Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.4.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68623	0.071
27DAP/17DAP	1.12582	0.854
39DAP/27DAP	1.23888	0.615
41DAP/39DAP	1.3676	0.339
42DAP/41DAP	1.00635	1
43DAP/42DAP	0.84552	0.606
47DAP/43DAP	0.65805	0.156
52DAP/47DAP	0.77547	0.338
57DAP/52DAP	1.52575	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01376	0.771
17DAP/reference	0.87295	0.033
27DAP/reference	1.0458	0.672
39DAP/reference	0.94981	0.541
41DAP/reference	0.90901	0.267
42DAP/reference	1.12725	0.045
43DAP/reference	1.11482	0.175
47DAP/reference	1.00026	0.72
52DAP/reference	1.01974	1
57DAP/reference	1.1767	0.097

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25212	0.205
27DAP/17DAP	0.83977	0.614
39DAP/27DAP	0.92678	0.601
41DAP/39DAP	1.22149	0.382
42DAP/41DAP	0.92321	0.456
43DAP/42DAP	0.81981	0.046
47DAP/43DAP	0.95676	0.696
52DAP/47DAP	1.29959	0.38
57DAP/52DAP	1.51267	0.071
57DAP/7DAP	0.73259	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91515	0.326
17DAP/reference	0.83315	0.22
27DAP/reference	0.84328	0.082
39DAP/reference	1.12992	0.157
41DAP/reference	1.17948	0.171
42DAP/reference	0.79161	0.035
43DAP/reference	0.88217	0.151
47DAP/reference	1.33844	0.127
52DAP/reference	1.0458	0.526
57DAP/reference	1.08622	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00451	0.93
17DAP/reference	0.74629	0.03
27DAP/reference	0.91313	0.352
39DAP/reference	0.9515	0.485
41DAP/reference	1.14688	0.269
42DAP/reference	1.1694	0.288
43DAP/reference	0.75808	0.027
47DAP/reference	1.11327	0.116
52DAP/reference	1.04582	1
57DAP/reference	1.08997	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84831	0.183
17DAP/reference	1.03768	0.934
27DAP/reference	1.10667	0.092
39DAP/reference	1.09063	0.496
41DAP/reference	1.17977	0.439
42DAP/reference	1.00666	1
43DAP/reference	1.09159	0.894
47DAP/reference	1.00428	0.667
52DAP/reference	1.35719	0.341
57DAP/reference	1.2001	0.481

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04542	0.966
26DAP/20DAP	2.42891	0.19
34DAP/26DAP	0.77576	0.412
51DAP/34DAP	1.62279	0.055
52DAP/51DAP	0.90055	1
53DAP/52DAP	0.93284	0.891
55DAP/53DAP	0.74985	0.053
57DAP/55DAP	0.9014	0.56
62DAP/57DAP	1.20016	0.723
68DAP/62DAP	2.19808	0.058
68DAP/14DAP	3.3722	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76621	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96798	0.726
Mature Green Tomato/Ripe Tomato	2.47194	0.02
Immature Eggplant/Mature Eggplant	0.96487	1
Ripe Pepper/Ripe Tomato	1.24284	1
Mature Eggplant/Ripe Tomato	1.33486	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9898	1
1-1-2/M82	0.90055	1
12-2/M82	0.96658	1
12-4/M82	0.87883	1
1-3/M82	1.60811	0.479
2-1-1/M82	0.96152	1
2-1/M82	0.9494	0.74
2-6/M82	0.7764	0.501
3-2/M82	1.55681	N/A
4-1-1/M82	0.90788	1
4-1/M82	1.28953	0.853
4-3-2/M82	1.01648	1
4-3/M82	1.16574	1
5-3/M82	1.19048	0.572
6-2/M82	1.34302	1
6-3/M82	1.13181	1
7-1/M82	0.92955	1
7-2/M82	1.2013	0.324
9-3-2/M82	1.01006	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.20046	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.72308	N/A
IL12-4/WTpooled	0.89143	1
IL1-4/WTpooled	1.16805	N/A
WT/WTpooled	0.6503	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	1.06293	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87907	0.807
DC3000/delta hrp 6h	0.98662	0.95
DC3000/delta hrp 12h	0.94086	1
DC3000/delta hrp 24h	0.85248	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.81085	0.341
DC3000 delta B/DC3000 delta AB	0.90844	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92874	1
Exp 36h	1.51831	1
Exp 60h	1.56318	1

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	1.02854	1
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	N/A	N/A
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)	1.06724	0.511
transgenic ySAMdc/azygous control (breaker)	0.79559	0.15
transgenic ySAMdc/azygous control (red)	1.00657	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14197	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79619	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14203	0.105
Manapal/WT (break)	1.07212	0.381
Manapal/WT (red)	0.85718	0.187