Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.6.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09961	0.851
27DAP/17DAP	1.08877	0.866
39DAP/27DAP	1.28817	0.412
41DAP/39DAP	0.7901	0.229
42DAP/41DAP	1.2534	0.751
43DAP/42DAP	1.11273	1
47DAP/43DAP	1.01707	0.972
52DAP/47DAP	0.79785	0.498
57DAP/52DAP	1.08185	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9039	0.098
17DAP/reference	1.05613	0.015
27DAP/reference	1.04734	0.221
39DAP/reference	1.06763	0.229
41DAP/reference	0.98424	0.667
42DAP/reference	0.95138	0.095
43DAP/reference	1.08565	0.057
47DAP/reference	1.02117	0.666
52DAP/reference	0.9751	0.461
57DAP/reference	0.99626	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86871	0.323
27DAP/17DAP	0.91877	0.748
39DAP/27DAP	1.01192	1
41DAP/39DAP	0.86176	0.288
42DAP/41DAP	1.11603	0.478
43DAP/42DAP	0.97933	0.875
47DAP/43DAP	0.9449	0.677
52DAP/47DAP	0.87472	0.746
57DAP/52DAP	0.91598	0.56
57DAP/7DAP	1.17407	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99694	0.682
17DAP/reference	1.05952	0.971
27DAP/reference	1.08662	0.974
39DAP/reference	1.13932	0.175
41DAP/reference	0.96901	0.469
42DAP/reference	1.32348	0.174
43DAP/reference	0.8703	0.091
47DAP/reference	1.15403	0.717
52DAP/reference	1.08158	0.684
57DAP/reference	1.03866	0.67

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93769	0.457
17DAP/reference	1.02175	0.756
27DAP/reference	1.002	1
39DAP/reference	0.98503	0.455
41DAP/reference	0.97702	0.459
42DAP/reference	0.96475	0.392
43DAP/reference	1.14144	0.453
47DAP/reference	0.96065	0.227
52DAP/reference	1.01196	0.596
57DAP/reference	1.02803	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10817	0.631
17DAP/reference	0.92596	0.165
27DAP/reference	0.87501	0.27
39DAP/reference	1.11546	0.235
41DAP/reference	1.05535	0.754
42DAP/reference	1.06095	0.863
43DAP/reference	1.08167	0.388
47DAP/reference	1.22025	0.01
52DAP/reference	1.09407	0.583
57DAP/reference	0.95548	0.43

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09428	0.966
26DAP/20DAP	0.7724	0.512
34DAP/26DAP	1.21869	0.819
51DAP/34DAP	0.76433	0.225
52DAP/51DAP	0.87395	1
53DAP/52DAP	0.83036	0.069
55DAP/53DAP	0.8349	0.363
57DAP/55DAP	2.75883
62DAP/57DAP	0.94657	0.994
68DAP/62DAP	0.88624	0.7
68DAP/14DAP	1.07077	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.69088	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.18642	0.062
Mature Green Tomato/Ripe Tomato	1.48072	0.299
Immature Eggplant/Mature Eggplant	1.33768	0.058
Ripe Pepper/Ripe Tomato	1.69711	1
Mature Eggplant/Ripe Tomato	2.6201	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09682	0.742
1-1-2/M82	1.33528	1
12-2/M82	1.32625
12-4/M82	0.86578	0.619
1-3/M82	1.10387	1
2-1-1/M82	0.86676	0.465
2-1/M82	N/A	N/A
2-6/M82	1.05277	1
3-2/M82	1.04338	0.967
4-1-1/M82	0.71432
4-1/M82	2.06233	0.853
4-3-2/M82	1.15648	0.284
4-3/M82	0.91247	0.72
5-3/M82	1.0375	0.572
6-2/M82	N/A	N/A
6-3/M82	1.11915
7-1/M82	1.0955
7-2/M82	0.77296	0.599
9-3-2/M82	1.50899	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89942
IL2-6/WTpooled	0.98896	1
IL7-5/WTpooled	1.23197	0.792
IL7-3/WTpooled	0.8065	0.298
IL12-4/WTpooled	0.89674	0.566
IL1-4/WTpooled	0.95617	0.834
WT/WTpooled	0.90509	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	1.16765	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03947	0.921
DC3000/delta hrp 6h	0.99728	0.95
DC3000/delta hrp 12h	0.98314	1
DC3000/delta hrp 24h	0.93893	0.607

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	0.99173	1
Exp 36h	1.31593	0.693
Exp 60h	1.4405	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02912	1
Var 0h	0.7942	0.457
Var 12h I row2-row1	0.95573	0.856
Var 12h NI row2-row1	1.06253	0.649
Var 36h I row2-row1	0.95232	1
Var 36h NI row2-row1	0.79436	0.225
Var 60h I row2-row1	0.74634	0.285
Var 60h NI row2-row1	1.42689	0.904
Time course 0hI-0hNI	0.94839	0.729
Time course 12hI-12hNI	0.98556	0.935
Time course 36hI-36hNI	0.95811	0.504
Time course 60hI-60hNI	1.86741	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)	0.77202	0.289
transgenic ySAMdc/azygous control (breaker)	0.92227	0.49
transgenic ySAMdc/azygous control (red)	1.11203	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00224	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96737	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84481	1
Manapal/WT (break)	0.97259	1
Manapal/WT (red)	0.92996	0.503