Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13755	0.827
27DAP/17DAP	1.40334	0.636
39DAP/27DAP	0.77646	0.271
41DAP/39DAP	1.70976	0.259
42DAP/41DAP	0.87114	1
43DAP/42DAP	1.18296	0.929
47DAP/43DAP	1.30833	0.542
52DAP/47DAP	0.96113	0.832
57DAP/52DAP	1.10813	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87993	0.217
17DAP/reference	0.59652	0.025
27DAP/reference	1.057	0.779
39DAP/reference	0.96464	0.624
41DAP/reference	0.53193	0.031
42DAP/reference	1.49723	0.08
43DAP/reference	1.52188	0.015
47DAP/reference	1.89608	0.017
52DAP/reference	2.68808	0.019
57DAP/reference	3.40494	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04357	1
27DAP/17DAP	0.96793	0.919
39DAP/27DAP	0.93724	0.488
41DAP/39DAP	1.2639	0.484
42DAP/41DAP	0.93698	0.552
43DAP/42DAP	0.93689	0.558
47DAP/43DAP	1.12899	0.713
52DAP/47DAP	0.7413	0.202
57DAP/52DAP	0.98601	0.798
57DAP/7DAP	1.14209	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95391	0.203
17DAP/reference	0.78935	0.039
27DAP/reference	1.0235	0.8
39DAP/reference	0.78079	0.039
41DAP/reference	0.94099	0.431
42DAP/reference	0.66796	0.014
43DAP/reference	0.90552	0.23
47DAP/reference	1.54453	0.21
52DAP/reference	0.79227	0.061
57DAP/reference	0.91074	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64027	0.022
17DAP/reference	0.62149	0.015
27DAP/reference	0.99372	0.554
39DAP/reference	1.05742	1
41DAP/reference	1.64693	0.011
42DAP/reference	1.61165	0.089
43DAP/reference	0.61711	0.077
47DAP/reference	1.61443	0.008
52DAP/reference	0.91981	0.131
57DAP/reference	0.93505	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86571	0.23
17DAP/reference	0.77546	0.172
27DAP/reference	1.07774	0.408
39DAP/reference	1.01891	0.962
41DAP/reference	1.02223	1
42DAP/reference	0.84258	0.134
43DAP/reference	1.01001	0.796
47DAP/reference	1.22201	0.388
52DAP/reference	1.16948	0.335
57DAP/reference	4.01184	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07685	0.966
26DAP/20DAP	2.3078	0.342
34DAP/26DAP	0.98174	0.991
51DAP/34DAP	1.71572	0.044
52DAP/51DAP	0.86514	1
53DAP/52DAP	1.47136	0.166
55DAP/53DAP	0.86506	0.303
57DAP/55DAP	1.00589	0.658
62DAP/57DAP	1.1206	1
68DAP/62DAP	8.81893	0.018
68DAP/14DAP	12.9001	0.016

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98814	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86494	0.458
Mature Green Tomato/Ripe Tomato	0.95471	0.611
Immature Eggplant/Mature Eggplant	1.28456	0.181
Ripe Pepper/Ripe Tomato	1.38495	1
Mature Eggplant/Ripe Tomato	1.83712	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.8566
12-2/M82	N/A	N/A
12-4/M82	0.8054	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.63586
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.82164
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.78409	0.698
4-3/M82	0.91596
5-3/M82	0.99141
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.78998	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.58403	0.277
IL2-6/WTpooled	1.07249	1
IL7-5/WTpooled	1.13342	1
IL7-3/WTpooled	1.0977	1
IL12-4/WTpooled	1.17354	0.532
IL1-4/WTpooled	1.01271	1
WT/WTpooled	1.00367	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	0.9229	0.975

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	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A
Exp 36h	0.93209	0.879
Exp 60h	1.11224	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03017	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.37726	0.58
Var 12h NI row2-row1	1.58677	0.649
Var 36h I row2-row1	1.33178	0.339
Var 36h NI row2-row1	0.88566	0.706
Var 60h I row2-row1	0.67144	0.439
Var 60h NI row2-row1	1.03202	1
Time course 0hI-0hNI	1.16741	0.603
Time course 12hI-12hNI	0.95914	0.761
Time course 36hI-36hNI	0.91827	0.265
Time course 60hI-60hNI	2.01865	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)	1.03132	0.863
transgenic ySAMdc/azygous control (breaker)	0.91939	0.173
transgenic ySAMdc/azygous control (red)	0.86889	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01768	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67403	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85894	0.172
Manapal/WT (break)	1.15701	1
Manapal/WT (red)	0.94108	0.728