Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.3.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43455	0.303
27DAP/17DAP	1.3081	0.723
39DAP/27DAP	0.89196	0.652
41DAP/39DAP	0.75922	0.286
42DAP/41DAP	1.03545	1
43DAP/42DAP	0.92885	0.833
47DAP/43DAP	1.23994	0.444
52DAP/47DAP	0.80148	0.562
57DAP/52DAP	1.50302	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83901	0.217
17DAP/reference	0.75934	0.368
27DAP/reference	0.82335	0.295
39DAP/reference	0.87063	0.292
41DAP/reference	0.88865	0.267
42DAP/reference	0.87903	0.046
43DAP/reference	1.20572	0.758
47DAP/reference	0.70106	0.09
52DAP/reference	0.98945	0.58
57DAP/reference	0.54113

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83848	0.064
27DAP/17DAP	1.05981	0.798
39DAP/27DAP	1.03817	0.751
41DAP/39DAP	1.14956	0.748
42DAP/41DAP	0.95654	0.649
43DAP/42DAP	0.99145	0.96
47DAP/43DAP	0.92712	0.525
52DAP/47DAP	0.99786	0.941
57DAP/52DAP	0.98379	0.789
57DAP/7DAP	1.1647	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96275	0.183
17DAP/reference	0.86212	0.012
27DAP/reference	0.81065	0.01
39DAP/reference	0.91022	0.039
41DAP/reference	0.88824	0.058
42DAP/reference	0.89093	0.178
43DAP/reference	0.80185	0.011
47DAP/reference	0.9743	0.671
52DAP/reference	0.75074	0.015
57DAP/reference	0.74931	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98078	0.786
17DAP/reference	0.98656	0.642
27DAP/reference	0.94856	0.423
39DAP/reference	1.00401	0.661
41DAP/reference	0.97705	0.519
42DAP/reference	0.97585	0.482
43DAP/reference	0.87745	0.035
47DAP/reference	0.93743	0.071
52DAP/reference	1.05602	1
57DAP/reference	0.93752	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94571	0.335
17DAP/reference	1.02066	0.814
27DAP/reference	0.79795	0.027
39DAP/reference	0.84117	0.013
41DAP/reference	0.92179	0.167
42DAP/reference	0.86314	0.287
43DAP/reference	0.96469	0.523
47DAP/reference	0.98024	0.525
52DAP/reference	0.64274	0.074
57DAP/reference	1.2473	0.362

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40454	0.966
26DAP/20DAP	0.77388	0.317
34DAP/26DAP	0.91514	0.763
51DAP/34DAP	1.00037	0.917
52DAP/51DAP	0.87043	1
53DAP/52DAP	1.01899	0.944
55DAP/53DAP	1.02238	0.955
57DAP/55DAP	1.0058	0.921
62DAP/57DAP	1.50891
68DAP/62DAP	0.93806	0.81
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09249	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.50107
Mature Green Tomato/Ripe Tomato	2.41825	0.015
Immature Eggplant/Mature Eggplant	0.54656	0.1
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	7.97973	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03001
1-1-2/M82	1.22004
12-2/M82	N/A	N/A
12-4/M82	1.108	1
1-3/M82	N/A	N/A
2-1-1/M82	0.86527
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
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	1.03226
5-3/M82	1.02459	1
6-2/M82	N/A	N/A
6-3/M82	0.94744
7-1/M82	1.21541
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99631	1
IL2-6/WTpooled	1.22416	0.531
IL7-5/WTpooled	1.1406	0.792
IL7-3/WTpooled	0.91617	0.418
IL12-4/WTpooled	0.86308	0.581
IL1-4/WTpooled	1.02081	1
WT/WTpooled	0.95283	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	1.10793	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9274	1
DC3000/delta hrp 6h	1.24037	1
DC3000/delta hrp 12h	0.88394	1
DC3000/delta hrp 24h	2.21012	0.567

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	0.79532

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86654	1
Exp 36h	0.58824	0.406
Exp 60h	0.70315	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03172	1
Var 0h	0.56852	0.936
Var 12h I row2-row1	1.14801	0.224
Var 12h NI row2-row1	0.94873	0.82
Var 36h I row2-row1	0.99532	1
Var 36h NI row2-row1	0.83166	0.522
Var 60h I row2-row1	0.97326
Var 60h NI row2-row1	1.04062	1
Time course 0hI-0hNI	1.10613	0.799
Time course 12hI-12hNI	1.15921	0.554
Time course 36hI-36hNI	1.18536	0.016
Time course 60hI-60hNI	1.84888	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)	1.05102	0.798
transgenic ySAMdc/azygous control (breaker)	0.59664	0.132
transgenic ySAMdc/azygous control (red)	1.17093	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99077	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98046	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70887	0.172
Manapal/WT (break)	1.1296	1
Manapal/WT (red)	1.28701	0.413