Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09297	0.893
27DAP/17DAP	0.88249	0.72
39DAP/27DAP	0.77488	0.447
41DAP/39DAP	0.72754	0.156
42DAP/41DAP	1.30567	0.681
43DAP/42DAP	0.66725	0.495
47DAP/43DAP	1.19899	0.555
52DAP/47DAP	1.16334	0.819
57DAP/52DAP	0.97266	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79114	0.028
17DAP/reference	0.91836	0.368
27DAP/reference	1.0393	0.909
39DAP/reference	0.86603	0.1
41DAP/reference	0.86536	0.039
42DAP/reference	0.85417	0.006
43DAP/reference	0.88721	0.234
47DAP/reference	1.01653	0.764
52DAP/reference	1.05323	0.8
57DAP/reference	1.09497	0.173

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9842	0.75
27DAP/17DAP	1.029	0.967
39DAP/27DAP	0.89141	0.188
41DAP/39DAP	1.08374	0.837
42DAP/41DAP	1.00704	0.91
43DAP/42DAP	0.85525	0.038
47DAP/43DAP	1.02079	1
52DAP/47DAP	1.17642	0.478
57DAP/52DAP	1.08391	0.618
57DAP/7DAP	0.86627	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.929	0.138
17DAP/reference	0.94043	0.108
27DAP/reference	1.15322	0.073
39DAP/reference	0.97851	0.307
41DAP/reference	0.88036	0.04
42DAP/reference	0.9199	0.117
43DAP/reference	0.94335	0.22
47DAP/reference	1.04656	0.901
52DAP/reference	0.99856	0.74
57DAP/reference	1.07203	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96672	0.669
17DAP/reference	1.17256	0.124
27DAP/reference	0.97917	0.537
39DAP/reference	1.00418	0.745
41DAP/reference	0.93992	0.348
42DAP/reference	1.05422	0.863
43DAP/reference	1.09585	0.802
47DAP/reference	1.02242	0.943
52DAP/reference	0.96071	0.407
57DAP/reference	0.96974	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04317	0.505
17DAP/reference	1.07115	0.503
27DAP/reference	1.06107	0.188
39DAP/reference	1.10442	0.025
41DAP/reference	1.02516	0.867
42DAP/reference	1.12258	0.3
43DAP/reference	0.93132	0.102
47DAP/reference	0.84853	0.066
52DAP/reference	1.15992	0.205
57DAP/reference	0.97681	0.602

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02028	1
26DAP/20DAP	1.2376	0.642
34DAP/26DAP	1.05312	1
51DAP/34DAP	1.10605	0.706
52DAP/51DAP	1.62256	0.225
53DAP/52DAP	0.98311	0.891
55DAP/53DAP	1.20691	0.317
57DAP/55DAP	0.81099	0.305
62DAP/57DAP	1.08866	1
68DAP/62DAP	1.37694	0.597
68DAP/14DAP	1.06794	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86072	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57415
Mature Green Tomato/Ripe Tomato	1.49288	0.577
Immature Eggplant/Mature Eggplant	0.98916	1
Ripe Pepper/Ripe Tomato	1.09359	1
Mature Eggplant/Ripe Tomato	0.92044

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	0.83119	0.619
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	1.1162
5-3/M82	1.32886	0.467
6-2/M82	1.2518
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.96982
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.51385	0.277
IL2-6/WTpooled	0.75171	0.473
IL7-5/WTpooled	1.28773	0.75
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.94457	1
IL1-4/WTpooled	1.1554	1
WT/WTpooled	0.98232	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	0.94026	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18564
DC3000/delta hrp 6h	1.123	1
DC3000/delta hrp 12h	1.01365	1
DC3000/delta hrp 24h	0.95879	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86233
DC3000 delta B/DC3000 delta AB	1.47604	0.166

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84916	1
Exp 36h	0.95229	0.879
Exp 60h	0.97922	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04333	1
Var 0h	0.22401	1
Var 12h I row2-row1	0.97917	0.948
Var 12h NI row2-row1	1.12462	0.281
Var 36h I row2-row1	0.99328	1
Var 36h NI row2-row1	0.95404	0.743
Var 60h I row2-row1	0.77977	0.439
Var 60h NI row2-row1	1.00635	1
Time course 0hI-0hNI	1.07465	0.764
Time course 12hI-12hNI	1.00961	0.885
Time course 36hI-36hNI	1.02753	0.651
Time course 60hI-60hNI	1.20547	0.254

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)	1.14778	0.286
transgenic ySAMdc/azygous control (breaker)	0.83087	0.173
transgenic ySAMdc/azygous control (red)	0.91837	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96497	0.27

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96281	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76893	1
Manapal/WT (break)	0.92274	1
Manapal/WT (red)	0.74573	0.181