Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.12.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0392	0.863
27DAP/17DAP	1.17318	0.845
39DAP/27DAP	0.96841	0.719
41DAP/39DAP	1.24662	0.134
42DAP/41DAP	1.2417	0.685
43DAP/42DAP	0.89549	0.697
47DAP/43DAP	0.95959	0.84
52DAP/47DAP	1.43774	0.483
57DAP/52DAP	0.89348	0.627

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05449	0.334
17DAP/reference	1.00469	0.787
27DAP/reference	1.0292	0.599
39DAP/reference	0.99313	0.885
41DAP/reference	1.04283	0.187
42DAP/reference	1.03616	0.485
43DAP/reference	1.0257	0.73
47DAP/reference	1.00396	1
52DAP/reference	1.02835	0.453
57DAP/reference	0.94707	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02539	0.797
27DAP/17DAP	0.99578	0.969
39DAP/27DAP	1.05333	0.471
41DAP/39DAP	1.03828	0.861
42DAP/41DAP	0.99242	0.882
43DAP/42DAP	0.97414	0.729
47DAP/43DAP	1.02699	0.772
52DAP/47DAP	0.97152	0.801
57DAP/52DAP	1.02363	0.917
57DAP/7DAP	1.04456	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99318	0.55
17DAP/reference	1.01189	0.574
27DAP/reference	0.99431	0.614
39DAP/reference	1.00753	0.74
41DAP/reference	0.95413	0.146
42DAP/reference	0.98565	0.415
43DAP/reference	0.98715	0.555
47DAP/reference	0.93553	0.383
52DAP/reference	0.97565	0.363
57DAP/reference	0.99606	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05112	0.507
17DAP/reference	1.05809	0.375
27DAP/reference	0.97884	0.537
39DAP/reference	0.94167	0.214
41DAP/reference	0.98215	0.481
42DAP/reference	1.14617	0.089
43DAP/reference	1.01843	0.827
47DAP/reference	1.14713	0.038
52DAP/reference	1.0246	0.667
57DAP/reference	1.06339	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03824	0.433
17DAP/reference	1.0813	0.279
27DAP/reference	0.96862	0.243
39DAP/reference	1.01687	0.483
41DAP/reference	1.00104	1
42DAP/reference	1.01594	0.818
43DAP/reference	1.00973	0.923
47DAP/reference	1.11537	0.127
52DAP/reference	0.97949	0.718
57DAP/reference	0.83461	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01795	0.966
26DAP/20DAP	0.89031	0.512
34DAP/26DAP	1.04462	0.819
51DAP/34DAP	0.9212	0.498
52DAP/51DAP	1.0163	0.925
53DAP/52DAP	0.93014	0.498
55DAP/53DAP	0.96498	0.725
57DAP/55DAP	1.0184	0.975
62DAP/57DAP	1.04894	0.303
68DAP/62DAP	1.14988	0.89
68DAP/14DAP	0.89301	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91545	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.63431	0.167
Mature Green Tomato/Ripe Tomato	1.11277	0.437
Immature Eggplant/Mature Eggplant	1.39826	0.072
Ripe Pepper/Ripe Tomato	0.74511
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	2.39853	0.877
1-1-2/M82	0.98344	1
12-2/M82	0.99275	1
12-4/M82	1.0329	1
1-3/M82	0.90967	0.501
2-1-1/M82	1.26694	0.764
2-1/M82	N/A	N/A
2-6/M82	1.05913	0.594
3-2/M82	1.04465	0.395
4-1-1/M82	0.95442	1
4-1/M82	0.90009	1
4-3-2/M82	0.92765	0.487
4-3/M82	0.88843	1
5-3/M82	1.08139	0.572
6-2/M82	0.85995
6-3/M82	1.01671	1
7-1/M82	0.96475
7-2/M82	0.92239	0.527
9-3-2/M82	0.82514	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87758	0.243
IL2-6/WTpooled	1.18744	0.584
IL7-5/WTpooled	0.71028	1
IL7-3/WTpooled	0.81737	0.31
IL12-4/WTpooled	0.99943	1
IL1-4/WTpooled	0.97824	0.834
WT/WTpooled	1.13084	0.874

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	1.18013	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06607	0.921
DC3000/delta hrp 6h	1.10276	1
DC3000/delta hrp 12h	1.04119	1
DC3000/delta hrp 24h	0.98176	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14718	0.355
DC3000 delta B/DC3000 delta AB	1.01083	0.703

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96748	1
Exp 36h	1.21905	1
Exp 60h	1.15951	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95521	1
Var 0h	0.97298	1
Var 12h I row2-row1	0.95909	0.627
Var 12h NI row2-row1	0.9216	0.713
Var 36h I row2-row1	1.08969	1
Var 36h NI row2-row1	1.04839	1
Var 60h I row2-row1	0.95338	0.832
Var 60h NI row2-row1	1.08746	0.904
Time course 0hI-0hNI	1.06228	0.852
Time course 12hI-12hNI	1.02356	0.818
Time course 36hI-36hNI	1.04757	0.355
Time course 60hI-60hNI	1.06335	0.426

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)	0.91415	0.299
transgenic ySAMdc/azygous control (breaker)	1.23371	0.248
transgenic ySAMdc/azygous control (red)	1.0329	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01022	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20565	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90678	1
Manapal/WT (break)	0.56065	0.299
Manapal/WT (red)	0.84124	0.315