Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87511	0.405
27DAP/17DAP	1.19607	0.872
39DAP/27DAP	1.03658	0.84
41DAP/39DAP	0.82143	0.403
42DAP/41DAP	1.0749	0.958
43DAP/42DAP	0.97957	0.887
47DAP/43DAP	0.77526	0.286
52DAP/47DAP	1.03514	0.982
57DAP/52DAP	1.02451	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02322	1
17DAP/reference	1.13953	0.066
27DAP/reference	1.02989	0.894
39DAP/reference	1.02948	0.816
41DAP/reference	1.10093	0.365
42DAP/reference	0.81011	0.005
43DAP/reference	0.94028	0.346
47DAP/reference	0.91204	0.077
52DAP/reference	0.88535	0.202
57DAP/reference	0.85587	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99554	0.847
27DAP/17DAP	0.92397	0.821
39DAP/27DAP	0.88767	0.482
41DAP/39DAP	1.0373	0.921
42DAP/41DAP	0.89531	0.687
43DAP/42DAP	0.91333	0.447
47DAP/43DAP	2.00455	0.485
52DAP/47DAP	1.29126	0.439
57DAP/52DAP	1.04014	1
57DAP/7DAP	1.04551	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15569	0.163
17DAP/reference	1.24868	0.199
27DAP/reference	1.11658	0.197
39DAP/reference	1.12793	0.391
41DAP/reference	1.48132	0.153
42DAP/reference	1.03439	1
43DAP/reference	1.35914	0.023
47DAP/reference	1.08906	0.915
52DAP/reference	1.15975	0.171
57DAP/reference	1.23059	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00785	0.926
17DAP/reference	0.9058	0.208
27DAP/reference	0.8065	0.071
39DAP/reference	0.91251	0.168
41DAP/reference	0.88116	0.087
42DAP/reference	0.85535	0.016
43DAP/reference	0.94683	0.404
47DAP/reference	0.88961	0.061
52DAP/reference	0.99973	0.761
57DAP/reference	0.98915	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12187	0.616
17DAP/reference	1.17331	0.443
27DAP/reference	1.914	0.035
39DAP/reference	1.47593	0.067
41DAP/reference	1.24563	0.129
42DAP/reference	1.19873	0.566
43DAP/reference	1.21838	0.28
47DAP/reference	0.99736	0.667
52DAP/reference	1.22205	0.186
57DAP/reference	0.91995	0.321

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11209	0.966
26DAP/20DAP	0.72176	0.317
34DAP/26DAP	1.4973	0.154
51DAP/34DAP	1.51208	0.056
52DAP/51DAP	0.80691
53DAP/52DAP	1.51371	0.221
55DAP/53DAP	0.93202	0.735
57DAP/55DAP	0.70401	0.219
62DAP/57DAP	0.92391
68DAP/62DAP	1.05817	0.939
68DAP/14DAP	0.82261	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.67329	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.07582
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.39626

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	1.08463
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	1.97291
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	0.52583
IL2-6/WTpooled	0.84733	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.79532	0.418
IL12-4/WTpooled	0.79539	0.554
IL1-4/WTpooled	1.08362
WT/WTpooled	1.0754	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	0.91054	0.216

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	3.75738
DC3000/delta hrp 6h	1.50973
DC3000/delta hrp 12h	1.83698	1
DC3000/delta hrp 24h	0.49036	0.143

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	N/A	N/A
Exp 36h	0.88741	0.749
Exp 60h	0.55579	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96649	1
Var 0h	1.26283	0.259
Var 12h I row2-row1	0.94544
Var 12h NI row2-row1	0.79671	0.494
Var 36h I row2-row1	0.97969	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.85058
Var 60h NI row2-row1	1.13247	0.904
Time course 0hI-0hNI	0.92306	0.582
Time course 12hI-12hNI	0.94072	0.526
Time course 36hI-36hNI	0.87975	0.095
Time course 60hI-60hNI	0.49986	0.005

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)	1.37251	0.921
transgenic ySAMdc/azygous control (breaker)	1.61342	0.248
transgenic ySAMdc/azygous control (red)	1.081	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98473	0.371

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.38405	0.239

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)	0.73178	1
Manapal/WT (red)	1.53731	0.222