Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.10.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26226	0.798
27DAP/17DAP	0.83972	0.677
39DAP/27DAP	1.12961	0.618
41DAP/39DAP	0.84931	0.44
42DAP/41DAP	1.04661	0.994
43DAP/42DAP	0.98859	0.937
47DAP/43DAP	1.01297	0.972
52DAP/47DAP	0.83322	0.559
57DAP/52DAP	1.04793	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20663	0.126
17DAP/reference	1.21893	0.092
27DAP/reference	1.12423	0.299
39DAP/reference	1.09291	0.403
41DAP/reference	1.13785	0.312
42DAP/reference	1.2795	0.001
43DAP/reference	0.97825	0.675
47DAP/reference	1.14745	0.148
52DAP/reference	1.12043	0.302
57DAP/reference	0.98492	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21216	0.058
27DAP/17DAP	0.94436	0.854
39DAP/27DAP	0.81282	0.078
41DAP/39DAP	0.92393	0.68
42DAP/41DAP	1.13183	0.55
43DAP/42DAP	0.95961	0.466
47DAP/43DAP	0.98795	0.947
52DAP/47DAP	1.14343	0.635
57DAP/52DAP	1.23055	0.213
57DAP/7DAP	0.81814	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99584	0.758
17DAP/reference	0.94902	0.338
27DAP/reference	0.86914	0.125
39DAP/reference	1.0502	0.669
41DAP/reference	1.10065	0.475
42DAP/reference	1.02072	1
43DAP/reference	0.87485	0.035
47DAP/reference	1.08083	0.537
52DAP/reference	1.07982	0.459
57DAP/reference	0.89549	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10192	0.289
17DAP/reference	1.31699	0.038
27DAP/reference	1.14402	0.316
39DAP/reference	1.39728	0.011
41DAP/reference	1.39615	0.046
42DAP/reference	1.31432	0.021
43DAP/reference	1.21793	0.161
47DAP/reference	1.18006	0.025
52DAP/reference	1.2732	0.036
57DAP/reference	1.30574	0.066

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8832	0.183
17DAP/reference	1.00914	0.87
27DAP/reference	0.85443	0.119
39DAP/reference	0.98721	0.693
41DAP/reference	0.96819	0.56
42DAP/reference	1.0032	0.816
43DAP/reference	1.01665	0.685
47DAP/reference	1.26299	0.053
52DAP/reference	1.09061	0.965
57DAP/reference	1.21092	0.255

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.68534	0.966
26DAP/20DAP	1.1013	0.753
34DAP/26DAP	1.2498	0.819
51DAP/34DAP	1.11069	0.854
52DAP/51DAP	1.47948	0.08
53DAP/52DAP	0.80886	0.066
55DAP/53DAP	1.1275
57DAP/55DAP	1.05986	0.975
62DAP/57DAP	0.80897	0.28
68DAP/62DAP	0.87377	0.609
68DAP/14DAP	0.79757	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59427	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78388	0.236
Mature Green Tomato/Ripe Tomato	1.81395	0.053
Immature Eggplant/Mature Eggplant	1.28619	0.142
Ripe Pepper/Ripe Tomato	3.06163	0.258
Mature Eggplant/Ripe Tomato	1.67743	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90352	0.503
1-1-2/M82	1.05819	1
12-2/M82	0.98086	1
12-4/M82	0.87805	0.619
1-3/M82	1.2853
2-1-1/M82	1.03006	1
2-1/M82	N/A	N/A
2-6/M82	0.98654
3-2/M82	N/A	N/A
4-1-1/M82	0.59748
4-1/M82	N/A	N/A
4-3-2/M82	0.98084
4-3/M82	1.2051
5-3/M82	1.04745	0.572
6-2/M82	0.93906
6-3/M82	1.00199	1
7-1/M82	N/A	N/A
7-2/M82	0.99139	1
9-3-2/M82	1.07607	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91343	0.243
IL2-6/WTpooled	1.09283	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03166	1
IL12-4/WTpooled	0.87471	1
IL1-4/WTpooled	1.09845	1
WT/WTpooled	0.85866	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	1.05499	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03285	0.921
DC3000/delta hrp 6h	1.06834	1
DC3000/delta hrp 12h	1.00751	1
DC3000/delta hrp 24h	1.12076	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.71039	0.03
DC3000 delta B/DC3000 delta AB	0.62327	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99757	1
Exp 36h	1.00979	1
Exp 60h	1.10576	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00477	1
Var 0h	1.03835	1
Var 12h I row2-row1	0.84579	0.353
Var 12h NI row2-row1	0.97266	0.906
Var 36h I row2-row1	1.06224	0.908
Var 36h NI row2-row1	1.40851	1
Var 60h I row2-row1	1.1253	1
Var 60h NI row2-row1	1.07306	1
Time course 0hI-0hNI	0.97248	0.886
Time course 12hI-12hNI	0.9982	1
Time course 36hI-36hNI	0.9702	0.476
Time course 60hI-60hNI	0.16449	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)	0.9917	0.931
transgenic ySAMdc/azygous control (breaker)	1.03527	1
transgenic ySAMdc/azygous control (red)	0.79251	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93894	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19098	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83456	1
Manapal/WT (break)	0.89573	1
Manapal/WT (red)	0.83391	0.229