Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81315	0.31
27DAP/17DAP	0.8147	0.433
39DAP/27DAP	0.99102	0.782
41DAP/39DAP	1.11298	0.649
42DAP/41DAP	1.24683	0.903
43DAP/42DAP	1.0477	1
47DAP/43DAP	1.13873	0.405
52DAP/47DAP	1.11057	0.879
57DAP/52DAP	0.95809	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03773	0.441
17DAP/reference	1.04603	0.229
27DAP/reference	1.02189	0.66
39DAP/reference	0.98617	0.75
41DAP/reference	1.09876	0.133
42DAP/reference	0.96097	0.111
43DAP/reference	0.98079	0.691
47DAP/reference	0.91945	0.032
52DAP/reference	0.91882	0.147
57DAP/reference	0.88862	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5195	0.029
27DAP/17DAP	1.24745	0.243
39DAP/27DAP	0.93143	0.502
41DAP/39DAP	0.85114	0.372
42DAP/41DAP	0.9986	0.876
43DAP/42DAP	1.08034	0.446
47DAP/43DAP	1.00229	1
52DAP/47DAP	1.01834	0.986
57DAP/52DAP	0.97113	0.726
57DAP/7DAP	0.93242	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92642	0.07
17DAP/reference	0.96025	0.018
27DAP/reference	0.9314	0.012
39DAP/reference	0.9926	0.264
41DAP/reference	0.94952	0.094
42DAP/reference	0.96149	0.066
43DAP/reference	0.96959	0.23
47DAP/reference	0.90905	0.168
52DAP/reference	0.98103	0.477
57DAP/reference	0.91303	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00523	0.943
17DAP/reference	0.98511	0.576
27DAP/reference	0.86392	0.076
39DAP/reference	0.90555	0.144
41DAP/reference	0.86642	0.038
42DAP/reference	0.90304	0.189
43DAP/reference	0.96004	0.459
47DAP/reference	1.00436	0.833
52DAP/reference	0.95712	0.171
57DAP/reference	1.0314	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98284	0.268
17DAP/reference	1.00042	0.886
27DAP/reference	0.947	0.053
39DAP/reference	0.97947	0.271
41DAP/reference	0.9718	0.331
42DAP/reference	0.88242	0.108
43DAP/reference	0.93804	0.131
47DAP/reference	0.96433	0.306
52DAP/reference	0.94952	0.424
57DAP/reference	0.74205	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03331	0.966
26DAP/20DAP	1.19531	0.361
34DAP/26DAP	1.00538	1
51DAP/34DAP	0.72594	0.079
52DAP/51DAP	0.91119	1
53DAP/52DAP	0.97908	0.876
55DAP/53DAP	0.85765	0.233
57DAP/55DAP	0.84642	0.249
62DAP/57DAP	1.15136	0.303
68DAP/62DAP	0.9885	0.863
68DAP/14DAP	1.05311	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.35624	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06618	1
Mature Green Tomato/Ripe Tomato	2.02089	0.064
Immature Eggplant/Mature Eggplant	1.20358	0.096
Ripe Pepper/Ripe Tomato	1.18917
Mature Eggplant/Ripe Tomato	2.00031	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02332	0.877
1-1-2/M82	1.00429	1
12-2/M82	0.98707	1
12-4/M82	1.06955	0.694
1-3/M82	0.99347	1
2-1-1/M82	0.96797
2-1/M82	1.52391
2-6/M82	1.05871	0.695
3-2/M82	0.90888
4-1-1/M82	0.98442	1
4-1/M82	0.95005	0.665
4-3-2/M82	0.92209	0.487
4-3/M82	0.80966	0.611
5-3/M82	1.08284	1
6-2/M82	N/A	N/A
6-3/M82	0.96933	1
7-1/M82	N/A	N/A
7-2/M82	0.9469	0.414
9-3-2/M82	0.90965

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	0.75835	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00555	1
DC3000/delta hrp 6h	0.84745	0.95
DC3000/delta hrp 12h	1.0478	1
DC3000/delta hrp 24h	0.96181	0.794

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.38563	0.023
DC3000 delta B/DC3000 delta AB	0.4861	0.02

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93562	1
Exp 36h	0.89283	0.41
Exp 60h	0.80273	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00354	1
Var 0h	1.39415	0.782
Var 12h I row2-row1	0.8167	0.357
Var 12h NI row2-row1	0.87593	0.546
Var 36h I row2-row1	1.18208	0.742
Var 36h NI row2-row1	1.30248	0.482
Var 60h I row2-row1	0.89139	0.832
Var 60h NI row2-row1	1.11488	0.904
Time course 0hI-0hNI	0.99852	1
Time course 12hI-12hNI	0.88683	0.26
Time course 36hI-36hNI	0.77127	0.038
Time course 60hI-60hNI	0.11643	0.005

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)	0.95327	0.454
transgenic ySAMdc/azygous control (breaker)	0.97022	1
transgenic ySAMdc/azygous control (red)	0.93996	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03872	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18258	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03599	1
Manapal/WT (break)	1.01428	1
Manapal/WT (red)	0.80093	0.424