Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14542	0.827
27DAP/17DAP	1.93816	0.263
39DAP/27DAP	1.22379	0.603
41DAP/39DAP	1.40571	0.261
42DAP/41DAP	1.92916	0.03
43DAP/42DAP	0.69803	0.468
47DAP/43DAP	1.37348	0.474
52DAP/47DAP	0.76607	0.466
57DAP/52DAP	1.20905	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23621	0.037
17DAP/reference	1.22948	0.014
27DAP/reference	0.95969	0.538
39DAP/reference	0.99054	0.841
41DAP/reference	1.03786	0.808
42DAP/reference	0.88646	0.034
43DAP/reference	0.89492	0.098
47DAP/reference	1.08012	0.11
52DAP/reference	1.12552	0.013
57DAP/reference	1.09348	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25835	0.064
27DAP/17DAP	0.84851	0.648
39DAP/27DAP	1.79745	0.043
41DAP/39DAP	0.50989	0.018
42DAP/41DAP	1.86561	0.002
43DAP/42DAP	1.85909	0.013
47DAP/43DAP	0.95891	0.764
52DAP/47DAP	1.00225	0.975
57DAP/52DAP	1.11888	0.726
57DAP/7DAP	3.80492	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13548	0.332
17DAP/reference	0.97967	0.518
27DAP/reference	1.15852	0.246
39DAP/reference	1.14392	0.12
41DAP/reference	0.91915	0.02
42DAP/reference	1.07257	0.889
43DAP/reference	0.90521	0.121
47DAP/reference	1.14196	0.395
52DAP/reference	0.95682	0.332
57DAP/reference	0.94108	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02605	0.993
17DAP/reference	1.0754	0.33
27DAP/reference	1.00723	1
39DAP/reference	1.12863	0.164
41DAP/reference	1.16346	0.204
42DAP/reference	0.97221	0.482
43DAP/reference	1.06189	0.479
47DAP/reference	1.0912	0.343
52DAP/reference	1.01476	0.882
57DAP/reference	0.8323	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02855	0.882
17DAP/reference	1.06805	0.488
27DAP/reference	0.83315	0.039
39DAP/reference	0.90126	0.179
41DAP/reference	0.9369	0.417
42DAP/reference	1.07027	0.658
43DAP/reference	0.99369	0.738
47DAP/reference	0.86471	0.052
52DAP/reference	0.87102	0.22
57DAP/reference	1.34134	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26675	0.945
26DAP/20DAP	1.06744	1
34DAP/26DAP	0.74936	0.412
51DAP/34DAP	1.02227	1
52DAP/51DAP	0.98409	1
53DAP/52DAP	0.7898	0.254
55DAP/53DAP	1.29469	0.562
57DAP/55DAP	1.46753	0.195
62DAP/57DAP	1.13001	0.902
68DAP/62DAP	0.98105	0.863
68DAP/14DAP	1.00176	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.6692	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.17043	0.058
Mature Green Tomato/Ripe Tomato	0.75628	0.132
Immature Eggplant/Mature Eggplant	2.00715	0.05
Ripe Pepper/Ripe Tomato	0.8096	0.293
Mature Eggplant/Ripe Tomato	1.63028	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98356	0.605
1-1-2/M82	1.14004	1
12-2/M82	0.88605	0.862
12-4/M82	0.84999	0.619
1-3/M82	1.49464
2-1-1/M82	0.90105
2-1/M82	N/A	N/A
2-6/M82	0.71747
3-2/M82	1.33423	0.717
4-1-1/M82	0.81833	1
4-1/M82	1.90541
4-3-2/M82	1.21144	0.508
4-3/M82	1.20908	1
5-3/M82	1.12438	0.427
6-2/M82	0.68287
6-3/M82	0.98746	1
7-1/M82	0.9465
7-2/M82	0.83095	0.444
9-3-2/M82	1.41056	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95666
IL2-6/WTpooled	0.9776	1
IL7-5/WTpooled	1.02868	1
IL7-3/WTpooled	1.01935	1
IL12-4/WTpooled	0.79534	0.581
IL1-4/WTpooled	0.98853	0.834
WT/WTpooled	0.88031	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	1.12462	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01259	1
DC3000/delta hrp 6h	1.02091	1
DC3000/delta hrp 12h	1.33354	1
DC3000/delta hrp 24h	0.9539	0.654

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.71447	1
Exp 36h	0.88219	0.539
Exp 60h	1.01225	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98739	1
Var 0h	1.01873	1
Var 12h I row2-row1	1.39749	0.544
Var 12h NI row2-row1	0.92297	0.906
Var 36h I row2-row1	0.8544	0.805
Var 36h NI row2-row1	0.80763	1
Var 60h I row2-row1	0.88898	0.285
Var 60h NI row2-row1	1.21068	0.904
Time course 0hI-0hNI	1.10317	0.297
Time course 12hI-12hNI	0.95221	0.687
Time course 36hI-36hNI	0.94376	0.317
Time course 60hI-60hNI	1.42398	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)	1.03241	0.541
transgenic ySAMdc/azygous control (breaker)	0.81396	0.173
transgenic ySAMdc/azygous control (red)	0.83439	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.34741	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94443	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.71216	0.172
Manapal/WT (break)	0.87573	1
Manapal/WT (red)	0.81623	0.181