Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08282	0.812
27DAP/17DAP	0.62271	0.076
39DAP/27DAP	0.90676	0.631
41DAP/39DAP	1.06219	1
42DAP/41DAP	0.94051	1
43DAP/42DAP	1.30679	0.563
47DAP/43DAP	0.90795	0.68
52DAP/47DAP	0.88585	0.675
57DAP/52DAP	0.95692	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13113	0.334
17DAP/reference	1.5817	0.028
27DAP/reference	1.18448	0.559
39DAP/reference	1.24143	0.111
41DAP/reference	1.84327	0.014
42DAP/reference	1.16006	0.706
43DAP/reference	1.0601	0.982
47DAP/reference	1.18596	0.114
52DAP/reference	1.15673	0.476
57DAP/reference	0.9129	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84816	0.131
27DAP/17DAP	1.10648	0.694
39DAP/27DAP	0.88093	0.222
41DAP/39DAP	0.877	0.412
42DAP/41DAP	1.01683	1
43DAP/42DAP	1.17001	0.031
47DAP/43DAP	1.06113	0.805
52DAP/47DAP	0.99866	0.962
57DAP/52DAP	1.07441	0.638
57DAP/7DAP	0.91528	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65273	0.045
17DAP/reference	0.78976	0.024
27DAP/reference	1.03198	0.551
39DAP/reference	0.60734	0.011
41DAP/reference	0.77534	0.064
42DAP/reference	0.94271	0.289
43DAP/reference	0.92128	0.241
47DAP/reference	0.84967	0.079
52DAP/reference	0.85518	0.126
57DAP/reference	0.67819	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88988	0.286
17DAP/reference	1.18109	0.839
27DAP/reference	1.22694	0.822
39DAP/reference	0.78273	0.089
41DAP/reference	1.13683	0.562
42DAP/reference	1.01237	1
43DAP/reference	1.50316	0.111
47DAP/reference	1.31426	0.024
52DAP/reference	1.0562	1
57DAP/reference	1.1624	0.848

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80611	0.04
17DAP/reference	0.90198	0.262
27DAP/reference	0.84643	0.076
39DAP/reference	0.83936	0.092
41DAP/reference	0.95403	0.459
42DAP/reference	0.9466	0.361
43DAP/reference	0.75714	0.052
47DAP/reference	1.07921	1
52DAP/reference	0.76231	0.082
57DAP/reference	0.88297	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.81957	0.807
26DAP/20DAP	0.90887	0.512
34DAP/26DAP	0.94889	0.783
51DAP/34DAP	0.83827	0.328
52DAP/51DAP	1.16335	0.186
53DAP/52DAP	1.08867	0.738
55DAP/53DAP	0.963	0.604
57DAP/55DAP	1.02216	1
62DAP/57DAP	1.09586	0.767
68DAP/62DAP	1.01451	0.834
68DAP/14DAP	1.70693	0.029

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.56048	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.9876	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.64083
Mature Eggplant/Ripe Tomato	0.70731	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.75091
1-1-2/M82	0.90422
12-2/M82	0.85593
12-4/M82	0.88734
1-3/M82	0.84725	0.501
2-1-1/M82	0.96625	0.565
2-1/M82	0.90661	1
2-6/M82	0.91663	1
3-2/M82	0.81541
4-1-1/M82	N/A	N/A
4-1/M82	1.02498
4-3-2/M82	N/A	N/A
4-3/M82	1.07495	1
5-3/M82	1.13459	0.467
6-2/M82	0.88973
6-3/M82	1.06803	1
7-1/M82	0.49648
7-2/M82	1.13806
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29859	0.277
IL2-6/WTpooled	1.57124
IL7-5/WTpooled	0.98675	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.38472
IL1-4/WTpooled	1.00139	0.426
WT/WTpooled	1.42846	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	0.83583	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13749	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.33181
DC3000/delta hrp 24h	0.9282	0.395

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.54115	0.025
DC3000 delta B/DC3000 delta AB	0.60306	0.02

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	1.03578	1
Var 0h	0.66171	0.933
Var 12h I row2-row1	0.74173	0.357
Var 12h NI row2-row1	0.83706	0.438
Var 36h I row2-row1	0.93362	0.805
Var 36h NI row2-row1	1.19419	0.482
Var 60h I row2-row1	1.21712	0.502
Var 60h NI row2-row1	1.07568	0.904
Time course 0hI-0hNI	0.99515	1
Time course 12hI-12hNI	0.96475	0.746
Time course 36hI-36hNI	0.83629	0.053
Time course 60hI-60hNI	0.15672	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	0.88391	0.126

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.24251	1

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)	0.75541	0.333
Manapal/WT (red)	1.19034	0.413