Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.11.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80136	0.303
27DAP/17DAP	1.85563	0.215
39DAP/27DAP	1.20651	0.956
41DAP/39DAP	0.74743	0.227
42DAP/41DAP	0.97932	1
43DAP/42DAP	0.98313	0.93
47DAP/43DAP	1.03706	0.926
52DAP/47DAP	4.56288	0.032
57DAP/52DAP	0.63365	0.536

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.111	0.32
17DAP/reference	1.00713	1
27DAP/reference	1.00876	0.923
39DAP/reference	0.9917	0.855
41DAP/reference	1.04863	0.48
42DAP/reference	1.16324	0.041
43DAP/reference	0.91358	0.234
47DAP/reference	0.8633	0.012
52DAP/reference	0.82543	0.055
57DAP/reference	0.81575	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37869	0.438
27DAP/17DAP	1.15372	0.573
39DAP/27DAP	0.80385	0.037
41DAP/39DAP	1.21626	0.326
42DAP/41DAP	0.81947	0.156
43DAP/42DAP	1.07298	0.664
47DAP/43DAP	0.97836	0.861
52DAP/47DAP	2.10831	0.048
57DAP/52DAP	3.32178	0.029
57DAP/7DAP	3.69878	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92021	0.183
17DAP/reference	1.20638	0.123
27DAP/reference	1.0462	0.664
39DAP/reference	1.09393	0.511
41DAP/reference	1.16433	0.43
42DAP/reference	0.97328	0.482
43DAP/reference	1.33831	0.007
47DAP/reference	0.87434	0.04
52DAP/reference	0.99603	0.679
57DAP/reference	1.31633	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98765	0.811
17DAP/reference	1.08417	0.415
27DAP/reference	1.0711	0.526
39DAP/reference	0.95468	0.404
41DAP/reference	1.13895	0.118
42DAP/reference	0.85589	0.028
43DAP/reference	1.26908	0.085
47DAP/reference	1.0659	0.454
52DAP/reference	0.9191	0.043
57DAP/reference	1.05631	0.957

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93575	0.391
17DAP/reference	1.0673	0.243
27DAP/reference	1.23956	0.039
39DAP/reference	1.25916	0.029
41DAP/reference	1.11162	0.57
42DAP/reference	0.95584	0.445
43DAP/reference	1.13517	0.541
47DAP/reference	1.06786	0.585
52DAP/reference	1.4578	0.194
57DAP/reference	1.65836	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02686	1
26DAP/20DAP	0.70638	0.512
34DAP/26DAP	1.11206	1
51DAP/34DAP	0.59354
52DAP/51DAP	1.53187	0.232
53DAP/52DAP	0.92813	0.876
55DAP/53DAP	0.79272	0.363
57DAP/55DAP	0.87513	0.596
62DAP/57DAP	0.85713	0.003
68DAP/62DAP	1.07923	1
68DAP/14DAP	0.60572

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.81055	0.077

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.9766	0.063
Mature Green Tomato/Ripe Tomato	0.28564	0.025
Immature Eggplant/Mature Eggplant	0.82324	0.366
Ripe Pepper/Ripe Tomato	0.25875	0.224
Mature Eggplant/Ripe Tomato	0.63264	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93634	0.944
1-1-2/M82	N/A	N/A
12-2/M82	2.45624
12-4/M82	1.11984
1-3/M82	0.84578	0.339
2-1-1/M82	0.63048
2-1/M82	N/A	N/A
2-6/M82	1.14848	1
3-2/M82	N/A	N/A
4-1-1/M82	0.67291
4-1/M82	1.12803
4-3-2/M82	N/A	N/A
4-3/M82	1.17424
5-3/M82	0.64334	0.364
6-2/M82	1.49058	0.235
6-3/M82	1.18804
7-1/M82	N/A	N/A
7-2/M82	1.03556
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.30312	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.59119	0.294
IL12-4/WTpooled	1.03844	1
IL1-4/WTpooled	0.82718	0.562
WT/WTpooled	1.02797	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	1.3598	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00223	1
DC3000/delta hrp 6h	0.83118	0.95
DC3000/delta hrp 12h	1.02026	1
DC3000/delta hrp 24h	1.51746	0.03

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	1.02622	0.694

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00933	1
Exp 36h	0.8244	0.699
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02864	1
Var 0h	0.8754	1
Var 12h I row2-row1	0.99805	1
Var 12h NI row2-row1	0.85456	0.713
Var 36h I row2-row1	1.01126	1
Var 36h NI row2-row1	1.06493	1
Var 60h I row2-row1	1.03838
Var 60h NI row2-row1	1.05685	0.904
Time course 0hI-0hNI	0.98912	1
Time course 12hI-12hNI	0.82354	0.137
Time course 36hI-36hNI	0.78426	0.052
Time course 60hI-60hNI	0.9369	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)	1.90337	0.277
transgenic ySAMdc/azygous control (breaker)	0.61851	0.173
transgenic ySAMdc/azygous control (red)	1.37266	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94512	0.095

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.32129	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80881	1
Manapal/WT (break)	0.66347	1
Manapal/WT (red)	0.7403	0.315