Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.38117	0.017
27DAP/17DAP	1.24482	0.89
39DAP/27DAP	1.12698	0.922
41DAP/39DAP	0.93036	0.666
42DAP/41DAP	0.96311	1
43DAP/42DAP	1.14944	1
47DAP/43DAP	1.30001	0.689
52DAP/47DAP	0.68499	0.362
57DAP/52DAP	0.97135	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68088	0.045
17DAP/reference	0.53246	0.009
27DAP/reference	0.75974	0.119
39DAP/reference	0.69753	0.07
41DAP/reference	0.52368	0.009
42DAP/reference	0.78895	0.01
43DAP/reference	0.85141	0.234
47DAP/reference	0.85398	0.083
52DAP/reference	0.94097	0.371
57DAP/reference	1.13503	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88321	0.428
27DAP/17DAP	1.37042	0.378
39DAP/27DAP	0.84981	0.412
41DAP/39DAP	1.21645	0.781
42DAP/41DAP	1.22609	0.999
43DAP/42DAP	0.93499	0.665
47DAP/43DAP	1.28343	0.69
52DAP/47DAP	1.52057	0.422
57DAP/52DAP	1.10532	0.869
57DAP/7DAP	2.0241	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82407	0.108
17DAP/reference	0.85908	0.094
27DAP/reference	0.95828	0.402
39DAP/reference	0.81506	0.021
41DAP/reference	0.85201	0.029
42DAP/reference	0.87688	0.16
43DAP/reference	0.70799	0.01
47DAP/reference	0.83671	0.222
52DAP/reference	0.72307	0.011
57DAP/reference	0.78252	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68632	0.009
17DAP/reference	0.48379	0.003
27DAP/reference	0.68016	0.019
39DAP/reference	0.77215	0.077
41DAP/reference	0.77193	0.053
42DAP/reference	0.87036	0.189
43DAP/reference	0.58335	0.002
47DAP/reference	0.69568	0.01
52DAP/reference	0.68016	0.004
57DAP/reference	0.66396	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96775	0.526
17DAP/reference	0.79969	0.144
27DAP/reference	0.79578	0.044
39DAP/reference	0.83122	0.017
41DAP/reference	0.88973	0.209
42DAP/reference	0.94281	0.445
43DAP/reference	0.87843	0.197
47DAP/reference	0.76056	0.076
52DAP/reference	0.95888	0.623
57DAP/reference	1.17531	0.135

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22606	0.966
26DAP/20DAP	1.03265	1
34DAP/26DAP	1.68838	1
51DAP/34DAP	1.17967	0.901
52DAP/51DAP	1.41323	0.431
53DAP/52DAP	0.92544	0.684
55DAP/53DAP	0.80772	0.604
57DAP/55DAP	0.9939	0.891
62DAP/57DAP	1.19344	0.935
68DAP/62DAP	1.91792	0.089
68DAP/14DAP	1.6044	0.053

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65712	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	15.2801	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	219.294

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	1.41563
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.46721
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.89416
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	0.55393	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87888	1
DC3000/delta hrp 6h	1.3904	0.857
DC3000/delta hrp 12h	0.40572	1
DC3000/delta hrp 24h	8.17677	0.029

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.34909	0.049
DC3000 delta B/DC3000 delta AB	1.18925	0.23

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.63585	1
Exp 36h	1.24767	1
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	1.0474	1
Var 0h	1.01093	1
Var 12h I row2-row1	1.60898	0.654
Var 12h NI row2-row1	1.32538	1
Var 36h I row2-row1	0.41441	1
Var 36h NI row2-row1	0.39138
Var 60h I row2-row1	1.28945	1
Var 60h NI row2-row1	0.91513	1
Time course 0hI-0hNI	0.52742	0.044
Time course 12hI-12hNI	0.99378	0.994
Time course 36hI-36hNI	1.27035	0.418
Time course 60hI-60hNI	0.63446	0.047

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)	1.12993	1
transgenic ySAMdc/azygous control (red)	1.11719	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96555	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92797	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13645	0.14
Manapal/WT (break)	0.94675	1
Manapal/WT (red)	N/A	N/A