Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06373	0.755
27DAP/17DAP	1.14237	0.845
39DAP/27DAP	0.90243	0.399
41DAP/39DAP	1.06176	0.63
42DAP/41DAP	0.9324	1
43DAP/42DAP	1.08782	0.885
47DAP/43DAP	1.0721	0.584
52DAP/47DAP	0.82775	0.526
57DAP/52DAP	1.14683	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93924	0.224
17DAP/reference	1.01714	0.631
27DAP/reference	1.0261	0.539
39DAP/reference	1.03692	0.326
41DAP/reference	1.00718	0.963
42DAP/reference	0.9948	0.547
43DAP/reference	1.01414	0.787
47DAP/reference	0.98688	0.503
52DAP/reference	0.92588	0.147
57DAP/reference	1.03908	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97616	0.663
27DAP/17DAP	1.00609	1
39DAP/27DAP	0.99597	1
41DAP/39DAP	0.99937	1
42DAP/41DAP	0.96806	0.659
43DAP/42DAP	1.02249	0.382
47DAP/43DAP	0.97092	0.833
52DAP/47DAP	0.94736	0.686
57DAP/52DAP	0.93862	0.304
57DAP/7DAP	0.87114	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78661	0.066
17DAP/reference	0.76559	0.011
27DAP/reference	0.9386
39DAP/reference	0.8658	0.011
41DAP/reference	0.8135	0.01
42DAP/reference	0.77349	0.011
43DAP/reference	0.77801	0.027
47DAP/reference	0.83998	0.128
52DAP/reference	0.85212	0.053
57DAP/reference	0.80633	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96176	0.374
17DAP/reference	0.95322	0.149
27DAP/reference	0.90388	0.081
39DAP/reference	0.9142	0.265
41DAP/reference	0.90477	0.152
42DAP/reference	0.97177	0.392
43DAP/reference	0.95901	0.414
47DAP/reference	1.01752	0.816
52DAP/reference	0.96367	0.131
57DAP/reference	0.99566	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97697	0.526
17DAP/reference	0.9326	0.364
27DAP/reference	0.89263	0.04
39DAP/reference	0.91581	0.069
41DAP/reference	0.91036	0.371
42DAP/reference	0.79699	0.059
43DAP/reference	0.96474	0.503
47DAP/reference	0.98493	0.525
52DAP/reference	1.15173	0.558
57DAP/reference	0.87569	0.105

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95444	1
26DAP/20DAP	1.04136	0.916
34DAP/26DAP	0.99993	1
51DAP/34DAP	1.07181	0.637
52DAP/51DAP	1.04318	0.588
53DAP/52DAP	1.06731	0.882
55DAP/53DAP	0.90822	0.53
57DAP/55DAP	1.18831	0.87
62DAP/57DAP	0.99443	1
68DAP/62DAP	1.00932	1
68DAP/14DAP	1.10728	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97354	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82227	0.39
Mature Green Tomato/Ripe Tomato	0.90119	0.411
Immature Eggplant/Mature Eggplant	1.52304	0.055
Ripe Pepper/Ripe Tomato	0.63779	0.293
Mature Eggplant/Ripe Tomato	0.58854	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05941	0.536
1-1-2/M82	1.02774	1
12-2/M82	1.22975
12-4/M82	0.97303	1
1-3/M82	0.99367
2-1-1/M82	1.01332	1
2-1/M82	1.10508
2-6/M82	1.10924
3-2/M82	0.98877	1
4-1-1/M82	1.0729	1
4-1/M82	0.96841	1
4-3-2/M82	0.83353	0.487
4-3/M82	0.8813	1
5-3/M82	1.04674	1
6-2/M82	1.06029
6-3/M82	1.04465	1
7-1/M82	0.94339	1
7-2/M82	0.92694	0.57
9-3-2/M82	0.91732	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02586	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.9586	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.96231	0.562
WT/WTpooled	N/A	N/A

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	0.87001	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92542	0.941
DC3000/delta hrp 6h	1.10035	0.95
DC3000/delta hrp 12h	0.98193	1
DC3000/delta hrp 24h	1.06824	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13404	0.042
DC3000 delta B/DC3000 delta AB	1.0346	0.579

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04532	1
Exp 36h	1.06739	1
Exp 60h	1.10676	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98115	1
Var 0h	1.07797	0.98
Var 12h I row2-row1	1.0923	0.506
Var 12h NI row2-row1	0.91694	0.627
Var 36h I row2-row1	1.01963	1
Var 36h NI row2-row1	1.01348	1
Var 60h I row2-row1	1.22739	0.562
Var 60h NI row2-row1	1.04336	1
Time course 0hI-0hNI	1.05341	0.852
Time course 12hI-12hNI	0.96967	0.698
Time course 36hI-36hNI	0.92735	0.134
Time course 60hI-60hNI	0.97659	0.646

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)	0.80005	0.297
transgenic ySAMdc/azygous control (breaker)	0.89962	0.49
transgenic ySAMdc/azygous control (red)	1.16417	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99369	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83251	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.82463	1
Manapal/WT (break)	0.54182	0.299
Manapal/WT (red)	0.87182	0.503