Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.5.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05701	0.951
27DAP/17DAP	1.41781	0.671
39DAP/27DAP	2.5928	0.501
41DAP/39DAP	1.82612	0.483
42DAP/41DAP	0.74299	0.397
43DAP/42DAP	1.06906	1
47DAP/43DAP	0.36657	0.049
52DAP/47DAP	1.18795	0.813
57DAP/52DAP	0.98283	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00672	0.771
17DAP/reference	1.18106	0.172
27DAP/reference	1.00555	0.867
39DAP/reference	0.9886	0.797
41DAP/reference	1.14831	0.451
42DAP/reference	0.80685	0.004
43DAP/reference	1.10563	0.705
47DAP/reference	0.90612	0.098
52DAP/reference	0.95311	0.461
57DAP/reference	0.87702	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5715	0.103
27DAP/17DAP	0.98556	0.943
39DAP/27DAP	3.81817	0.078
41DAP/39DAP	4.07234	0.006
42DAP/41DAP	0.65116	0.013
43DAP/42DAP	0.36455	0.021
47DAP/43DAP	1.07881	0.678
52DAP/47DAP	1.2048	0.986
57DAP/52DAP	0.36263	0.221
57DAP/7DAP	0.8106	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97091	0.55
17DAP/reference	0.78358	0.017
27DAP/reference	0.86994	0.2
39DAP/reference	0.84262	0.126
41DAP/reference	0.80948	0.223
42DAP/reference	0.74771	0.04
43DAP/reference	0.79496	0.01
47DAP/reference	1.22283	0.468
52DAP/reference	0.91187	0.196
57DAP/reference	0.98335	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09934	0.832
17DAP/reference	1.47341	0.089
27DAP/reference	1.50314	0.288
39DAP/reference	1.41182	0.316
41DAP/reference	1.69332	0.047
42DAP/reference	0.9716	0.433
43DAP/reference	1.19304	0.793
47DAP/reference	0.95891	0.446
52DAP/reference	1.28385	0.444
57DAP/reference	1.1059	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91496	0.335
17DAP/reference	1.14139	0.784
27DAP/reference	0.97036	0.566
39DAP/reference	0.87156	0.147
41DAP/reference	0.90787	0.331
42DAP/reference	0.91682	0.361
43DAP/reference	0.88969	0.256
47DAP/reference	0.94805	0.452
52DAP/reference	1.13411	0.826
57DAP/reference	1.06201	0.888

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.25521	0.966
26DAP/20DAP	0.72135	0.512
34DAP/26DAP	0.61593	0.575
51DAP/34DAP	1.27668	0.759
52DAP/51DAP	1.04262	0.925
53DAP/52DAP	0.99853	0.835
55DAP/53DAP	1.49349	0.806
57DAP/55DAP	1.25195	0.898
62DAP/57DAP	1.02041	1
68DAP/62DAP	0.91743	0.747
68DAP/14DAP	0.98553

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	6.62555	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.90749	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	0.58362
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	N/A	N/A
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	3.31933	1
4-3/M82	1.41476
5-3/M82	N/A	N/A
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	2.97904	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92443	1
IL2-6/WTpooled	1.27955	0.395
IL7-5/WTpooled	0.89303	1
IL7-3/WTpooled	0.99704	1
IL12-4/WTpooled	0.88288	0.71
IL1-4/WTpooled	1.04706	1
WT/WTpooled	1.00168	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	1.92923	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.2951	0.921
DC3000/delta hrp 6h	0.66364	0.82
DC3000/delta hrp 12h	1.03829	1
DC3000/delta hrp 24h	1.23819	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.99985	0.042
DC3000 delta B/DC3000 delta AB	4.3367	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.67985	1
Exp 36h	1.02803	1
Exp 60h	0.85311	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98468	1
Var 0h	1.15667	0.259
Var 12h I row2-row1	0.89188	0.705
Var 12h NI row2-row1	2.69985	0.235
Var 36h I row2-row1	1.54439	0.489
Var 36h NI row2-row1	0.41394	0.478
Var 60h I row2-row1	0.97803	1
Var 60h NI row2-row1	0.62607	0.458
Time course 0hI-0hNI	1.76362	0.603
Time course 12hI-12hNI	1.8075	0.55
Time course 36hI-36hNI	9.08091	0.004
Time course 60hI-60hNI	75.1181	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)	1.01504	0.921
transgenic ySAMdc/azygous control (breaker)	1.23044	0.248
transgenic ySAMdc/azygous control (red)	1.26495	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95122	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25666	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.43095	0.105
Manapal/WT (break)	1.09449	1
Manapal/WT (red)	1.07519	1