Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.20.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92406	0.689
27DAP/17DAP	1.12078	1
39DAP/27DAP	1.22801	0.749
41DAP/39DAP	1.11159	0.17
42DAP/41DAP	0.8991	1
43DAP/42DAP	1.18558	1
47DAP/43DAP	0.94942	0.645
52DAP/47DAP	0.94952	0.875
57DAP/52DAP	1.11145	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8152	0.024
17DAP/reference	0.96061	0.208
27DAP/reference	0.97516	0.595
39DAP/reference	1.02639	0.842
41DAP/reference	0.93294	0.201
42DAP/reference	0.97238	0.268
43DAP/reference	0.99629	0.882
47DAP/reference	1.09821	0.024
52DAP/reference	0.85304	0.062
57DAP/reference	0.91734	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95274	0.484
27DAP/17DAP	0.98179	0.878
39DAP/27DAP	1.10873	0.3
41DAP/39DAP	0.95437	0.849
42DAP/41DAP	0.99938	0.894
43DAP/42DAP	1.00631	1
47DAP/43DAP	1.0348	0.827
52DAP/47DAP	0.99232	0.941
57DAP/52DAP	1.04749	0.726
57DAP/7DAP	1.13211	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13156	0.377
17DAP/reference	1.60026	0.006
27DAP/reference	1.40557	0.008
39DAP/reference	1.64292	0.005
41DAP/reference	1.63909	0.009
42DAP/reference	1.7982	0.006
43DAP/reference	2.07017	0.009
47DAP/reference	1.50219	0.219
52DAP/reference	1.87358	0.007
57DAP/reference	2.35005	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90784	0.145
17DAP/reference	0.9422	0.279
27DAP/reference	0.90808	0.119
39DAP/reference	0.85854	0.11
41DAP/reference	0.94798	0.226
42DAP/reference	0.92394	0.018
43DAP/reference	1.0073	0.831
47DAP/reference	1.23688	0.343
52DAP/reference	0.96705	0.259
57DAP/reference	1.18493	0.075

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16511	0.069
17DAP/reference	1.06776	0.784
27DAP/reference	1.54093	0.023
39DAP/reference	1.55353	0.01
41DAP/reference	1.47732	0.01
42DAP/reference	1.48281	0.026
43DAP/reference	1.45045	0.048
47DAP/reference	1.14379	0.089
52DAP/reference	1.72036	0.036
57DAP/reference	1.08123	0.693

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01767	0.966
26DAP/20DAP	1.04022	0.941
34DAP/26DAP	0.99543	1
51DAP/34DAP	1.33028	0.068
52DAP/51DAP	0.90902	1
53DAP/52DAP	1.01081	0.983
55DAP/53DAP	1.02954	1
57DAP/55DAP	1.02889	0.986
62DAP/57DAP	1.00866	1
68DAP/62DAP	0.91729	0.7
68DAP/14DAP	0.91349	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14695	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.05613	0.039
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	24.8131	0.05
Ripe Pepper/Ripe Tomato	2.22265	0.193
Mature Eggplant/Ripe Tomato	0.33788	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05073	0.877
1-1-2/M82	0.96922	0.958
12-2/M82	0.9953	1
12-4/M82	0.96184	0.33
1-3/M82	1.25365	0.479
2-1-1/M82	0.87915	0.465
2-1/M82	1.00634	1
2-6/M82	0.95281	1
3-2/M82	1.00182
4-1-1/M82	1.11657	1
4-1/M82	0.88766
4-3-2/M82	0.91117
4-3/M82	0.93099	0.72
5-3/M82	0.97783	1
6-2/M82	0.91863	1
6-3/M82	0.99381	0.857
7-1/M82	0.9857	1
7-2/M82	1.04365	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.87763	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10945	1
IL12-4/WTpooled	1.08146	0.785
IL1-4/WTpooled	0.84044
WT/WTpooled	0.95747	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	1.60113	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91549	1
DC3000/delta hrp 6h	0.95303	0.95
DC3000/delta hrp 12h	1.13344	1
DC3000/delta hrp 24h	0.95353	0.618

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23519	0.25
DC3000 delta B/DC3000 delta AB	1.39042	0.113

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23396	1
Exp 36h	1.20888	1
Exp 60h	1.19653	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97002	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.05884	0.736
Var 12h NI row2-row1	1.26561	1
Var 36h I row2-row1	1.1031	1
Var 36h NI row2-row1	0.75884	0.584
Var 60h I row2-row1	0.63963	0.285
Var 60h NI row2-row1	0.80099	0.458
Time course 0hI-0hNI	1.11515	0.719
Time course 12hI-12hNI	1.10607	0.65
Time course 36hI-36hNI	2.11126	0.005
Time course 60hI-60hNI	7.78699	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)	0.65277	0.315
transgenic ySAMdc/azygous control (breaker)	1.07725	0.248
transgenic ySAMdc/azygous control (red)	1.22488	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12213	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73267	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.79094	0.09
Manapal/WT (break)	3.13924	0.381
Manapal/WT (red)	1.18717	0.413