Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.47	0.014
27DAP/17DAP	0.59517	0.053
39DAP/27DAP	0.97461	0.631
41DAP/39DAP	0.59012	0.164
42DAP/41DAP	0.99047	1
43DAP/42DAP	1.1308	0.869
47DAP/43DAP	1.01437	0.92
52DAP/47DAP	1.06597	1
57DAP/52DAP	1.66468	0.492

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57219	0.026
17DAP/reference	1.05759	0.369
27DAP/reference	1.10149	0.277
39DAP/reference	0.75937	0.026
41DAP/reference	0.71611	0.009
42DAP/reference	0.92484	0.062
43DAP/reference	0.81746	0.019
47DAP/reference	0.91561	0.083
52DAP/reference	0.96374	0.438
57DAP/reference	1.12928	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29364
27DAP/17DAP	1.10013
39DAP/27DAP	0.78294	0.502
41DAP/39DAP	0.40391
42DAP/41DAP	1.33816	0.55
43DAP/42DAP	0.92109	0.854
47DAP/43DAP	1.45446	0.359
52DAP/47DAP	0.89776	0.884
57DAP/52DAP	1.62932	0.846
57DAP/7DAP	2.42644

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.58316	0.029
17DAP/reference	1.3669	0.014
27DAP/reference	1.18053	0.088
39DAP/reference	1.31451	0.066
41DAP/reference	1.09683	0.836
42DAP/reference	1.23795	0.024
43DAP/reference	0.93999	0.368
47DAP/reference	0.83002	0.034
52DAP/reference	0.88106	0.053
57DAP/reference	1.0387	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40514	0.177
17DAP/reference	1.14165	0.613
27DAP/reference	1.13019	0.692
39DAP/reference	1.01928	1
41DAP/reference	1.0463	1
42DAP/reference	1.04697	1
43DAP/reference	0.69238	0.005
47DAP/reference	0.77901	0.043
52DAP/reference	1.0005	0.713
57DAP/reference	1.15585	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.38184	0.015
17DAP/reference	1.53601	0.096
27DAP/reference	1.38905	0.028
39DAP/reference	1.21144	0.377
41DAP/reference	1.01977	0.961
42DAP/reference	1.02239	1
43DAP/reference	0.9566	0.468
47DAP/reference	0.84444	0.052
52DAP/reference	1.0597	1
57DAP/reference	1.17486	0.245

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23238	0.916
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.60118	0.219
51DAP/34DAP	0.55614
52DAP/51DAP	0.53487	1
53DAP/52DAP	0.68072	0.194
55DAP/53DAP	1.01094	0.82
57DAP/55DAP	0.75923	0.297
62DAP/57DAP	1.1106	0.902
68DAP/62DAP	3.45557	0.383
68DAP/14DAP	0.59438	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0573

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	6.79657	0.058
Mature Green Tomato/Ripe Tomato	14.0539	0.015
Immature Eggplant/Mature Eggplant	0.2591	0.062
Ripe Pepper/Ripe Tomato	55.65	0.256
Mature Eggplant/Ripe Tomato	38.1291	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.85909
12-2/M82	1.28404
12-4/M82	0.98533	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.27974
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.81237
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	0.45085
5-3/M82	1.15787
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.64071
7-2/M82	0.91163
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.73493	0.277
IL2-6/WTpooled	1.19289	0.441
IL7-5/WTpooled	0.50732	1
IL7-3/WTpooled	1.21882	1
IL12-4/WTpooled	1.28715	0.891
IL1-4/WTpooled	0.85302	0.562
WT/WTpooled	1.1199	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88964	1
DC3000/delta hrp 6h	1.25241	0.631
DC3000/delta hrp 12h	1.37472	1
DC3000/delta hrp 24h	0.53005	0.046

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9046	1
Exp 36h	0.5263	0.41
Exp 60h	0.53905	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.13467
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.6148	0.3
transgenic ySAMdc/azygous control (breaker)	1.34487	1
transgenic ySAMdc/azygous control (red)	1.04312	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.63242	0.065

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	6.42991	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.07066	0.096
Manapal/WT (break)	2.23949	0.126
Manapal/WT (red)	1.23163	1