Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72541	0.071
27DAP/17DAP	0.83685	0.611
39DAP/27DAP	1.21574	0.888
41DAP/39DAP	1.00937	0.922
42DAP/41DAP	0.86248	1
43DAP/42DAP	0.75966	0.554
47DAP/43DAP	1.20875	0.668
52DAP/47DAP	1.64095	0.493
57DAP/52DAP	1.10984	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86088	0.06
17DAP/reference	0.79202	0.011
27DAP/reference	0.78094	0.022
39DAP/reference	0.92698	0.381
41DAP/reference	0.74503	0.014
42DAP/reference	0.81937	0.004
43DAP/reference	0.84961	0.04
47DAP/reference	0.98862	0.535
52DAP/reference	1.25596	0.009
57DAP/reference	1.35304	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78436	0.085
27DAP/17DAP	1.09684	0.811
39DAP/27DAP	0.74728	0.102
41DAP/39DAP	0.90616	0.617
42DAP/41DAP	0.98759	0.801
43DAP/42DAP	0.92107	0.293
47DAP/43DAP	1.03761	0.914
52DAP/47DAP	0.87577	0.321
57DAP/52DAP	0.95337	0.68
57DAP/7DAP	0.78488

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31867	0.037
17DAP/reference	1.35756	0.045
27DAP/reference	1.031	0.301
39DAP/reference	0.99118	0.64
41DAP/reference	0.99658	0.709
42DAP/reference	1.17048	0.076
43DAP/reference	0.89747	0.126
47DAP/reference	0.95715	0.504
52DAP/reference	1.01829	1
57DAP/reference	0.91448	0.123

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83593	0.182
17DAP/reference	0.76563	0.01
27DAP/reference	0.91974	0.269
39DAP/reference	1.13611	0.255
41DAP/reference	0.92496	0.268
42DAP/reference	0.99665	0.655
43DAP/reference	0.99649	0.62
47DAP/reference	0.95586	0.277
52DAP/reference	0.96208	0.187
57DAP/reference	0.74966	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08237	0.518
17DAP/reference	1.01573	0.977
27DAP/reference	1.98133	0.237
39DAP/reference	1.05242	0.613
41DAP/reference	1.00244	1
42DAP/reference	0.97397	0.552
43DAP/reference	1.03933	0.779
47DAP/reference	0.85974	0.076
52DAP/reference	0.90748	0.216
57DAP/reference	1.27662	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.34227	0.85
26DAP/20DAP	1.01723	1
34DAP/26DAP	0.95116	0.917
51DAP/34DAP	1.04853	0.706
52DAP/51DAP	0.79951	0.151
53DAP/52DAP	0.76331	0.066
55DAP/53DAP	0.53541	0.038
57DAP/55DAP	0.91274	0.698
62DAP/57DAP	0.90606	0.681
68DAP/62DAP	1.5689	0.198
68DAP/14DAP	1.42107	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.47978	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.37484	0.058
Mature Green Tomato/Ripe Tomato	1.63459	0.095
Immature Eggplant/Mature Eggplant	0.72101	0.071
Ripe Pepper/Ripe Tomato	0.76524	0.293
Mature Eggplant/Ripe Tomato	1.99916	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.26738	0.526
1-1-2/M82	0.79	1
12-2/M82	1.54065
12-4/M82	0.93078	1
1-3/M82	0.79119	0.441
2-1-1/M82	0.83322
2-1/M82	1.40451	0.271
2-6/M82	0.97867	1
3-2/M82	1.14741
4-1-1/M82	0.65226	0.985
4-1/M82	1.35137	0.295
4-3-2/M82	0.69052
4-3/M82	0.67539	0.551
5-3/M82	0.91819	1
6-2/M82	N/A	N/A
6-3/M82	1.10476	1
7-1/M82	0.79207
7-2/M82	0.74639	0.394
9-3-2/M82	1.01763

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31014	0.277
IL2-6/WTpooled	0.68235	0.383
IL7-5/WTpooled	1.19774	0.75
IL7-3/WTpooled	1.28437	0.362
IL12-4/WTpooled	1.19789	0.695
IL1-4/WTpooled	0.87732	0.699
WT/WTpooled	1.03519	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	1.07394	0.177

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10605	0.692
DC3000/delta hrp 6h	1.0063	0.95
DC3000/delta hrp 12h	0.88288	1
DC3000/delta hrp 24h	0.97368	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03558	0.598
DC3000 delta B/DC3000 delta AB	0.93273	0.575

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82756	0.328
Exp 36h	1.00108	1
Exp 60h	0.91235	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00992	1
Var 0h	0.65264	1
Var 12h I row2-row1	1.19797	0.544
Var 12h NI row2-row1	1.18292	0.34
Var 36h I row2-row1	0.91204	0.805
Var 36h NI row2-row1	1.08651	1
Var 60h I row2-row1	0.80424	0.285
Var 60h NI row2-row1	1.1596	0.904
Time course 0hI-0hNI	1.03446	0.852
Time course 12hI-12hNI	0.94175	0.519
Time course 36hI-36hNI	0.80331	0.096
Time course 60hI-60hNI	1.04541	0.673

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)	0.95852	0.454
transgenic ySAMdc/azygous control (breaker)	0.78958	0.142
transgenic ySAMdc/azygous control (red)	1.31257	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92645	0.099

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.46812	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03211	1
Manapal/WT (break)	1.9421	0.14
Manapal/WT (red)	1.34613	0.164