Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.12.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37875	0.359
27DAP/17DAP	0.89425	0.724
39DAP/27DAP	1.38161	0.188
41DAP/39DAP	0.83173	0.403
42DAP/41DAP	0.78178	0.774
43DAP/42DAP	1.6372	0.039
47DAP/43DAP	0.73248	0.274
52DAP/47DAP	1.52667	0.43
57DAP/52DAP	0.90202	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22078	0.085
17DAP/reference	1.60597	0.018
27DAP/reference	1.29986	0.121
39DAP/reference	0.96793	0.651
41DAP/reference	1.60331	0.029
42DAP/reference	1.15749	0.449
43DAP/reference	1.26652	0.028
47DAP/reference	1.08237	0.495
52DAP/reference	1.21007	0.354
57DAP/reference	0.91067	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12938	0.569
27DAP/17DAP	0.93669	0.748
39DAP/27DAP	0.84465	0.444
41DAP/39DAP	0.96275	0.945
42DAP/41DAP	0.88007	0.368
43DAP/42DAP	0.9757	0.875
47DAP/43DAP	1.05187	0.926
52DAP/47DAP	1.07976	0.823
57DAP/52DAP	1.17857	0.438
57DAP/7DAP	0.82542	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99136	0.682
17DAP/reference	0.83695	0.167
27DAP/reference	0.92697	0.402
39DAP/reference	1.13483	0.538
41DAP/reference	1.17868	0.291
42DAP/reference	1.20335	0.308
43DAP/reference	1.04157	1
47DAP/reference	0.96347	0.671
52DAP/reference	1.03405	0.621
57DAP/reference	1.29622	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96496	0.639
17DAP/reference	1.01863	1
27DAP/reference	1.04692	1
39DAP/reference	1.28918	0.011
41DAP/reference	0.97705	0.481
42DAP/reference	0.97732	0.534
43DAP/reference	1.15646	0.489
47DAP/reference	1.05385	0.795
52DAP/reference	1.30762	0.036
57DAP/reference	1.50419	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96187	0.653
17DAP/reference	0.91995	0.537
27DAP/reference	0.51962
39DAP/reference	0.96039	0.643
41DAP/reference	1.01996	0.826
42DAP/reference	0.8047	0.22
43DAP/reference	1.10665	0.655
47DAP/reference	1.02293	0.708
52DAP/reference	0.92582	0.472
57DAP/reference	1.05769	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.46345	0.966
26DAP/20DAP	1.07301	0.941
34DAP/26DAP	0.98109	0.98
51DAP/34DAP	0.89071	0.492
52DAP/51DAP	0.86902	1
53DAP/52DAP	0.76228	0.075
55DAP/53DAP	0.95503	0.746
57DAP/55DAP	0.86709	0.486
62DAP/57DAP	1.13052	1
68DAP/62DAP	0.83415	0.722
68DAP/14DAP	0.39882

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.3662	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.10302	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
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	0.78921	0.348
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08935	1
IL12-4/WTpooled	1.02636	1
IL1-4/WTpooled	1.11033
WT/WTpooled	1.06753	0.911

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	0.88555	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83801
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.80854
DC3000/delta hrp 24h	0.54991	0.066

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.51852	0.023
DC3000 delta B/DC3000 delta AB	0.49102	0.023

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	0.96798	1
Var 0h	1.03578	1
Var 12h I row2-row1	0.79812	0.39
Var 12h NI row2-row1	0.86999	0.349
Var 36h I row2-row1	0.93024	0.805
Var 36h NI row2-row1	1.16164	0.482
Var 60h I row2-row1	1.1663	0.543
Var 60h NI row2-row1	1.06056	1
Time course 0hI-0hNI	1.007	1
Time course 12hI-12hNI	0.95698	0.522
Time course 36hI-36hNI	0.79996	0.024
Time course 60hI-60hNI	0.21086	0.005

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9769	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.55594	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.16643	1
Manapal/WT (red)	N/A	N/A