Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01245	0.901
27DAP/17DAP	0.91431	0.807
39DAP/27DAP	1.17092	0.699
41DAP/39DAP	1.61029	0.338
42DAP/41DAP	1.02292	1
43DAP/42DAP	0.8151	0.686
47DAP/43DAP	0.80271	0.42
52DAP/47DAP	1.86688	0.228
57DAP/52DAP	0.81775	0.748

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80054	0.024
17DAP/reference	0.92983	0.138
27DAP/reference	0.937	0.194
39DAP/reference	0.98257	0.816
41DAP/reference	0.96902	0.542
42DAP/reference	0.87818	0.029
43DAP/reference	0.9811	0.708
47DAP/reference	0.89225	0.021
52DAP/reference	1.01039	1
57DAP/reference	1.20291	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91385	0.509
27DAP/17DAP	0.93476	0.854
39DAP/27DAP	1.13582	0.492
41DAP/39DAP	1.17825	0.88
42DAP/41DAP	0.99781	0.835
43DAP/42DAP	1.09267	0.273
47DAP/43DAP	1.06317	0.779
52DAP/47DAP	1.04972	0.927
57DAP/52DAP	0.92923	0.584
57DAP/7DAP	1.42501	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83685	0.069
17DAP/reference	0.82655	0.017
27DAP/reference	0.89297	0.019
39DAP/reference	0.82052	0.014
41DAP/reference	0.85622	0.07
42DAP/reference	0.91027	0.026
43DAP/reference	0.81044	0.016
47DAP/reference	0.89663	0.222
52DAP/reference	0.78816	0.04
57DAP/reference	0.80047	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02154	1
17DAP/reference	0.83373	0.149
27DAP/reference	0.81136	0.079
39DAP/reference	0.90973	0.214
41DAP/reference	0.95072	0.373
42DAP/reference	1.01875	1
43DAP/reference	1.11155	0.441
47DAP/reference	1.03506	0.775
52DAP/reference	1.04179	0.528
57DAP/reference	0.90999	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90807	0.082
17DAP/reference	1.0217	0.784
27DAP/reference	0.99987	0.883
39DAP/reference	0.99531	0.755
41DAP/reference	1.00435	0.826
42DAP/reference	0.98067	0.671
43DAP/reference	0.92352	0.179
47DAP/reference	0.9394	0.315
52DAP/reference	0.92836	0.455
57DAP/reference	1.08736	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16114	0.966
26DAP/20DAP	0.7438	0.228
34DAP/26DAP	1.34404	0.19
51DAP/34DAP	1.06613	0.692
52DAP/51DAP	1.09856	0.439
53DAP/52DAP	0.91145	0.621
55DAP/53DAP	1.21453	0.17
57DAP/55DAP	0.90897	0.644
62DAP/57DAP	2.44839	0.678
68DAP/62DAP	0.9915	0.81
68DAP/14DAP	1.70601	0.061

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85383	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.10583	0.948
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.3014	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91281	0.944
1-1-2/M82	0.76629	1
12-2/M82	1.0268
12-4/M82	0.99722	1
1-3/M82	0.75845	0.378
2-1-1/M82	0.99426	1
2-1/M82	1.22984
2-6/M82	1.02321	1
3-2/M82	0.81614
4-1-1/M82	1.04969	1
4-1/M82	0.67112	1
4-3-2/M82	0.89461	1
4-3/M82	0.93231	0.611
5-3/M82	0.88567	0.642
6-2/M82	0.97373	1
6-3/M82	1.05129	1
7-1/M82	1.16933
7-2/M82	0.9104	1
9-3-2/M82	0.79311	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.44919	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.85004	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.90717
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	1.05023	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0542	0.921
DC3000/delta hrp 6h	0.60508
DC3000/delta hrp 12h	0.97574	1
DC3000/delta hrp 24h	0.92521	0.455

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	0.85312	0.261

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	1.2836	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92271	1
Var 0h	0.75058	1
Var 12h I row2-row1	1.06683	0.443
Var 12h NI row2-row1	0.88471	0.713
Var 36h I row2-row1	0.95919	1
Var 36h NI row2-row1	0.91169	0.743
Var 60h I row2-row1	1.37609	1
Var 60h NI row2-row1	1.13066	1
Time course 0hI-0hNI	1.12177	0.662
Time course 12hI-12hNI	1.12726	0.55
Time course 36hI-36hNI	1.27724	0.063
Time course 60hI-60hNI	1.39546	0.033

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.4003	0.125
transgenic ySAMdc/azygous control (red)	1.33171	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00192	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.4756	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.25637	0.307
Manapal/WT (break)	1.88329	1
Manapal/WT (red)	0.34777	0.181