Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.19.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35969	0.076
27DAP/17DAP	0.93488	0.902
39DAP/27DAP	1.46357	0.223
41DAP/39DAP	0.79367	0.303
42DAP/41DAP	0.89565	1
43DAP/42DAP	1.41077	0.728
47DAP/43DAP	1.10473	0.769
52DAP/47DAP	1.06885	0.943
57DAP/52DAP	0.98263	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29465	0.008
17DAP/reference	1.12492	0.161
27DAP/reference	1.08231	0.612
39DAP/reference	1.17178	0.747
41DAP/reference	1.43529	0.054
42DAP/reference	2.13473	0.001
43DAP/reference	1.41829	0.866
47DAP/reference	2.0923	0.215
52DAP/reference	2.31512	0.008
57DAP/reference	2.02613

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.38862	0.051
27DAP/17DAP	0.91926	0.508
39DAP/27DAP	1.35066	0.054
41DAP/39DAP	1.09797	0.973
42DAP/41DAP	1.16771	0.257
43DAP/42DAP	1.64577	0.016
47DAP/43DAP	1.0417	0.906
52DAP/47DAP	1.11786	0.669
57DAP/52DAP	0.8748	0.395
57DAP/7DAP	1.92625	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.6725	0.077
17DAP/reference	0.77678	0.064
27DAP/reference	0.75515	0.011
39DAP/reference	1.04322	1
41DAP/reference	0.91389	0.259
42DAP/reference	1.06903	0.686
43DAP/reference	1.13749	0.537
47DAP/reference	1.69137	0.021
52DAP/reference	0.8861	0.179
57DAP/reference	0.67276	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07201	0.612
17DAP/reference	1.67782	0.015
27DAP/reference	1.96034	0.012
39DAP/reference	2.03297	0.011
41DAP/reference	1.68853	0.009
42DAP/reference	1.89099	0.008
43DAP/reference	1.73712	0.09
47DAP/reference	2.02726	0.008
52DAP/reference	1.67441	0.006
57DAP/reference	1.47174	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59707	0.048
17DAP/reference	0.87386	0.348
27DAP/reference	0.78164	0.055
39DAP/reference	1.05823	0.858
41DAP/reference	0.90801	0.293
42DAP/reference	1.87725	0.013
43DAP/reference	2.36267	0.016
47DAP/reference	2.01502	0.006
52DAP/reference	1.73807	0.04
57DAP/reference	1.93843	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32467	0.966
26DAP/20DAP	0.84695	0.512
34DAP/26DAP	0.92152	0.803
51DAP/34DAP	1.56459	0.044
52DAP/51DAP	0.769	0.151
53DAP/52DAP	2.66207	0.02
55DAP/53DAP	1.06038	0.876
57DAP/55DAP	0.77633	0.256
62DAP/57DAP	0.30345	0.003
68DAP/62DAP	1.32956	0.455
68DAP/14DAP	1.79976	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.72523	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.14337	0.113
Mature Green Tomato/Ripe Tomato	0.6075	0.051
Immature Eggplant/Mature Eggplant	1.45074	0.05
Ripe Pepper/Ripe Tomato	0.50061	0.293
Mature Eggplant/Ripe Tomato	0.30712	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91383	0.907
1-1-2/M82	1.72635	1
12-2/M82	1.58263	1
12-4/M82	0.98656	1
1-3/M82	0.92967	0.378
2-1-1/M82	1.0479	0.764
2-1/M82	0.80122	0.519
2-6/M82	1.21089	0.329
3-2/M82	0.29902	0.752
4-1-1/M82	0.99763	1
4-1/M82	1.80587	0.444
4-3-2/M82	1.08861	1
4-3/M82	1.56325	1
5-3/M82	0.69203	0.642
6-2/M82	1.10669	1
6-3/M82	1.021	1
7-1/M82	0.80795	0.443
7-2/M82	1.0652	1
9-3-2/M82	1.61125

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91122	1
IL2-6/WTpooled	1.48973
IL7-5/WTpooled	1.11996	1
IL7-3/WTpooled	1.13368
IL12-4/WTpooled	1.14828	0.553
IL1-4/WTpooled	0.97609	0.699
WT/WTpooled	1.03234	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	1.13267	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93598	1
DC3000/delta hrp 6h	1.09886	1
DC3000/delta hrp 12h	1.15768	1
DC3000/delta hrp 24h	0.7875	0.124

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00681	1
DC3000 delta B/DC3000 delta AB	1.16647	0.237

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98968	1
Exp 36h	1.1791	1
Exp 60h	1.3832	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99945	1
Var 0h	1.42558	1
Var 12h I row2-row1	1.33608	0.443
Var 12h NI row2-row1	0.8431	0.427
Var 36h I row2-row1	1.02986	1
Var 36h NI row2-row1	1.203	0.482
Var 60h I row2-row1	0.83892	0.439
Var 60h NI row2-row1	1.04751	0.904
Time course 0hI-0hNI	1.08111	0.799
Time course 12hI-12hNI	1.03962	0.747
Time course 36hI-36hNI	0.96947	0.54
Time course 60hI-60hNI	0.87893	0.319

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)	1.02365	0.256
transgenic ySAMdc/azygous control (breaker)	0.6796	0.173
transgenic ySAMdc/azygous control (red)	0.84492	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90127	0.237

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85386	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.57752	0.172
Manapal/WT (break)	0.9821	1
Manapal/WT (red)	0.90035	0.181