Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10024	1
27DAP/17DAP	1.26344	0.89
39DAP/27DAP	0.76371	0.449
41DAP/39DAP	1.15302	0.584
42DAP/41DAP	1.07602	0.941
43DAP/42DAP	1.33344	0.831
47DAP/43DAP	1.30967	0.715
52DAP/47DAP	1.52346	0.506
57DAP/52DAP	1.10265	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9209	0.284
17DAP/reference	1.04197	0.675
27DAP/reference	1.01977	0.909
39DAP/reference	1.08196	0.603
41DAP/reference	1.03563	0.855
42DAP/reference	0.97131	0.305
43DAP/reference	1.12573	0.382
47DAP/reference	1.07261	0.478
52DAP/reference	0.95957	0.427
57DAP/reference	0.91439	0.062

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98517	0.697
27DAP/17DAP	1.06336	0.775
39DAP/27DAP	1.10549	0.57
41DAP/39DAP	0.8695	0.434
42DAP/41DAP	1.04516	1
43DAP/42DAP	0.95866	0.709
47DAP/43DAP	0.81953	0.225
52DAP/47DAP	1.03251	1
57DAP/52DAP	1.09855	0.851
57DAP/7DAP	1.01492	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87643	0.183
17DAP/reference	0.95406	0.338
27DAP/reference	0.91725	0.117
39DAP/reference	0.9196	0.23
41DAP/reference	1.00741	0.709
42DAP/reference	1.09973	0.686
43DAP/reference	0.95845	0.403
47DAP/reference	1.11329	0.822
52DAP/reference	0.91013	0.106
57DAP/reference	0.81055	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35958	0.41
17DAP/reference	0.96209	0.474
27DAP/reference	0.9491	0.381
39DAP/reference	0.89508	0.348
41DAP/reference	0.99797	0.545
42DAP/reference	1.0165	1
43DAP/reference	1.24254	0.116
47DAP/reference	1.09664	0.388
52DAP/reference	1.10391	0.559
57DAP/reference	1.20177	0.2

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88006	0.23
17DAP/reference	0.97714	0.658
27DAP/reference	0.98847	0.624
39DAP/reference	0.95982	0.393
41DAP/reference	0.98691	0.618
42DAP/reference	0.98651	0.816
43DAP/reference	0.98294	0.639
47DAP/reference	1.15212	0.228
52DAP/reference	0.94631	0.573
57DAP/reference	1.16259	0.378

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12521	0.966
26DAP/20DAP	0.81048	0.512
34DAP/26DAP	1.17151	1
51DAP/34DAP	0.78827	0.246
52DAP/51DAP	1.03175	0.939
53DAP/52DAP	1.20691	0.768
55DAP/53DAP	1.12897	0.737
57DAP/55DAP	0.97955	0.911
62DAP/57DAP	0.86183	0.28
68DAP/62DAP	1.46319	0.864
68DAP/14DAP	0.87673

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.69468	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.57688	0.577
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.1827	0.224
Mature Eggplant/Ripe Tomato	0.45121	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04182	1
1-1-2/M82	1.0187	1
12-2/M82	0.99692	1
12-4/M82	1.03038	1
1-3/M82	0.58817	0.378
2-1-1/M82	0.80611
2-1/M82	1.09818
2-6/M82	0.97596	1
3-2/M82	0.91352
4-1-1/M82	1.25848
4-1/M82	1.56199
4-3-2/M82	N/A	N/A
4-3/M82	0.65144
5-3/M82	0.992	1
6-2/M82	0.75936	0.497
6-3/M82	0.97507	1
7-1/M82	0.78943
7-2/M82	0.84947
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.04759	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05875	0.921
DC3000/delta hrp 6h	1.09619
DC3000/delta hrp 12h	1.03543	1
DC3000/delta hrp 24h	0.92458	0.387

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9787	1
Var 0h	1.13581	1
Var 12h I row2-row1	1.3348	0.224
Var 12h NI row2-row1	0.99514	1
Var 36h I row2-row1	1.03661	0.742
Var 36h NI row2-row1	0.52655	1
Var 60h I row2-row1	1.10314	1
Var 60h NI row2-row1	0.99619	1
Time course 0hI-0hNI	1.16403	0.833
Time course 12hI-12hNI	1.20873	0.022
Time course 36hI-36hNI	1.13375	0.008
Time course 60hI-60hNI	0.94562	0.013

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)	1.00646	1
transgenic ySAMdc/azygous control (breaker)	0.94646	0.49
transgenic ySAMdc/azygous control (red)	0.92186	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96804	0.067

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90754	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9827	1
Manapal/WT (break)	0.97297	1
Manapal/WT (red)	1.18757	0.222