Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17325	0.975
27DAP/17DAP	0.73686	0.473
39DAP/27DAP	1.2896	1
41DAP/39DAP	0.89406	0.582
42DAP/41DAP	1.14179	0.949
43DAP/42DAP	1.34155	0.595
47DAP/43DAP	0.91823	0.68
52DAP/47DAP	0.94357	0.702
57DAP/52DAP	1.26414	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83103	0.035
17DAP/reference	0.73993	0.012
27DAP/reference	0.87254	0.208
39DAP/reference	0.90459	0.141
41DAP/reference	0.71143	0.008
42DAP/reference	0.91263	0.091
43DAP/reference	0.85447	0.024
47DAP/reference	1.02641	1
52DAP/reference	1.29652	0.031
57DAP/reference	1.1101	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06355	1
27DAP/17DAP	0.84421	0.821
39DAP/27DAP	0.627	0.269
41DAP/39DAP	1.98787	0.336
42DAP/41DAP	1.20649	0.717
43DAP/42DAP	0.85567	0.482
47DAP/43DAP	1.55024	0.674
52DAP/47DAP	1.19185	0.962
57DAP/52DAP	1.49717	0.385
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0388	0.894
17DAP/reference	1.06944	0.822
27DAP/reference	0.99882	0.656
39DAP/reference	0.82452	0.095
41DAP/reference	0.98918	0.619
42DAP/reference	0.84803	0.144
43DAP/reference	0.84178	0.086
47DAP/reference	0.95978	0.504
52DAP/reference	0.81397	0.083
57DAP/reference	0.64521	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87831	0.306
17DAP/reference	0.71867	0.005
27DAP/reference	1.07578	0.463
39DAP/reference	1.06696	1
41DAP/reference	0.9874	0.531
42DAP/reference	0.95486	0.355
43DAP/reference	0.78453	0.039
47DAP/reference	0.82297	0.022
52DAP/reference	0.92367	0.259
57DAP/reference	0.79743	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9545	0.422
17DAP/reference	0.802	0.124
27DAP/reference	0.98156	0.539
39DAP/reference	1.0171	0.836
41DAP/reference	1.01607	1
42DAP/reference	1.09964	0.529
43DAP/reference	1.07809	0.459
47DAP/reference	0.85765	0.191
52DAP/reference	0.88619	0.395
57DAP/reference	1.2929	0.298

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.47044	0.966
26DAP/20DAP	0.79999	1
34DAP/26DAP	1.03299
51DAP/34DAP	1.56074	0.036
52DAP/51DAP	0.97349	1
53DAP/52DAP	1.82281	0.47
55DAP/53DAP	1.43888	0.982
57DAP/55DAP	1.04661
62DAP/57DAP	0.92508	0.871
68DAP/62DAP	1.22262	0.831
68DAP/14DAP	1.9612	0.034

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.21825	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.79789	0.356
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.3091
Ripe Pepper/Ripe Tomato	1.35586
Mature Eggplant/Ripe Tomato	0.29741

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.829	0.321
IL2-6/WTpooled	1.15388	0.419
IL7-5/WTpooled	1.2462	0.792
IL7-3/WTpooled	0.67351	0.31
IL12-4/WTpooled	0.91587	0.71
IL1-4/WTpooled	0.98771	1
WT/WTpooled	0.92158	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	N/A	N/A

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	0.85579
DC3000/delta hrp 12h	0.77683	1
DC3000/delta hrp 24h	0.76201

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	14.8352
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	1.1431	1
Exp 36h	0.97344	0.943
Exp 60h	1.072	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03759	1
Var 0h	1.31517	0.936
Var 12h I row2-row1	8.02487	0.692
Var 12h NI row2-row1	0.35086	1
Var 36h I row2-row1	1.61295	0.309
Var 36h NI row2-row1	1.98301	1
Var 60h I row2-row1	1.01205	0.562
Var 60h NI row2-row1	1.29163	0.904
Time course 0hI-0hNI	0.87786	0.411
Time course 12hI-12hNI	1.47323	0.63
Time course 36hI-36hNI	1.44973	0.147
Time course 60hI-60hNI	0.73579	0.026

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)	0.81402	0.309
transgenic ySAMdc/azygous control (breaker)	0.69522	0.173
transgenic ySAMdc/azygous control (red)	0.95174	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.37574	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92133	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88221	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.00464	1