Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9014	0.486
27DAP/17DAP	0.88217	0.791
39DAP/27DAP	0.80544	0.537
41DAP/39DAP	1.71071	0.339
42DAP/41DAP	1.06647	1
43DAP/42DAP	1.00333	0.94
47DAP/43DAP	1.09496	0.68
52DAP/47DAP	0.94499	0.74
57DAP/52DAP	1.03336	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03661	0.76
17DAP/reference	0.89137	0.474
27DAP/reference	0.98912	0.779
39DAP/reference	0.96722	0.541
41DAP/reference	0.9477	0.667
42DAP/reference	0.89661	0.196
43DAP/reference	0.90425	0.594
47DAP/reference	0.73454	0.083
52DAP/reference	0.99366	0.73
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97825	0.716
27DAP/17DAP	1.24458	0.377
39DAP/27DAP	1.01486	0.862
41DAP/39DAP	0.9122	0.861
42DAP/41DAP	1.10821	0.927
43DAP/42DAP	1.0995	0.627
47DAP/43DAP	1.02333	0.973
52DAP/47DAP	1.01089	0.975
57DAP/52DAP	1.00499	0.907
57DAP/7DAP	0.70036	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00416	1
17DAP/reference	0.94198	0.253
27DAP/reference	1.04833	0.804
39DAP/reference	0.78219	0.056
41DAP/reference	0.81091	0.116
42DAP/reference	0.71359	0.012
43DAP/reference	0.85604	0.145
47DAP/reference	0.92264	0.383
52DAP/reference	0.98496	0.571
57DAP/reference	1.21902	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02491	0.842
17DAP/reference	1.04867	0.459
27DAP/reference	0.88956	0.16
39DAP/reference	0.78018	0.036
41DAP/reference	0.85984	0.059
42DAP/reference	0.81113	0.073
43DAP/reference	1.0548	0.745
47DAP/reference	0.95891	0.311
52DAP/reference	0.99286	0.619
57DAP/reference	0.98453	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74053	0.048
17DAP/reference	1.09024	0.217
27DAP/reference	0.964	0.465
39DAP/reference	0.98743	0.643
41DAP/reference	0.94304	0.371
42DAP/reference	0.76859	0.071
43DAP/reference	0.88869	0.305
47DAP/reference	0.96909	0.525
52DAP/reference	0.89519	0.327
57DAP/reference	0.60274	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87542	0.541
26DAP/20DAP	0.8384	0.512
34DAP/26DAP	0.66672	0.294
51DAP/34DAP	1.49376	0.473
52DAP/51DAP	1.09307	0.821
53DAP/52DAP	1.14365	0.697
55DAP/53DAP	1.00039	0.886
57DAP/55DAP	1.26638	1
62DAP/57DAP	1.38609	0.303
68DAP/62DAP	1.15238	0.899
68DAP/14DAP	0.97033	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89324	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95625	0.591
Mature Green Tomato/Ripe Tomato	0.92301	0.446
Immature Eggplant/Mature Eggplant	1.64017
Ripe Pepper/Ripe Tomato	1.07259	1
Mature Eggplant/Ripe Tomato	0.95799	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89377	0.536
1-1-2/M82	0.98618	1
12-2/M82	0.9975
12-4/M82	0.89717	1
1-3/M82	0.84813	0.378
2-1-1/M82	1.19938	0.764
2-1/M82	N/A	N/A
2-6/M82	1.13685	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.04822	1
4-1/M82	1.07244	0.853
4-3-2/M82	1.03181	1
4-3/M82	0.94007	1
5-3/M82	0.93925	1
6-2/M82	N/A	N/A
6-3/M82	1.18	1
7-1/M82	1.06599
7-2/M82	0.97906	1
9-3-2/M82	0.70635	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.21306	0.365
IL2-6/WTpooled	1.12999	0.46
IL7-5/WTpooled	0.76533
IL7-3/WTpooled	1.06819	1
IL12-4/WTpooled	1.28533	0.673
IL1-4/WTpooled	0.97917	0.834
WT/WTpooled	0.99114	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	1.2589

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00762	1
DC3000/delta hrp 6h	0.81125	0.95
DC3000/delta hrp 12h	1.13571	1
DC3000/delta hrp 24h	0.91806	0.194

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.43788	0.077
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	0.88032	1
Exp 36h	1.14749	1
Exp 60h	1.04062	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92243	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.34434	0.272
Var 12h NI row2-row1	0.84799	0.427
Var 36h I row2-row1	0.81757	0.805
Var 36h NI row2-row1	1.05955	1
Var 60h I row2-row1	1.2082	0.543
Var 60h NI row2-row1	0.93375	1
Time course 0hI-0hNI	1.14212	0.833
Time course 12hI-12hNI	0.99145	0.978
Time course 36hI-36hNI	0.87126	0.159
Time course 60hI-60hNI	1.0447	0.673

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)	1.27003	0.212
transgenic ySAMdc/azygous control (breaker)	1.6186	0.178
transgenic ySAMdc/azygous control (red)	1.05078	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98636	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03681	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.22619	0.14
Manapal/WT (break)	0.95232	1
Manapal/WT (red)	0.99475	1