Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.42037	0.452
27DAP/17DAP	1.33501	0.769
39DAP/27DAP	1.16985	0.845
41DAP/39DAP	1.04485	0.949
42DAP/41DAP	1.26212	0.916
43DAP/42DAP	1.04656	0.937
47DAP/43DAP	1.3394	0.542
52DAP/47DAP	1.216	0.784
57DAP/52DAP	1.19787	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95679	0.262
17DAP/reference	1.05878	0.132
27DAP/reference	1.01606	0.863
39DAP/reference	1.07398	0.111
41DAP/reference	0.99436	0.814
42DAP/reference	0.92273	0.014
43DAP/reference	1.01633	0.899
47DAP/reference	0.9584	0.137
52DAP/reference	0.91394	0.21
57DAP/reference	0.96201	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41866	0.414
27DAP/17DAP	0.8455	0.179
39DAP/27DAP	1.11925	0.626
41DAP/39DAP	0.86882	0.547
42DAP/41DAP	0.98659	0.803
43DAP/42DAP	1.01724	1
47DAP/43DAP	1.0453	0.95
52DAP/47DAP	0.84501	0.125
57DAP/52DAP	1.49209	0.424
57DAP/7DAP	1.58881	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74963	0.296
17DAP/reference	1.02319	0.693
27DAP/reference	0.97292	0.571
39DAP/reference	0.99926	0.745
41DAP/reference	1.07234	0.524
42DAP/reference	1.03815	0.828
43DAP/reference	0.85285	0.11
47DAP/reference	0.95737	0.293
52DAP/reference	1.40467	0.076
57DAP/reference	0.96496	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94203	0.532
17DAP/reference	0.94595	0.026
27DAP/reference	0.95975	0.467
39DAP/reference	0.93754	0.274
41DAP/reference	0.86472	0.067
42DAP/reference	0.8866	0.15
43DAP/reference	1.00228	0.748
47DAP/reference	1.01619	0.675
52DAP/reference	1.20401	0.181
57DAP/reference	1.12796	0.097

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20147	0.116
17DAP/reference	0.9436	0.579
27DAP/reference	0.94681
39DAP/reference	1.05634	0.33
41DAP/reference	1.30388	0.077
42DAP/reference	1.17254	0.68
43DAP/reference	1.09643	0.973
47DAP/reference	1.05225	0.388
52DAP/reference	1.13744	0.436
57DAP/reference	0.7805	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05649	0.966
26DAP/20DAP	0.84171	0.317
34DAP/26DAP	0.73604	0.619
51DAP/34DAP	1.56297	0.036
52DAP/51DAP	0.91824	1
53DAP/52DAP	0.83206	0.475
55DAP/53DAP	0.87447	0.489
57DAP/55DAP	1.07191	0.975
62DAP/57DAP	0.9995	1
68DAP/62DAP	1.11418	0.872
68DAP/14DAP	1.10165	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73035	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.11869	0.814
Immature Eggplant/Mature Eggplant	1.73931	0.05
Ripe Pepper/Ripe Tomato	0.98913	1
Mature Eggplant/Ripe Tomato	1.12329	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2137	0.877
1-1-2/M82	1.44493
12-2/M82	1.20203
12-4/M82	1.02451	1
1-3/M82	0.80669	0.378
2-1-1/M82	0.88715	0.565
2-1/M82	N/A	N/A
2-6/M82	0.50285
3-2/M82	1.0084
4-1-1/M82	1.74222
4-1/M82	N/A	N/A
4-3-2/M82	0.66626
4-3/M82	1.55611
5-3/M82	1.17161	1
6-2/M82	0.72976
6-3/M82	N/A	N/A
7-1/M82	1.46279	0.598
7-2/M82	0.98786	1
9-3-2/M82	1.05244	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.62133	0.247
IL2-6/WTpooled	1.01414	1
IL7-5/WTpooled	1.76562	0.75
IL7-3/WTpooled	0.60444	0.298
IL12-4/WTpooled	0.85306	0.581
IL1-4/WTpooled	0.94496	1
WT/WTpooled	0.9925	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	1.09205	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11317	0.894
DC3000/delta hrp 6h	0.92705	0.95
DC3000/delta hrp 12h	1.06823	1
DC3000/delta hrp 24h	0.98831	0.966

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	0.38206

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87182	1
Exp 36h	1.38135	0.693
Exp 60h	1.24811	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02374	1
Var 0h	1.13865	0.98
Var 12h I row2-row1	1.0112	1
Var 12h NI row2-row1	1.77979	1
Var 36h I row2-row1	0.7462	1
Var 36h NI row2-row1	1.15229	0.253
Var 60h I row2-row1	0.74457	0.374
Var 60h NI row2-row1	0.90182	1
Time course 0hI-0hNI	1.10217	0.764
Time course 12hI-12hNI	1.0536	0.654
Time course 36hI-36hNI	1.25502	0.011
Time course 60hI-60hNI	1.95789	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)	0.96498	0.789
transgenic ySAMdc/azygous control (breaker)	1.08932	1
transgenic ySAMdc/azygous control (red)	0.92446	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02321	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85184	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.68995	0.172
Manapal/WT (break)	0.78969	0.333
Manapal/WT (red)	0.96786	0.863