Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.14.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70141	0.128
27DAP/17DAP	0.87965	0.72
39DAP/27DAP	1.71228	0.038
41DAP/39DAP	0.6188	0.053
42DAP/41DAP	0.9003	1
43DAP/42DAP	0.84492	0.694
47DAP/43DAP	0.87974	0.603
52DAP/47DAP	0.88708	0.675
57DAP/52DAP	1.42253	0.771

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.61185	0.01
17DAP/reference	1.01169	1
27DAP/reference	0.87115	0.119
39DAP/reference	0.82638	0.022
41DAP/reference	0.95675	0.542
42DAP/reference	0.97261	0.315
43DAP/reference	0.92952	0.36
47DAP/reference	1.00829	0.764
52DAP/reference	0.75842	0.026
57DAP/reference	0.85895	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00796	1
27DAP/17DAP	1.0019	1
39DAP/27DAP	1.04811	0.646
41DAP/39DAP	1.04952	0.868
42DAP/41DAP	1.13296	0.327
43DAP/42DAP	1.00189	1
47DAP/43DAP	1.01869	0.948
52DAP/47DAP	0.86471	0.22
57DAP/52DAP	0.82087	0.331
57DAP/7DAP	0.69714	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29181	0.071
17DAP/reference	1.01555	0.971
27DAP/reference	1.05677	0.246
39DAP/reference	0.98462	0.474
41DAP/reference	0.98217	0.589
42DAP/reference	0.97814	0.371
43DAP/reference	0.94592	0.266
47DAP/reference	1.08324	0.604
52DAP/reference	1.06349	0.113
57DAP/reference	0.94004	0.207

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22699	0.38
17DAP/reference	1.05327	0.904
27DAP/reference	1.32025	0.131
39DAP/reference	1.18528	0.272
41DAP/reference	1.02726	1
42DAP/reference	1.27403	0.038
43DAP/reference	1.29307	0.485
47DAP/reference	1.38342	0.01
52DAP/reference	0.81582	0.051
57DAP/reference	1.2223	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14411	0.058
17DAP/reference	1.13475	0.126
27DAP/reference	1.18856	0.03
39DAP/reference	1.11778	0.1
41DAP/reference	1.08826	0.357
42DAP/reference	0.96152	0.445
43DAP/reference	1.02748	0.993
47DAP/reference	0.92024	0.296
52DAP/reference	1.06142	0.908
57DAP/reference	0.9532	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11346	0.966
26DAP/20DAP	1.20463	0.464
34DAP/26DAP	0.85653	0.374
51DAP/34DAP	1.10711	0.677
52DAP/51DAP	1.01956	1
53DAP/52DAP	1.07478	0.83
55DAP/53DAP	1.07568	0.798
57DAP/55DAP	1.0991	0.87
62DAP/57DAP	1.10172	0.678
68DAP/62DAP	0.73949	0.406
68DAP/14DAP	1.04387	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.58657	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.03684	0.058
Mature Green Tomato/Ripe Tomato	1.32647	0.299
Immature Eggplant/Mature Eggplant	0.68082	0.079
Ripe Pepper/Ripe Tomato	0.94677	1
Mature Eggplant/Ripe Tomato	0.68556	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.43833	0.432
1-1-2/M82	0.86121	1
12-2/M82	0.80245	0.955
12-4/M82	0.73109	0.282
1-3/M82	0.9509
2-1-1/M82	0.80373
2-1/M82	N/A	N/A
2-6/M82	0.96524	1
3-2/M82	N/A	N/A
4-1-1/M82	0.8233
4-1/M82	N/A	N/A
4-3-2/M82	1.14749	1
4-3/M82	0.99602
5-3/M82	1.34844	0.572
6-2/M82	0.69245	0.481
6-3/M82	0.98496	1
7-1/M82	N/A	N/A
7-2/M82	1.22138	0.302
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25365	0.277
IL2-6/WTpooled	0.74453	0.358
IL7-5/WTpooled	1.18814	0.792
IL7-3/WTpooled	1.1815	1
IL12-4/WTpooled	1.14115	0.595
IL1-4/WTpooled	1.04957	1
WT/WTpooled	1.02296	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	1.17234	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0363	0.921
DC3000/delta hrp 6h	0.92136	0.95
DC3000/delta hrp 12h	1.02219	1
DC3000/delta hrp 24h	1.13147	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07947
DC3000 delta B/DC3000 delta AB	1.08912	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95205	1
Exp 36h	0.91593	0.879
Exp 60h	1.5592	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99886
Var 0h	0.584	0.98
Var 12h I row2-row1	1.13354	0.58
Var 12h NI row2-row1	0.91647	0.82
Var 36h I row2-row1	0.95795	1
Var 36h NI row2-row1	0.96257	0.791
Var 60h I row2-row1	1.0533	0.562
Var 60h NI row2-row1	0.81038	0.292
Time course 0hI-0hNI	0.99485	1
Time course 12hI-12hNI	1.02793	0.734
Time course 36hI-36hNI	1.51987	0.006
Time course 60hI-60hNI	1.44008	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)	0.81988	0.301
transgenic ySAMdc/azygous control (breaker)	1.91795	0.248
transgenic ySAMdc/azygous control (red)	1.21974	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19467	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71798	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32448	0.14
Manapal/WT (break)	1.31864	1
Manapal/WT (red)	1.91401	0.137