Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16729	0.912
27DAP/17DAP	1.12531	0.881
39DAP/27DAP	1.22624	0.504
41DAP/39DAP	0.91058	0.619
42DAP/41DAP	1.28099	0.745
43DAP/42DAP	1.2031	1
47DAP/43DAP	1.01888	0.979
52DAP/47DAP	1.02453	0.963
57DAP/52DAP	1.14165	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11149	0.735
17DAP/reference	1.2841	0.064
27DAP/reference	1.81167	0.008
39DAP/reference	1.27732	0.256
41DAP/reference	1.2914	0.014
42DAP/reference	0.96623	0.425
43DAP/reference	0.85229	0.611
47DAP/reference	0.8614	0.137
52DAP/reference	0.79161	0.082
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90051	0.428
27DAP/17DAP	1.26295	0.15
39DAP/27DAP	0.98453	0.919
41DAP/39DAP	0.98413	0.997
42DAP/41DAP	1.01973	1
43DAP/42DAP	0.92188	0.101
47DAP/43DAP	1.09286	0.552
52DAP/47DAP	1.00382	0.982
57DAP/52DAP	0.81614	0.239
57DAP/7DAP	1.11703	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09429	0.377
17DAP/reference	0.99453	0.599
27DAP/reference	1.18352	0.073
39DAP/reference	0.81807	0.056
41DAP/reference	1.01266	0.741
42DAP/reference	0.92195	0.248
43DAP/reference	0.80845	0.064
47DAP/reference	0.85726	0.066
52DAP/reference	0.72619	0.035
57DAP/reference	0.59327	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33145	0.198
17DAP/reference	1.44093	0.043
27DAP/reference	1.70184	0.017
39DAP/reference	1.4355	0.04
41DAP/reference	1.36871	0.018
42DAP/reference	1.18107	0.259
43DAP/reference	1.07767	0.91
47DAP/reference	1.06375	0.441
52DAP/reference	1.19119	0.069
57DAP/reference	1.16055	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00984	0.984
17DAP/reference	0.99644	0.751
27DAP/reference	0.93575	0.119
39DAP/reference	1.08961	0.792
41DAP/reference	0.83134	0.05
42DAP/reference	0.83843	0.108
43DAP/reference	0.88365	0.188
47DAP/reference	0.83816	0.045
52DAP/reference	0.76453	0.086
57DAP/reference	1.14273	0.511

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	0.79283	0.244
34DAP/26DAP	1.02012	1
51DAP/34DAP	1.03673	0.936
52DAP/51DAP	1.043	0.758
53DAP/52DAP	1.07659	0.296
55DAP/53DAP	1.08576	0.444
57DAP/55DAP	0.96878	0.855
62DAP/57DAP	0.974	0.994
68DAP/62DAP	1.23257	0.707
68DAP/14DAP	0.79116	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00526	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.5799	0.058
Mature Green Tomato/Ripe Tomato	0.54503	0.051
Immature Eggplant/Mature Eggplant	2.66748	0.05
Ripe Pepper/Ripe Tomato	0.98476	1
Mature Eggplant/Ripe Tomato	4.18488	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00122	1
1-1-2/M82	1.13702
12-2/M82	N/A	N/A
12-4/M82	1.0461	1
1-3/M82	N/A	N/A
2-1-1/M82	0.66953	0.465
2-1/M82	N/A	N/A
2-6/M82	0.90086	1
3-2/M82	1.05019
4-1-1/M82	0.63613	0.959
4-1/M82	1.15339	1
4-3-2/M82	1.37739	1
4-3/M82	0.72699	0.509
5-3/M82	1.06606	0.572
6-2/M82	0.7684
6-3/M82	0.91141
7-1/M82	0.84589	0.443
7-2/M82	0.94972	0.881
9-3-2/M82	1.44601	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09004
IL2-6/WTpooled	0.96657	0.473
IL7-5/WTpooled	1.14617	0.75
IL7-3/WTpooled	1.43785	0.362
IL12-4/WTpooled	1.11906	0.737
IL1-4/WTpooled	1.1769	1
WT/WTpooled	0.97078	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	1.06707	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01353	1
DC3000/delta hrp 6h	0.90876	0.95
DC3000/delta hrp 12h	1.13316	1
DC3000/delta hrp 24h	0.95386	0.67

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72994	0.023
DC3000 delta B/DC3000 delta AB	0.84537	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.83028	0.434
Exp 60h	1.00369	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9919	1
Var 0h	1.10736	0.936
Var 12h I row2-row1	0.87387	0.39
Var 12h NI row2-row1	0.956	0.82
Var 36h I row2-row1	0.9119	1
Var 36h NI row2-row1	1.50515	1
Var 60h I row2-row1	0.9011	0.952
Var 60h NI row2-row1	1.02448	1
Time course 0hI-0hNI	1.02377	0.852
Time course 12hI-12hNI	1.03478	0.762
Time course 36hI-36hNI	1.10705	0.101
Time course 60hI-60hNI	1.13491	0.426

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)	0.76902	0.33
transgenic ySAMdc/azygous control (breaker)	5.51474	0.161
transgenic ySAMdc/azygous control (red)	1.70237	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96944	0.153

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85839	0.238

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)	N/A	N/A
Manapal/WT (red)	0.45544	0.181