1
9-3-2/M82	0.80804	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74313
IL2-6/WTpooled	0.95179	1
IL7-5/WTpooled	1.08461
IL7-3/WTpooled	1.07111	1
IL12-4/WTpooled	1.12558	0.785
IL1-4/WTpooled	0.97283
WT/WTpooled	0.92591	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	0.8894	0.95
DC3000/delta hrp 12h	0.98158	1
DC3000/delta hrp 24h	1.07815	0.467

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	1.06436	1
Exp 36h	0.77816	0.661
Exp 60h	0.62946	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	2.0231
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	3.38274
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)	1.04951	0.408
transgenic ySAMdc/azygous control (breaker)	1.41026	1
transgenic ySAMdc/azygous control (red)	1.36171	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94619	0.126

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.3114	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.15802	0.105
Manapal/WT (break)	4.32738	0.13
Manapal/WT (red)	4.81979	0.133