Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.18.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08593	0.786
27DAP/17DAP	1.1335	0.845
39DAP/27DAP	0.94525	0.631
41DAP/39DAP	1.173	0.663
42DAP/41DAP	0.96464	1
43DAP/42DAP	1.02312	1
47DAP/43DAP	1.2662	0.474
52DAP/47DAP	0.86484	0.627
57DAP/52DAP	1.08543	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96604	0.402
17DAP/reference	1.00786	0.813
27DAP/reference	0.94634	0.314
39DAP/reference	1.03661	0.445
41DAP/reference	0.99762	1
42DAP/reference	0.95322	0.038
43DAP/reference	1.01169	1
47DAP/reference	1.00637	0.72
52DAP/reference	0.97333	0.258
57DAP/reference	0.86299	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99482	0.763
27DAP/17DAP	0.90546	0.648
39DAP/27DAP	1.01345	1
41DAP/39DAP	1.07771	0.896
42DAP/41DAP	1.02532	0.939
43DAP/42DAP	1.028	0.83
47DAP/43DAP	1.00132	0.985
52DAP/47DAP	0.92179	0.686
57DAP/52DAP	0.95935	0.685
57DAP/7DAP	0.87435	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9932	0.613
17DAP/reference	0.9315	0.049
27DAP/reference	0.90926	0.013
39DAP/reference	1.00326	1
41DAP/reference	1.02105	0.745
42DAP/reference	0.96699	0.136
43DAP/reference	0.96063	0.082
47DAP/reference	1.04187	0.685
52DAP/reference	0.95667	0.196
57DAP/reference	0.98398	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09557	0.35
17DAP/reference	0.99283	0.693
27DAP/reference	1.08239	0.745
39DAP/reference	0.97696	0.392
41DAP/reference	0.9186	0.115
42DAP/reference	0.84103	0.024
43DAP/reference	1.076	0.617
47DAP/reference	0.98742	0.609
52DAP/reference	0.94642	0.203
57DAP/reference	1.01267	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94221	0.197
17DAP/reference	0.93343	0.364
27DAP/reference	0.94191	0.357
39DAP/reference	1.00621	0.987
41DAP/reference	0.94739	0.185
42DAP/reference	0.94278	0.287
43DAP/reference	0.92375	0.102
47DAP/reference	1.13225	0.055
52DAP/reference	0.9956	0.854
57DAP/reference	0.80702	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8502	0.182
26DAP/20DAP	0.8244	1
34DAP/26DAP	1.06297	1
51DAP/34DAP	1.06215	0.854
52DAP/51DAP	0.88226	1
53DAP/52DAP	1.08991	0.688
55DAP/53DAP	1.19319	0.693
57DAP/55DAP	1.19462	0.745
62DAP/57DAP	0.97778	0.994
68DAP/62DAP	1.063	0.863
68DAP/14DAP	1.25804	0.179

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8823	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71212	0.19
Mature Green Tomato/Ripe Tomato	1.60351	0.053
Immature Eggplant/Mature Eggplant	1.34273	0.05
Ripe Pepper/Ripe Tomato	1.90911	1
Mature Eggplant/Ripe Tomato	1.55469	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00079	1
1-1-2/M82	0.91406	0.804
12-2/M82	1.02374
12-4/M82	0.9452	1
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	1.16524	0.594
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.93632
4-3-2/M82	0.99003
4-3/M82	N/A	N/A
5-3/M82	0.96057	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	1.0911	1
9-3-2/M82	1.04565	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29661
IL2-6/WTpooled	1.12364	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93545	1
IL12-4/WTpooled	0.92071	1
IL1-4/WTpooled	1.055	1
WT/WTpooled	0.98756	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	1.1222	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9421	1
DC3000/delta hrp 6h	0.88504	0.95
DC3000/delta hrp 12h	0.89144	1
DC3000/delta hrp 24h	1.13884	0.158

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.81225
DC3000 delta B/DC3000 delta AB	0.56482

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05823	1
Exp 36h	0.89153	0.661
Exp 60h	1.11739	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91414	1
Var 0h	1.28372	0.936
Var 12h I row2-row1	0.91724	0.77
Var 12h NI row2-row1	0.7024	0.82
Var 36h I row2-row1	0.79874
Var 36h NI row2-row1	1.18204	1
Var 60h I row2-row1	0.82962	0.832
Var 60h NI row2-row1	1.52241	0.904
Time course 0hI-0hNI	1.00676	1
Time course 12hI-12hNI	0.91342	0.3
Time course 36hI-36hNI	0.93914	0.433
Time course 60hI-60hNI	1.07893	0.495

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)	0.79759	0.299
transgenic ySAMdc/azygous control (breaker)	0.99305	1
transgenic ySAMdc/azygous control (red)	0.94063	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01551	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20814	0.277

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)	0.87837	1
Manapal/WT (red)	0.96394	0.728