Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.4.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.48142	0.545
27DAP/17DAP	1.26557	0.845
39DAP/27DAP	0.94295	0.663
41DAP/39DAP	0.98286	0.911
42DAP/41DAP	0.92942	1
43DAP/42DAP	1.1228	1
47DAP/43DAP	0.98485	0.884
52DAP/47DAP	1.03835	0.971
57DAP/52DAP	0.9897	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93081	0.344
17DAP/reference	0.84209	0.074
27DAP/reference	1.00038	0.904
39DAP/reference	0.88827	0.051
41DAP/reference	0.84475	0.085
42DAP/reference	0.9803	0.372
43DAP/reference	1.00541	0.882
47DAP/reference	1.08103	0.34
52DAP/reference	1.15369	0.371
57DAP/reference	1.12911	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.97525	0.23
27DAP/17DAP	0.91305	0.854
39DAP/27DAP	0.81372	0.35
41DAP/39DAP	1.61076	0.025
42DAP/41DAP	0.99011	0.503
43DAP/42DAP	1.19827	0.83
47DAP/43DAP	1.04843	1
52DAP/47DAP	1.77709	0.172
57DAP/52DAP	1.65516	0.053
57DAP/7DAP	1.93356

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01438	0.758
17DAP/reference	1.30842	0.018
27DAP/reference	1.06268	0.664
39DAP/reference	1.33205	0.186
41DAP/reference	1.1567	0.06
42DAP/reference	1.28939	0.1
43DAP/reference	1.03558	1
47DAP/reference	0.91029	0.383
52DAP/reference	1.4964	0.021
57DAP/reference	1.11608	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11185	0.695
17DAP/reference	0.98893	0.711
27DAP/reference	0.9394	0.203
39DAP/reference	1.10662	0.62
41DAP/reference	1.11098	0.587
42DAP/reference	0.94196	0.289
43DAP/reference	0.97865	0.633
47DAP/reference	0.99519	0.678
52DAP/reference	1.03241	0.667
57DAP/reference	0.95907	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09511	0.493
17DAP/reference	1.14815	0.563
27DAP/reference	0.95989	0.691
39DAP/reference	1.43774	0.163
41DAP/reference	1.13391	0.145
42DAP/reference	0.99205	0.816
43DAP/reference	1.00552	1
47DAP/reference	0.977	0.525
52DAP/reference	1.07678	0.952
57DAP/reference	1.03342	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21173	0.966
26DAP/20DAP	1.03126	1
34DAP/26DAP	0.86006	0.841
51DAP/34DAP	2.97338
52DAP/51DAP	1.72875	0.404
53DAP/52DAP	1.36761	0.517
55DAP/53DAP	1.10645	0.955
57DAP/55DAP	0.4676
62DAP/57DAP	0.87003	0.681
68DAP/62DAP	1.5463	0.331
68DAP/14DAP	1.08268	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30575	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.50359	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
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	0.70218	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.63502
IL12-4/WTpooled	0.98114	1
IL1-4/WTpooled	0.99243	1
WT/WTpooled	1.16615	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	1.21994	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	2.09336
DC3000/delta hrp 6h	0.46469
DC3000/delta hrp 12h	2.45206	1
DC3000/delta hrp 24h	0.47862	0.044

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	1.40786	0.693
Exp 60h	1.71262	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92382	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.89705	0.627
Var 12h NI row2-row1	1.12946	1
Var 36h I row2-row1	1.06204	1
Var 36h NI row2-row1	1.09453	1
Var 60h I row2-row1	1.02324	1
Var 60h NI row2-row1	1.09324	1
Time course 0hI-0hNI	0.9035	0.352
Time course 12hI-12hNI	1.03934	0.747
Time course 36hI-36hNI	0.99348	0.718
Time course 60hI-60hNI	0.41619	0.006

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)	1.30344	0.699
transgenic ySAMdc/azygous control (breaker)	0.51606	0.131
transgenic ySAMdc/azygous control (red)	0.83789	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96358	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.44483	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.39157	0.096
Manapal/WT (break)	0.89057	1
Manapal/WT (red)	1.19505	1