Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.10.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85029	0.357
27DAP/17DAP	0.86931	0.644
39DAP/27DAP	1.23552	0.489
41DAP/39DAP	0.97692	0.876
42DAP/41DAP	1.40314	0.493
43DAP/42DAP	1.02819	1
47DAP/43DAP	1.30787	0.576
52DAP/47DAP	0.83268	0.595
57DAP/52DAP	1.00396	0.978

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0847	0.334
17DAP/reference	0.93183	0.342
27DAP/reference	0.98019	0.654
39DAP/reference	0.98135	0.75
41DAP/reference	0.79921	0.014
42DAP/reference	0.97089	0.305
43DAP/reference	1.11535	0.233
47DAP/reference	0.95019	0.279
52DAP/reference	0.81823	0.093
57DAP/reference	1.15681	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94979	0.629
27DAP/17DAP	0.7496	0.179
39DAP/27DAP	1.00807	0.984
41DAP/39DAP	0.80605	0.384
42DAP/41DAP	1.32328	0.038
43DAP/42DAP	1.41049	0.014
47DAP/43DAP	0.9436	0.722
52DAP/47DAP	0.93313	0.71
57DAP/52DAP	0.99799	0.838
57DAP/7DAP	0.75799	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12885	0.189
17DAP/reference	0.89237	0.082
27DAP/reference	1.04243	0.974
39DAP/reference	0.93591	0.307
41DAP/reference	0.87985	0.146
42DAP/reference	0.80187	0.038
43DAP/reference	0.97289	0.421
47DAP/reference	0.87792	0.168
52DAP/reference	0.87846	0.083
57DAP/reference	0.97795	0.443

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1335	0.261
17DAP/reference	1.09402	0.773
27DAP/reference	1.05706	1
39DAP/reference	0.91703	0.102
41DAP/reference	0.79971	0.027
42DAP/reference	0.94298	0.392
43DAP/reference	1.02671	0.787
47DAP/reference	0.92681	0.232
52DAP/reference	0.73836	0.009
57DAP/reference	0.81299	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26273	0.039
17DAP/reference	1.18543	0.15
27DAP/reference	1.01151	0.883
39DAP/reference	0.98658	0.643
41DAP/reference	0.99301	0.682
42DAP/reference	1.20297	0.382
43DAP/reference	1.39236	0.011
47DAP/reference	0.95909	0.409
52DAP/reference	0.97259	0.69
57DAP/reference	1.1256	0.428

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89658	1
26DAP/20DAP	1.0232	1
34DAP/26DAP	0.97602	0.961
51DAP/34DAP	1.53826	0.192
52DAP/51DAP	0.80816	0.151
53DAP/52DAP	1.13109	0.343
55DAP/53DAP	0.83061	0.376
57DAP/55DAP	1.41641	0.222
62DAP/57DAP	0.94926	0.871
68DAP/62DAP	0.7206	0.579
68DAP/14DAP	0.95011	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75108	0.054

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89899	0.436
Mature Green Tomato/Ripe Tomato	0.66784	0.026
Immature Eggplant/Mature Eggplant	0.39394	0.063
Ripe Pepper/Ripe Tomato	2.38461	0.236
Mature Eggplant/Ripe Tomato	0.9087	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.47458	0.591
1-1-2/M82	1.13672	1
12-2/M82	0.86098	0.955
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.80969
2-1/M82	0.83135
2-6/M82	1.79757	0.405
3-2/M82	1.29609	0.463
4-1-1/M82	N/A	N/A
4-1/M82	2.50674
4-3-2/M82	2.25432
4-3/M82	1.71039	0.268
5-3/M82	0.77655	0.364
6-2/M82	2.17172
6-3/M82	N/A	N/A
7-1/M82	0.94437	1
7-2/M82	1.30223	0.29
9-3-2/M82	1.4013

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06303	1
IL2-6/WTpooled	1.18199	0.441
IL7-5/WTpooled	0.81373	1
IL7-3/WTpooled	1.14167	0.362
IL12-4/WTpooled	0.81697	0.71
IL1-4/WTpooled	1.09678	1
WT/WTpooled	1.02467	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	1.0573	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9851	1
DC3000/delta hrp 6h	1.18942	0.562
DC3000/delta hrp 12h	1.13341	1
DC3000/delta hrp 24h	0.65635	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.83265	0.841
DC3000 delta B/DC3000 delta AB	0.56427	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9124	1
Exp 36h	0.56866	0.426
Exp 60h	0.68045	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98845	1
Var 0h	0.97711	1
Var 12h I row2-row1	0.85717	0.338
Var 12h NI row2-row1	1.06625	1
Var 36h I row2-row1	0.8975	0.575
Var 36h NI row2-row1	1.05682	1
Var 60h I row2-row1	1.02582	1
Var 60h NI row2-row1	1.01878	1
Time course 0hI-0hNI	0.92271	0.379
Time course 12hI-12hNI	1.01009	0.854
Time course 36hI-36hNI	0.82188	0.086
Time course 60hI-60hNI	0.24766	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)	0.98792	0.862
transgenic ySAMdc/azygous control (breaker)	1.61005	0.165
transgenic ySAMdc/azygous control (red)	1.23062	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90312	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.86608	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.82193	0.09
Manapal/WT (break)	2.30838	0.381
Manapal/WT (red)	1.5487	0.164