Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02365	0.964
27DAP/17DAP	1.19042	0.793
39DAP/27DAP	0.8481	0.414
41DAP/39DAP	1.04076	0.788
42DAP/41DAP	1.05922	0.912
43DAP/42DAP	1.06465	1
47DAP/43DAP	1.21673	0.444
52DAP/47DAP	0.95387	0.818
57DAP/52DAP	1.00462	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80186	0.025
17DAP/reference	0.96885	0.597
27DAP/reference	1.09176	0.299
39DAP/reference	1.141	0.093
41DAP/reference	1.06634	0.759
42DAP/reference	0.86369	0.176
43DAP/reference	0.95316	0.576
47DAP/reference	1.09105	0.558
52DAP/reference	0.84733	0.049
57DAP/reference	1.15633	0.229

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94856	0.484
27DAP/17DAP	1.02761	0.909
39DAP/27DAP	0.99339	1
41DAP/39DAP	1.01799	0.896
42DAP/41DAP	0.97112	0.746
43DAP/42DAP	1.02542	0.382
47DAP/43DAP	0.98891	0.954
52DAP/47DAP	1.00988	0.991
57DAP/52DAP	0.96583	0.608
57DAP/7DAP	0.92989	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75775	0.091
17DAP/reference	0.98826	0.518
27DAP/reference	0.79479	0.159
39DAP/reference	0.8585	0.146
41DAP/reference	0.85958	0.184
42DAP/reference	0.84786	0.038
43DAP/reference	1.03867	1
47DAP/reference	0.97979	0.671
52DAP/reference	0.74305	0.163
57DAP/reference	0.85952	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97672	0.756
17DAP/reference	1.23884	0.092
27DAP/reference	0.94194	0.407
39DAP/reference	1.06183	1
41DAP/reference	1.52442	0.188
42DAP/reference	1.25779	0.129
43DAP/reference	1.54764	0.101
47DAP/reference	1.15011	0.89
52DAP/reference	1.01414	1
57DAP/reference	0.97807	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82969	0.092
17DAP/reference	1.23445	0.436
27DAP/reference	0.98383	0.657
39DAP/reference	1.04065	0.889
41DAP/reference	0.9705	0.56
42DAP/reference	0.85645	0.134
43DAP/reference	1.1523	0.58
47DAP/reference	1.22455	0.309
52DAP/reference	0.84167	0.25
57DAP/reference	0.97808	0.572

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08647	0.966
26DAP/20DAP	1.01929	1
34DAP/26DAP	1.05734	1
51DAP/34DAP	0.98166	0.835
52DAP/51DAP	1.00453	1
53DAP/52DAP	1.10679	0.678
55DAP/53DAP	0.98162	0.82
57DAP/55DAP	1.25348	0.178
62DAP/57DAP	0.69668	0.871
68DAP/62DAP	1.76306	0.331
68DAP/14DAP	1.537

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34372	0.036

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.84888	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	3.98527
Mature Eggplant/Ripe Tomato	1.26872

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07956	0.551
1-1-2/M82	0.92879
12-2/M82	1.21547
12-4/M82	1.06273
1-3/M82	N/A	N/A
2-1-1/M82	1.05177
2-1/M82	N/A	N/A
2-6/M82	0.96985	0.501
3-2/M82	0.8095
4-1-1/M82	0.73951
4-1/M82	N/A	N/A
4-3-2/M82	0.88106
4-3/M82	1.0387	1
5-3/M82	0.89219	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.92328
7-2/M82	0.81439	0.54
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.10777	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08506	1
IL12-4/WTpooled	1.35557	0.498
IL1-4/WTpooled	0.75681	0.444
WT/WTpooled	0.95747	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	1.00958	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02699	0.921
DC3000/delta hrp 6h	1.14517	1
DC3000/delta hrp 12h	0.96146	1
DC3000/delta hrp 24h	0.94314	0.523

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08572	0.313
DC3000 delta B/DC3000 delta AB	1.03335	0.586

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	1.01551	1
Var 0h	1.14911	1
Var 12h I row2-row1	1.02222	0.692
Var 12h NI row2-row1	0.93079	0.82
Var 36h I row2-row1	0.9949	1
Var 36h NI row2-row1	1.03379	1
Var 60h I row2-row1	1.07878	1
Var 60h NI row2-row1	1.15198	0.904
Time course 0hI-0hNI	1.00529	1
Time course 12hI-12hNI	1.02835	0.779
Time course 36hI-36hNI	0.99754	0.768
Time course 60hI-60hNI	1.05664	0.216

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)	1.09577	0.862
transgenic ySAMdc/azygous control (breaker)	0.53448	0.251
transgenic ySAMdc/azygous control (red)	1.8408	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00194	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04564	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74984	1
Manapal/WT (break)	0.7921	1
Manapal/WT (red)	1.2941	0.413