Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.7.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21793	0.403
27DAP/17DAP	0.65179	0.125
39DAP/27DAP	0.98489	0.769
41DAP/39DAP	0.80565	0.358
42DAP/41DAP	0.97373	1
43DAP/42DAP	0.94198	0.865
47DAP/43DAP	0.82686	0.473
52DAP/47DAP	1.21361	0.681
57DAP/52DAP	0.87557	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02085	1
17DAP/reference	1.02764	0.813
27DAP/reference	0.92741	0.314
39DAP/reference	0.9125	0.267
41DAP/reference	0.8238	0.154
42DAP/reference	0.86327	0.008
43DAP/reference	0.90814	0.18
47DAP/reference	0.77631	0.001
52DAP/reference	0.69481	0.015
57DAP/reference	0.83833	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00443	1
27DAP/17DAP	1.07428	0.831
39DAP/27DAP	0.93787	0.311
41DAP/39DAP	1.07343	0.674
42DAP/41DAP	1.03064	0.795
43DAP/42DAP	1.04052	0.478
47DAP/43DAP	0.98675	0.928
52DAP/47DAP	0.96815	0.884
57DAP/52DAP	0.94582	0.555
57DAP/7DAP	1.02461	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3498	0.037
17DAP/reference	1.01555	0.693
27DAP/reference	1.10651	0.453
39DAP/reference	1.08464	0.486
41DAP/reference	1.12099	0.363
42DAP/reference	1.24329	0.046
43DAP/reference	1.04513	0.707
47DAP/reference	0.90656	0.383
52DAP/reference	1.07737	0.034
57DAP/reference	1.01844	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94528	0.412
17DAP/reference	0.96373	0.499
27DAP/reference	0.97671	0.576
39DAP/reference	0.784	0.026
41DAP/reference	0.9136	0.115
42DAP/reference	0.88365	0.027
43DAP/reference	0.79345	0.128
47DAP/reference	0.99685	0.714
52DAP/reference	0.73142	0.005
57DAP/reference	0.75402	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43181	0.029
17DAP/reference	1.36275	0.079
27DAP/reference	1.27888	0.034
39DAP/reference	1.08853	0.451
41DAP/reference	1.09254	0.265
42DAP/reference	1.15164	0.265
43DAP/reference	0.93611	0.432
47DAP/reference	0.86173	0.036
52DAP/reference	1.10148	0.965
57DAP/reference	1.00559	0.652

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94987	1
26DAP/20DAP	1.04675	0.813
34DAP/26DAP	0.94255	0.879
51DAP/34DAP	1.11584	0.365
52DAP/51DAP	1.18163	0.171
53DAP/52DAP	0.96446	0.862
55DAP/53DAP	0.99186	0.894
57DAP/55DAP	0.99798	0.902
62DAP/57DAP	0.93087	0.681
68DAP/62DAP	0.89862	0.543
68DAP/14DAP	0.80683	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07046	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.18318	0.061
Mature Green Tomato/Ripe Tomato	3.67316	0.015
Immature Eggplant/Mature Eggplant	2.28273	0.05
Ripe Pepper/Ripe Tomato	10.7762	0.258
Mature Eggplant/Ripe Tomato	3.79168	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17938	0.574
1-1-2/M82	0.96773
12-2/M82	0.75699	0.955
12-4/M82	0.63808	0.298
1-3/M82	1.79413
2-1-1/M82	1.32688
2-1/M82	N/A	N/A
2-6/M82	1.24436	0.594
3-2/M82	N/A	N/A
4-1-1/M82	0.95167
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.36156	1
5-3/M82	1.13827	1
6-2/M82	1.56313
6-3/M82	1.07531	1
7-1/M82	N/A	N/A
7-2/M82	2.21924	0.318
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03641	1
IL2-6/WTpooled	1.10235	0.531
IL7-5/WTpooled	1.31999	0.792
IL7-3/WTpooled	1.22937	1
IL12-4/WTpooled	1.09766	0.695
IL1-4/WTpooled	1.01454	1
WT/WTpooled	1.0221	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	1.14169	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93085	1
DC3000/delta hrp 6h	0.98746	0.95
DC3000/delta hrp 12h	1.08655	1
DC3000/delta hrp 24h	0.99884	0.966

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94575	0.341
DC3000 delta B/DC3000 delta AB	1.03119	0.601

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.95068	1
Var 0h	0.50409	0.936
Var 12h I row2-row1	0.98072	0.565
Var 12h NI row2-row1	1.08782	1
Var 36h I row2-row1	0.96966	1
Var 36h NI row2-row1	0.72309	0.706
Var 60h I row2-row1	0.8264	0.285
Var 60h NI row2-row1	1.0493	0.904
Time course 0hI-0hNI	1.01761	0.799
Time course 12hI-12hNI	1.07134	0.327
Time course 36hI-36hNI	1.20135	0.006
Time course 60hI-60hNI	2.38508	0.008

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)	1.11069	0.798
transgenic ySAMdc/azygous control (breaker)	2.72809	0.178
transgenic ySAMdc/azygous control (red)	1.15603	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92458	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28973	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.02188	0.083
Manapal/WT (break)	8.78395	0.126
Manapal/WT (red)	4.32884	0.15