Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.12.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31243	0.709
27DAP/17DAP	0.98863	0.957
39DAP/27DAP	0.98187	0.782
41DAP/39DAP	1.05562	0.962
42DAP/41DAP	1.0046	1
43DAP/42DAP	1.15916	0.861
47DAP/43DAP	1.02004	0.943
52DAP/47DAP	0.86238	0.619
57DAP/52DAP	1.18493	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23661	0.814
17DAP/reference	1.26273	0.185
27DAP/reference	1.12516	0.285
39DAP/reference	1.11486	0.214
41DAP/reference	1.1129	0.667
42DAP/reference	1.21344	0.021
43DAP/reference	1.1298	0.382
47DAP/reference	0.92652	0.148
52DAP/reference	1.13636	0.242
57DAP/reference	0.9947	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.33355
27DAP/17DAP	1.02069	0.957
39DAP/27DAP	2.3055
41DAP/39DAP	1.52377
42DAP/41DAP	1.0555	0.991
43DAP/42DAP	N/A	N/A
47DAP/43DAP	2.06321
52DAP/47DAP	0.89388	0.739
57DAP/52DAP	0.71631	0.484
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33439	0.115
17DAP/reference	1.3518	0.018
27DAP/reference	1.04372	0.974
39DAP/reference	0.80543	0.013
41DAP/reference	0.86435	0.039
42DAP/reference	0.86452	0.028
43DAP/reference	0.83878	0.076
47DAP/reference	0.86797	0.383
52DAP/reference	0.86435	0.097
57DAP/reference	0.88414	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33455	0.597
17DAP/reference	1.14303
27DAP/reference	1.02896	0.663
39DAP/reference	1.17954	0.571
41DAP/reference	1.22933	0.382
42DAP/reference	0.94581	0.433
43DAP/reference	1.05638	1
47DAP/reference	1.12469	0.89
52DAP/reference	0.78019	0.086
57DAP/reference	1.19168	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.87544	0.015
17DAP/reference	1.32618	0.166
27DAP/reference	1.15462	0.171
39DAP/reference	1.06552	0.437
41DAP/reference	1.13456	0.265
42DAP/reference	1.01022	1
43DAP/reference	1.40586	0.073
47DAP/reference	1.16398	0.228
52DAP/reference	1.11954	0.341
57DAP/reference	1.27456	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22124	0.966
26DAP/20DAP	1.70684
34DAP/26DAP	0.95048	0.998
51DAP/34DAP	0.98084
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.76288	0.723
55DAP/53DAP	1.19584	0.982
57DAP/55DAP	N/A	N/A
62DAP/57DAP	1.28849	0.018
68DAP/62DAP	1.10563	0.89
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.4536	0.119
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.65448
Mature Eggplant/Ripe Tomato	0.26351	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.26952	1
12-2/M82	N/A	N/A
12-4/M82	1.06925	1
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	1.22733
4-3-2/M82	1.17059	0.508
4-3/M82	1.67707
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	1.08434

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	2.01998	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.53496	0.294
IL12-4/WTpooled	0.95118	1
IL1-4/WTpooled	1.13399	1
WT/WTpooled	1.03919	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	1.40129	0.921
DC3000/delta hrp 6h	1.36377	1
DC3000/delta hrp 12h	1.1914	1
DC3000/delta hrp 24h	0.62401	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	1.11337	1
Exp 36h	0.35174	0.374
Exp 60h	0.64435	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.0448	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.13429	0.397
transgenic ySAMdc/azygous control (breaker)	1.29505	0.248
transgenic ySAMdc/azygous control (red)	1.98637	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07104	0.1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.4393	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.20078	0.096
Manapal/WT (break)	4.89691	0.13
Manapal/WT (red)	1.7917	0.413