Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03616	0.912
27DAP/17DAP	1.03934	1
39DAP/27DAP	0.95766	0.663
41DAP/39DAP	1.16657	0.929
42DAP/41DAP	1.01097	1
43DAP/42DAP	0.86296	0.671
47DAP/43DAP	1.45973	0.215
52DAP/47DAP	1.14172	0.847
57DAP/52DAP	0.82716	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33575	0.007
17DAP/reference	0.8516	0.298
27DAP/reference	0.92494	0.417
39DAP/reference	1.18062	0.149
41DAP/reference	1.47941	0.241
42DAP/reference	1.53445	0.398
43DAP/reference	1.85619
47DAP/reference	1.58547	0.055
52DAP/reference	0.76947	0.034
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92266	0.185
27DAP/17DAP	1.01324	0.973
39DAP/27DAP	1.09348	0.453
41DAP/39DAP	1.08153	0.849
42DAP/41DAP	1.01062	0.924
43DAP/42DAP	1.02558	0.627
47DAP/43DAP	1.00365	1
52DAP/47DAP	1.01282	0.965
57DAP/52DAP	0.96771	0.608
57DAP/7DAP	1.08258	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09986	0.961
17DAP/reference	1.02438	1
27DAP/reference	0.91629	0.231
39DAP/reference	0.84969	0.023
41DAP/reference	1.10216	0.791
42DAP/reference	1.12164	0.308
43DAP/reference	0.89573	0.11
47DAP/reference	1.21827	0.142
52DAP/reference	0.97154	0.523
57DAP/reference	0.95945	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96159	0.607
17DAP/reference	1.81829	0.023
27DAP/reference	1.21013	0.1
39DAP/reference	1.11796	0.67
41DAP/reference	1.79549	0.005
42DAP/reference	1.01091	0.655
43DAP/reference	1.21705	0.347
47DAP/reference	1.38273	0.008
52DAP/reference	1.18915	0.156
57DAP/reference	1.21321	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91885	0.311
17DAP/reference	1.12276	0.804
27DAP/reference	0.87448	0.155
39DAP/reference	0.97247	0.591
41DAP/reference	0.79789	0.148
42DAP/reference	1.14315	1
43DAP/reference	1.5017	0.148
47DAP/reference	1.71154	0.016
52DAP/reference	1.22472	0.826
57DAP/reference	1.09175	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.39869	0.56
26DAP/20DAP	0.85735	0.317
34DAP/26DAP	0.98372	0.988
51DAP/34DAP	0.95562	0.681
52DAP/51DAP	1.03073	0.836
53DAP/52DAP	0.98777	0.938
55DAP/53DAP	1.0599	0.666
57DAP/55DAP	1.13837	0.643
62DAP/57DAP	1.39242	0.515
68DAP/62DAP	0.96389	0.81
68DAP/14DAP	1.15789	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80909	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.95806	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.09464
Mature Eggplant/Ripe Tomato	0.09629	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92519	0.907
1-1-2/M82	0.94043
12-2/M82	N/A	N/A
12-4/M82	1.08779	1
1-3/M82	1.11454
2-1-1/M82	1.04223
2-1/M82	N/A	N/A
2-6/M82	1.00588	1
3-2/M82	0.93085
4-1-1/M82	0.90403	0.907
4-1/M82	N/A	N/A
4-3-2/M82	1.11681
4-3/M82	0.81079	1
5-3/M82	1.02337	1
6-2/M82	N/A	N/A
6-3/M82	1.02289	1
7-1/M82	1.05002
7-2/M82	N/A	N/A
9-3-2/M82	1.05563	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17872	0.365
IL2-6/WTpooled	1.25303	0.584
IL7-5/WTpooled	0.92673	1
IL7-3/WTpooled	1.13185	1
IL12-4/WTpooled	1.14161	0.557
IL1-4/WTpooled	1.07276	1
WT/WTpooled	1.10612	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	0.90225	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93641	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.18366	0.079

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73121	0.024
DC3000 delta B/DC3000 delta AB	0.71031	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09633	1
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	1.04493	1
Var 0h	1.2262	0.936
Var 12h I row2-row1	0.77265	0.467
Var 12h NI row2-row1	0.95265	0.906
Var 36h I row2-row1	0.99925	1
Var 36h NI row2-row1	1.00116	1
Var 60h I row2-row1	1.02106	1
Var 60h NI row2-row1	1.01219	1
Time course 0hI-0hNI	1.0817	0.603
Time course 12hI-12hNI	0.98649	0.94
Time course 36hI-36hNI	1.02009	1
Time course 60hI-60hNI	0.71655	0.047

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)	0.92122	0.722
transgenic ySAMdc/azygous control (breaker)	0.73173	0.251
transgenic ySAMdc/azygous control (red)	1.19495	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91845	0.286

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.40301	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	2.20872	1
Manapal/WT (red)	0.16779	0.181