Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.7.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31358	0.812
27DAP/17DAP	1.08695	0.88
39DAP/27DAP	1.98042	0.11
41DAP/39DAP	0.48982	0.041
42DAP/41DAP	1.3321	0.912
43DAP/42DAP	1.34198	0.923
47DAP/43DAP	1.2223	0.733
52DAP/47DAP	0.79439	0.513
57DAP/52DAP	0.98206	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01844	0.9
17DAP/reference	1.1094	0.026
27DAP/reference	1.01866	0.894
39DAP/reference	1.03374	0.229
41DAP/reference	0.98226	0.667
42DAP/reference	0.98461	0.398
43DAP/reference	1.00022	0.904
47DAP/reference	0.95056	0.258
52DAP/reference	0.85449	0.046
57DAP/reference	0.94432	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44276	0.036
27DAP/17DAP	0.91173	0.446
39DAP/27DAP	1.32822	0.054
41DAP/39DAP	1.30129	1
42DAP/41DAP	0.92295	0.495
43DAP/42DAP	1.19733	0.034
47DAP/43DAP	1.13059	0.124
52DAP/47DAP	1.09545	0.656
57DAP/52DAP	0.86809	0.331
57DAP/7DAP	1.27761	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87062	0.183
17DAP/reference	0.7374	0.025
27DAP/reference	0.92795	0.171
39DAP/reference	0.67423	0.012
41DAP/reference	0.70478	0.02
42DAP/reference	0.88229	0.111
43DAP/reference	0.73765	0.021
47DAP/reference	1.00038	1
52DAP/reference	0.86529	0.106
57DAP/reference	0.80783	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02213	0.787
17DAP/reference	1.14553	0.081
27DAP/reference	1.04131	0.798
39DAP/reference	1.06039	0.324
41DAP/reference	1.01121	1
42DAP/reference	0.94849	0.212
43DAP/reference	1.28261	0.268
47DAP/reference	1.03615	0.603
52DAP/reference	1.04377	0.368
57DAP/reference	1.15835	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91892	0.249
17DAP/reference	0.973	0.615
27DAP/reference	0.82364	0.065
39DAP/reference	0.90068	0.111
41DAP/reference	0.8403	0.096
42DAP/reference	0.90751	0.108
43DAP/reference	0.865	0.137
47DAP/reference	1.00686	1
52DAP/reference	1.02642	0.952
57DAP/reference	0.95239	0.234

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94944	1
26DAP/20DAP	0.8053	0.512
34DAP/26DAP	0.89634	0.531
51DAP/34DAP	1.45152	0.535
52DAP/51DAP	0.84113	1
53DAP/52DAP	1.17246	0.307
55DAP/53DAP	0.74524	0.03
57DAP/55DAP	0.97093	0.821
62DAP/57DAP	1.11408	0.767
68DAP/62DAP	0.83667	0.505
68DAP/14DAP	1.02206	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.86504	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83496	0.295
Mature Green Tomato/Ripe Tomato	2.08647	0.134
Immature Eggplant/Mature Eggplant	1.08859	0.267
Ripe Pepper/Ripe Tomato	1.62867	1
Mature Eggplant/Ripe Tomato	1.40605	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.12582	0.891
12-2/M82	N/A	N/A
12-4/M82	0.91527	1
1-3/M82	1.07467
2-1-1/M82	1.19593
2-1/M82	N/A	N/A
2-6/M82	1.05112
3-2/M82	1.1225	1
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	1.7413	1
5-3/M82	0.99579	1
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	1.01452
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.78671	1
IL7-3/WTpooled	1.18663
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.0299	1
WT/WTpooled	1.22944	0.999

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	1.05862	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96042
DC3000/delta hrp 6h	1.03145	1
DC3000/delta hrp 12h	0.95302	1
DC3000/delta hrp 24h	0.8599	0.119

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95463	0.841
DC3000 delta B/DC3000 delta AB	1.0909	0.353

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10512	1
Exp 36h	1.05062	1
Exp 60h	0.93713	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99641	1
Var 0h	1.06846	0.274
Var 12h I row2-row1	1.18301	0.443
Var 12h NI row2-row1	0.79484	0.443
Var 36h I row2-row1	0.9375	1
Var 36h NI row2-row1	1.28019	0.482
Var 60h I row2-row1	1.09874	0.543
Var 60h NI row2-row1	1.08463	0.904
Time course 0hI-0hNI	1.07058	0.764
Time course 12hI-12hNI	1.06675	0.572
Time course 36hI-36hNI	1.03625	0.58
Time course 60hI-60hNI	0.53504	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)	0.96059	0.362
transgenic ySAMdc/azygous control (breaker)	1.06768	0.248
transgenic ySAMdc/azygous control (red)	1.09421	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00154	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03315	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8528	1
Manapal/WT (break)	0.98247	1
Manapal/WT (red)	1.06872	1