Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.15.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.22981	0.014
27DAP/17DAP	0.76584	0.398
39DAP/27DAP	0.7896	0.286
41DAP/39DAP	1.77282	0.293
42DAP/41DAP	1.49785	0.832
43DAP/42DAP	0.8528	0.613
47DAP/43DAP	0.79598	0.407
52DAP/47DAP	1.44115	0.493
57DAP/52DAP	0.73768	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96487	0.476
17DAP/reference	0.87353	0.111
27DAP/reference	0.96676	0.567
39DAP/reference	0.94408	0.261
41DAP/reference	0.75096	0.018
42DAP/reference	0.88467	0.035
43DAP/reference	0.87879	0.088
47DAP/reference	0.90484	0.083
52DAP/reference	1.02451	0.768
57DAP/reference	1.31185	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.24175	0.021
27DAP/17DAP	0.97533	0.887
39DAP/27DAP	1.06907	0.611
41DAP/39DAP	1.03017	1
42DAP/41DAP	0.95432	0.641
43DAP/42DAP	1.02592	1
47DAP/43DAP	1.01218	1
52DAP/47DAP	1.10414	0.718
57DAP/52DAP	1.09751	0.662
57DAP/7DAP	0.41978	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39023	0.038
17DAP/reference	1.11042	0.134
27DAP/reference	0.91268	0.039
39DAP/reference	0.89678	0.073
41DAP/reference	0.9289	0.16
42DAP/reference	0.83122	0.019
43DAP/reference	0.86453	0.047
47DAP/reference	1.05452	0.965
52DAP/reference	0.84994	0.04
57DAP/reference	0.80146	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22043	0.238
17DAP/reference	0.77185	0.083
27DAP/reference	0.82531	0.069
39DAP/reference	0.84576	0.038
41DAP/reference	0.96732	0.441
42DAP/reference	1.07354	0.488
43DAP/reference	0.82347	0.077
47DAP/reference	1.03964	0.712
52DAP/reference	0.85337	0.009
57DAP/reference	0.70732	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31037	0.072
17DAP/reference	0.96324	0.537
27DAP/reference	1.05272	0.596
39DAP/reference	0.91985	0.029
41DAP/reference	0.91234	0.096
42DAP/reference	0.94304	0.445
43DAP/reference	0.87718	0.143
47DAP/reference	0.98399	0.525
52DAP/reference	0.88963	0.268
57DAP/reference	1.64084	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97681	1
26DAP/20DAP	1.59666	0.288
34DAP/26DAP	0.5129	0.06
51DAP/34DAP	0.37422	0.049
52DAP/51DAP	1.11471	0.565
53DAP/52DAP	0.97135	0.868
55DAP/53DAP	0.86151	0.05
57DAP/55DAP	0.93173	0.67
62DAP/57DAP	1.40257	0.868
68DAP/62DAP	1.61254	0.066
68DAP/14DAP	1.18836	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.45525	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.59777	1
Mature Green Tomato/Ripe Tomato	0.75299	0.487
Immature Eggplant/Mature Eggplant	0.78343	0.072
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	28.6896	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94891	0.944
1-1-2/M82	0.93041	1
12-2/M82	1.3406	1
12-4/M82	0.91294	1
1-3/M82	0.95568	1
2-1-1/M82	1.06465
2-1/M82	N/A	N/A
2-6/M82	0.97208	1
3-2/M82	1.00178
4-1-1/M82	1.01281	1
4-1/M82	1.18108
4-3-2/M82	0.91769
4-3/M82	1.10628
5-3/M82	0.93919	1
6-2/M82	0.87292	1
6-3/M82	1.12759	1
7-1/M82	0.93708	0.803
7-2/M82	0.95984	1
9-3-2/M82	0.93347

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79106	0.243
IL2-6/WTpooled	1.08625	0.415
IL7-5/WTpooled	0.83882	1
IL7-3/WTpooled	0.93771	1
IL12-4/WTpooled	1.09136	0.673
IL1-4/WTpooled	0.99737	1
WT/WTpooled	1.05658	0.818

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	1.0626

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02388	0.921
DC3000/delta hrp 6h	1.46706	1
DC3000/delta hrp 12h	1.26501	1
DC3000/delta hrp 24h	1.01332	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03575	0.648
DC3000 delta B/DC3000 delta AB	1.21596	0.284

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87949	1
Exp 36h	2.60445	1
Exp 60h	1.5482	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03038	1
Var 0h	1.02972	1
Var 12h I row2-row1	1.34486	0.473
Var 12h NI row2-row1	0.8886	0.713
Var 36h I row2-row1	0.7514	0.438
Var 36h NI row2-row1	1.47712	1
Var 60h I row2-row1	1.18399	1
Var 60h NI row2-row1	1.22781	0.904
Time course 0hI-0hNI	0.9912	1
Time course 12hI-12hNI	1.06663	0.654
Time course 36hI-36hNI	1.02394	0.768
Time course 60hI-60hNI	1.57607	0.012

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)	0.98322	0.862
transgenic ySAMdc/azygous control (breaker)	0.85229	0.173
transgenic ySAMdc/azygous control (red)	0.96887	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02224	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7005	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.52078	1
Manapal/WT (break)	1.02305	1
Manapal/WT (red)	1.23886	0.413