Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.10.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89561	0.357
27DAP/17DAP	0.86039	0.606
39DAP/27DAP	0.79077	0.327
41DAP/39DAP	1.30341	0.326
42DAP/41DAP	1.03166	1
43DAP/42DAP	0.93634	0.865
47DAP/43DAP	0.87714	0.599
52DAP/47DAP	1.20851	0.584
57DAP/52DAP	0.9887	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02445	0.567
17DAP/reference	1.00536	0.717
27DAP/reference	1.04304	0.322
39DAP/reference	1.0315	0.524
41DAP/reference	0.99115	0.814
42DAP/reference	0.95521	0.05
43DAP/reference	0.98842	0.785
47DAP/reference	0.93829	0.012
52DAP/reference	1.00202	1
57DAP/reference	0.97545	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99805	0.899
27DAP/17DAP	0.9901	0.943
39DAP/27DAP	0.91409	0.322
41DAP/39DAP	1.00543	0.921
42DAP/41DAP	1.01484	1
43DAP/42DAP	0.9543	0.576
47DAP/43DAP	0.99779	0.998
52DAP/47DAP	0.96863	0.807
57DAP/52DAP	0.99403	0.848
57DAP/7DAP	1.02595	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04171	0.564
17DAP/reference	0.97212	0.192
27DAP/reference	0.97598	0.135
39DAP/reference	0.9766	0.083
41DAP/reference	0.98162	0.449
42DAP/reference	1.17027	0.686
43DAP/reference	0.94602	0.368
47DAP/reference	0.89502	0.128
52DAP/reference	1.00383	1
57DAP/reference	0.98118	0.097

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.041	0.491
17DAP/reference	1.07359	0.052
27DAP/reference	0.99721	0.735
39DAP/reference	0.9025	0.077
41DAP/reference	0.84825	0.041
42DAP/reference	0.96447	0.321
43DAP/reference	0.97038	0.527
47DAP/reference	0.90059	0.032
52DAP/reference	0.90392	0.005
57DAP/reference	0.89963	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13502	0.086
17DAP/reference	1.05088	0.45
27DAP/reference	0.98367	0.657
39DAP/reference	1.00552	0.935
41DAP/reference	1.01438	0.84
42DAP/reference	0.99435	0.816
43DAP/reference	0.95567	0.068
47DAP/reference	0.89456	0.089
52DAP/reference	0.92436	0.284
57DAP/reference	0.91839	0.087

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95935	1
26DAP/20DAP	1.02679	0.931
34DAP/26DAP	1.04049	0.819
51DAP/34DAP	1.05942	0.535
52DAP/51DAP	0.94279	1
53DAP/52DAP	N/A	N/A
55DAP/53DAP	N/A	N/A
57DAP/55DAP	1.03907	0.969
62DAP/57DAP	1.04332	0.723
68DAP/62DAP	1.12546	0.664
68DAP/14DAP	1.1863	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83542	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.79946	0.058
Mature Green Tomato/Ripe Tomato	1.82227	0.752
Immature Eggplant/Mature Eggplant	0.57716	0.062
Ripe Pepper/Ripe Tomato	6.46646	0.258
Mature Eggplant/Ripe Tomato	11.9082	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07192	0.742
1-1-2/M82	1.01935	1
12-2/M82	1.02656
12-4/M82	0.98559	1
1-3/M82	1.11356	0.277
2-1-1/M82	N/A	N/A
2-1/M82	1.09491
2-6/M82	0.98648	1
3-2/M82	0.86223	1
4-1-1/M82	0.97856	1
4-1/M82	0.87938	1
4-3-2/M82	0.99559	1
4-3/M82	0.93672	1
5-3/M82	1.10219	0.572
6-2/M82	0.96043
6-3/M82	N/A	N/A
7-1/M82	1.0719
7-2/M82	1.06777	0.302
9-3-2/M82	0.90832	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.3045
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96664
IL12-4/WTpooled	1.75595
IL1-4/WTpooled	1.50549
WT/WTpooled	1.06809	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	0.91956	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09708	0.692
DC3000/delta hrp 6h	1.04069	1
DC3000/delta hrp 12h	1.01012	1
DC3000/delta hrp 24h	0.96737	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91219	0.053
DC3000 delta B/DC3000 delta AB	0.89508	0.106

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93925	1
Exp 36h	0.74122	0.661
Exp 60h	0.5826	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99824	1
Var 0h	0.91297	0.289
Var 12h I row2-row1	1.00163	1
Var 12h NI row2-row1	0.92993	0.627
Var 36h I row2-row1	1.07447	1
Var 36h NI row2-row1	1.01712	1
Var 60h I row2-row1	1.2156	0.562
Var 60h NI row2-row1	0.96924	1
Time course 0hI-0hNI	1.02486	0.833
Time course 12hI-12hNI	1.01953	0.779
Time course 36hI-36hNI	1.05112	0.128
Time course 60hI-60hNI	0.59797	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)	0.88602	0.32
transgenic ySAMdc/azygous control (breaker)	2.87133	0.248
transgenic ySAMdc/azygous control (red)	1.3117	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00858	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32001	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.32751	0.083
Manapal/WT (break)	4.0212	0.123
Manapal/WT (red)	4.04747	0.126