Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93391	0.543
27DAP/17DAP	1.16363	0.926
39DAP/27DAP	0.92991	0.507
41DAP/39DAP	1.22029	0.992
42DAP/41DAP	1.06537	1
43DAP/42DAP	0.99793	0.937
47DAP/43DAP	0.6249	0.165
52DAP/47DAP	1.19588	0.997
57DAP/52DAP	1.46729	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83911	0.092
17DAP/reference	1.09126	0.127
27DAP/reference	0.87013	0.17
39DAP/reference	1.03532	0.722
41DAP/reference	1.06312	0.808
42DAP/reference	0.84285	0.088
43DAP/reference	1.03841	0.705
47DAP/reference	0.97027	0.418
52DAP/reference	0.84882	0.131
57DAP/reference	0.75305	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.149	0.899
27DAP/17DAP	1.0074	0.943
39DAP/27DAP	1.27472	0.359
41DAP/39DAP	1.03128	0.997
42DAP/41DAP	1.00225	0.87
43DAP/42DAP	0.88819	0.801
47DAP/43DAP	1.11351	0.941
52DAP/47DAP	1.80229	0.155
57DAP/52DAP	3.33607	0.376
57DAP/7DAP	0.96139	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98398	0.613
17DAP/reference	0.83779	0.072
27DAP/reference	0.90309	0.135
39DAP/reference	0.80312	0.056
41DAP/reference	0.83943	0.034
42DAP/reference	0.82128	0.053
43DAP/reference	0.86232	0.082
47DAP/reference	1.06273	0.868
52DAP/reference	0.8033	0.024
57DAP/reference	0.95264	0.328

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03644	0.926
17DAP/reference	1.06066	0.773
27DAP/reference	1.06915	0.726
39DAP/reference	0.87268	0.119
41DAP/reference	0.82566	0.268
42DAP/reference	0.95875	0.212
43DAP/reference	1.03037	0.814
47DAP/reference	1.15397	0.101
52DAP/reference	0.95712	0.407
57DAP/reference	0.9846	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96616	0.489
17DAP/reference	0.98775	0.727
27DAP/reference	0.84044	0.119
39DAP/reference	0.78195	0.018
41DAP/reference	0.91489	0.331
42DAP/reference	0.99204	0.816
43DAP/reference	0.90735	0.432
47DAP/reference	0.9985	0.61
52DAP/reference	1.11494	0.526
57DAP/reference	1.00862	0.947

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22176	0.966
26DAP/20DAP	0.77318	0.205
34DAP/26DAP	1.30198	0.819
51DAP/34DAP	0.92316
52DAP/51DAP	1.22084	0.565
53DAP/52DAP	1.09096	0.819
55DAP/53DAP	1.29973	0.225
57DAP/55DAP	0.83392	0.282
62DAP/57DAP	1.24684	0.569
68DAP/62DAP	1.30779	0.808
68DAP/14DAP	1.64815	0.265

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66475	0.046

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	0.6384	1
Mature Eggplant/Ripe Tomato	0.55266	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08993	0.877
1-1-2/M82	1.03894	1
12-2/M82	N/A	N/A
12-4/M82	0.84625	1
1-3/M82	N/A	N/A
2-1-1/M82	1.03455
2-1/M82	N/A	N/A
2-6/M82	1.21261
3-2/M82	1.16142
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	1.31922
5-3/M82	1.10735	0.496
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.35688
7-2/M82	1.08454
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95794	0.321
IL2-6/WTpooled	0.74763	0.383
IL7-5/WTpooled	0.97413	1
IL7-3/WTpooled	1.48435	1
IL12-4/WTpooled	1.13272	0.839
IL1-4/WTpooled	1.0406	1
WT/WTpooled	1.04232	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	1.82591

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87316	1
DC3000/delta hrp 6h	1.20027	1
DC3000/delta hrp 12h	0.9343	1
DC3000/delta hrp 24h	0.86734	0.241

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	1.27617	0.345

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06704	1
Exp 36h	0.94285	0.539
Exp 60h	1.43011	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10342
Var 0h	0.86927	0.933
Var 12h I row2-row1	0.81635	0.705
Var 12h NI row2-row1	0.86767	0.627
Var 36h I row2-row1	1.0457	1
Var 36h NI row2-row1	0.87512
Var 60h I row2-row1	0.83749	0.832
Var 60h NI row2-row1	1.40143	0.904
Time course 0hI-0hNI	0.90934	0.801
Time course 12hI-12hNI	0.96023	0.761
Time course 36hI-36hNI	0.85907	0.312
Time course 60hI-60hNI	0.51458	0.006

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)	0.88189	0.299
transgenic ySAMdc/azygous control (breaker)	1.22322	0.248
transgenic ySAMdc/azygous control (red)	1.03557	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05966	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02733	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83742	1
Manapal/WT (break)	0.70215	0.299
Manapal/WT (red)	1.34735	0.134