Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.19.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43388	0.534
27DAP/17DAP	0.7657	0.462
39DAP/27DAP	1.19347	0.789
41DAP/39DAP	0.81511	0.539
42DAP/41DAP	1.10662	0.986
43DAP/42DAP	1.10179	0.956
47DAP/43DAP	1.70335	0.195
52DAP/47DAP	1.34042	0.676
57DAP/52DAP	1.29993	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09065	0.735
17DAP/reference	1.12235	0.318
27DAP/reference	1.24153	0.063
39DAP/reference	1.07557	0.377
41DAP/reference	1.07448	0.552
42DAP/reference	1.18485	0.025
43DAP/reference	1.14807	0.269
47DAP/reference	1.22305	0.022
52DAP/reference	1.02022	1
57DAP/reference	1.07409	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10742	1
27DAP/17DAP	1.17307	0.411
39DAP/27DAP	0.9675	0.795
41DAP/39DAP	1.4998	0.427
42DAP/41DAP	0.70724	0.078
43DAP/42DAP	1.14455	0.554
47DAP/43DAP	1.30704	0.193
52DAP/47DAP	0.84716	0.452
57DAP/52DAP	1.18458	0.851
57DAP/7DAP	1.35407	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87338	0.183
17DAP/reference	0.7648	0.012
27DAP/reference	0.80315	0.016
39DAP/reference	0.95637	0.354
41DAP/reference	0.8349	0.082
42DAP/reference	0.90678	0.189
43DAP/reference	0.77947	0.021
47DAP/reference	0.85652	0.293
52DAP/reference	0.97215	0.477
57DAP/reference	0.76261	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21261	0.206
17DAP/reference	1.23934	0.104
27DAP/reference	1.17402	0.446
39DAP/reference	1.13953	0.412
41DAP/reference	0.9141	0.226
42DAP/reference	0.99141	0.655
43DAP/reference	1.08999	0.719
47DAP/reference	0.99117	0.625
52DAP/reference	1.16373	0.145
57DAP/reference	0.90898	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94372	0.311
17DAP/reference	0.99003	0.751
27DAP/reference	0.82976	0.126
39DAP/reference	0.82901	0.058
41DAP/reference	1.13809	0.455
42DAP/reference	1.02396	1
43DAP/reference	1.31135	0.154
47DAP/reference	1.43537	0.006
52DAP/reference	0.92975	0.376
57DAP/reference	1.7907	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86286	0.787
26DAP/20DAP	1.33804	0.312
34DAP/26DAP	1.64778	0.819
51DAP/34DAP	1.12334	0.785
52DAP/51DAP	0.94373	1
53DAP/52DAP	1.00768	0.978
55DAP/53DAP	0.9178	0.563
57DAP/55DAP	0.81584	0.297
62DAP/57DAP	1.00458	1
68DAP/62DAP	0.71446	0.406
68DAP/14DAP	0.7957	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08034	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90023	0.426
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.78406	0.197
Ripe Pepper/Ripe Tomato	1.65715
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	1.22089
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	0.52108
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.15956	0.493
IL2-6/WTpooled	1.4145	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.4174	0.362
IL12-4/WTpooled	1.0655	0.785
IL1-4/WTpooled	1.09964	0.426
WT/WTpooled	0.93037	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	1.13907	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09418	0.823
DC3000/delta hrp 6h	1.11311	1
DC3000/delta hrp 12h	0.99232	1
DC3000/delta hrp 24h	1.12788	0.336

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	1.34327	1
Exp 36h	1.14831	1
Exp 60h	0.78597	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.24027	1
Var 0h	1.05709	1
Var 12h I row2-row1	0.86567	0.705
Var 12h NI row2-row1	1.66748	1
Var 36h I row2-row1	1.14391	0.742
Var 36h NI row2-row1	1.14096	1
Var 60h I row2-row1	0.79846	0.374
Var 60h NI row2-row1	0.78862	0.292
Time course 0hI-0hNI	1.14961	0.413
Time course 12hI-12hNI	1.17498	0.342
Time course 36hI-36hNI	2.43636	0.005
Time course 60hI-60hNI	4.18948	0.008

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)	1.11993	0.571
transgenic ySAMdc/azygous control (breaker)	1.19265	0.248
transgenic ySAMdc/azygous control (red)	1.32352	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07749	0.096

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.42447	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.66139	0.083
Manapal/WT (break)	2.39352	0.14
Manapal/WT (red)	N/A	N/A