Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.9.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11677	0.838
27DAP/17DAP	0.93736	0.898
39DAP/27DAP	1.06693	1
41DAP/39DAP	1.20979	0.795
42DAP/41DAP	1.1383	1
43DAP/42DAP	0.88219	0.773
47DAP/43DAP	1.11187	0.876
52DAP/47DAP	1.15542	0.976
57DAP/52DAP	1.62439	0.561

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17584	0.252
17DAP/reference	1.13189	0.21
27DAP/reference	1.00954	0.847
39DAP/reference	1.22565	0.059
41DAP/reference	1.31764	0.029
42DAP/reference	1.01874	0.731
43DAP/reference	1.01417	1
47DAP/reference	0.9972	0.568
52DAP/reference	0.87035	0.121
57DAP/reference	0.91979	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07995	0.923
27DAP/17DAP	1.12085	0.751
39DAP/27DAP	0.98299	0.768
41DAP/39DAP	1.05498	0.914
42DAP/41DAP	0.81687	0.399
43DAP/42DAP	1.19936	0.446
47DAP/43DAP	0.90071	0.466
52DAP/47DAP	1.16977	0.742
57DAP/52DAP	0.8501	0.587
57DAP/7DAP	1.19852	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75242	0.08
17DAP/reference	0.76483	0.011
27DAP/reference	0.96125	0.264
39DAP/reference	0.93127	0.264
41DAP/reference	0.8733	0.184
42DAP/reference	0.98281	0.554
43DAP/reference	0.72863	0.012
47DAP/reference	0.88486	0.222
52DAP/reference	0.98027	0.523
57DAP/reference	0.80188	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34458	0.053
17DAP/reference	1.18735	0.151
27DAP/reference	1.01309	0.79
39DAP/reference	1.07778	0.824
41DAP/reference	0.96189	0.412
42DAP/reference	1.06799	0.634
43DAP/reference	1.83385	0.038
47DAP/reference	1.31768	0.054
52DAP/reference	1.39558	0.008
57DAP/reference	1.20331	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84439	0.147
17DAP/reference	1.04947	0.988
27DAP/reference	0.85516	0.089
39DAP/reference	0.98817	0.643
41DAP/reference	1.07986	0.674
42DAP/reference	0.79873	0.049
43DAP/reference	0.83457	0.12
47DAP/reference	1.03363	0.754
52DAP/reference	0.98901	0.573
57DAP/reference	0.84282	0.059

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90643	0.787
26DAP/20DAP	0.8936
34DAP/26DAP	1.29429	0.819
51DAP/34DAP	0.83851
52DAP/51DAP	1.3187	0.281
53DAP/52DAP	1.14676	0.58
55DAP/53DAP	0.79637	0.632
57DAP/55DAP	1.07633	0.826
62DAP/57DAP	0.81989	0.681
68DAP/62DAP	0.94987	0.834
68DAP/14DAP	0.90201	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02835	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.75806

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	0.80173
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	1.18722	1
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	1.27438	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.61267	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.96709	1
WT/WTpooled	N/A	N/A

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	0.68623	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97584	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06461	1
DC3000/delta hrp 24h	1.15305	0.356

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	0.97265	1
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	1.04725	1
Var 0h	0.65616	1
Var 12h I row2-row1	1.20677
Var 12h NI row2-row1	0.96078	0.713
Var 36h I row2-row1	2.68968
Var 36h NI row2-row1	1.03248
Var 60h I row2-row1	1.0414	1
Var 60h NI row2-row1	0.83986	0.483
Time course 0hI-0hNI	0.98212	0.936
Time course 12hI-12hNI	1.04631	0.672
Time course 36hI-36hNI	0.89082	0.284
Time course 60hI-60hNI	0.85449	0.319

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)	1.01835	0.863
transgenic ySAMdc/azygous control (breaker)	1.15284	0.248
transgenic ySAMdc/azygous control (red)	1.00641	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08722	0.051

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04033	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02767	1
Manapal/WT (break)	0.816	1
Manapal/WT (red)	1.17519	0.413