Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.34367	0.014
27DAP/17DAP	0.96586	0.966
39DAP/27DAP	0.91175	0.62
41DAP/39DAP	1.25079	0.468
42DAP/41DAP	1.02272	1
43DAP/42DAP	1.03418	1
47DAP/43DAP	1.30674	0.527
52DAP/47DAP	1.19917	0.53
57DAP/52DAP	0.97166	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3736	0.078
17DAP/reference	1.10658	0.585
27DAP/reference	1.02754	0.894
39DAP/reference	1.03196	0.524
41DAP/reference	1.05313	0.963
42DAP/reference	0.88444	0.017
43DAP/reference	0.94073	0.41
47DAP/reference	0.90525	0.055
52DAP/reference	0.81344	0.091
57DAP/reference	1.02558	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.55604	0.044
27DAP/17DAP	1.23249	0.514
39DAP/27DAP	0.88619	0.477
41DAP/39DAP	1.21212	0.663
42DAP/41DAP	0.74932	0.074
43DAP/42DAP	0.91494	0.503
47DAP/43DAP	1.46567	0.508
52DAP/47DAP	1.08231	1
57DAP/52DAP	1.3571	0.405
57DAP/7DAP	1.86709	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05012	0.761
17DAP/reference	1.13106	0.328
27DAP/reference	1.13968	0.131
39DAP/reference	0.92706	0.198
41DAP/reference	1.02253	0.811
42DAP/reference	1.04399	0.534
43DAP/reference	1.0574	0.672
47DAP/reference	1.00101	0.671
52DAP/reference	1.0411	1
57DAP/reference	0.95999	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07056	0.903
17DAP/reference	0.98351	0.611
27DAP/reference	0.74256	0.018
39DAP/reference	0.92357	0.314
41DAP/reference	0.86506	0.205
42DAP/reference	0.90198	0.212
43DAP/reference	0.83948	0.105
47DAP/reference	0.88936	0.064
52DAP/reference	0.94206	0.351
57DAP/reference	0.90135	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97703	0.566
17DAP/reference	0.70909	0.162
27DAP/reference	0.77969	0.257
39DAP/reference	0.9528	0.544
41DAP/reference	1.00192	0.754
42DAP/reference	0.98391	0.816
43DAP/reference	0.99761	0.796
47DAP/reference	0.89028	0.286
52DAP/reference	1.1263	0.457
57DAP/reference	0.97248	0.438

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.29274	1
26DAP/20DAP	0.98323	1
34DAP/26DAP	1.8071	0.819
51DAP/34DAP	0.85508	0.513
52DAP/51DAP	1.04333	1
53DAP/52DAP	1.31249	0.712
55DAP/53DAP	3.30339	0.429
57DAP/55DAP	0.83591
62DAP/57DAP	0.94619	0.871
68DAP/62DAP	1.02672	0.863
68DAP/14DAP	1.10736	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87435	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.68688	0.058
Mature Green Tomato/Ripe Tomato	1.12767	0.632
Immature Eggplant/Mature Eggplant	1.48572	0.05
Ripe Pepper/Ripe Tomato	0.57596
Mature Eggplant/Ripe Tomato	1.23021	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96634	0.673
1-1-2/M82	0.9991	1
12-2/M82	1.74862	1
12-4/M82	1.02345	1
1-3/M82	0.78364	0.378
2-1-1/M82	1.17325	0.457
2-1/M82	0.75153
2-6/M82	0.80183	1
3-2/M82	0.82823
4-1-1/M82	1.1081	1
4-1/M82	1.12088
4-3-2/M82	1.22321
4-3/M82	0.9494	1
5-3/M82	1.00627	1
6-2/M82	0.93064	1
6-3/M82	1.03857	1
7-1/M82	0.92077	0.803
7-2/M82	0.98805	1
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	0.8622	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11957	0.921
DC3000/delta hrp 6h	1.39889	0.672
DC3000/delta hrp 12h	1.00474	1
DC3000/delta hrp 24h	0.87967	0.338

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.15802
DC3000 delta B/DC3000 delta AB	0.95263	0.418

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90309	1
Exp 36h	1.12233	0.693
Exp 60h	0.85722	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01976	1
Var 0h	0.84685	0.457
Var 12h I row2-row1	1.36506	0.506
Var 12h NI row2-row1	0.82857	0.488
Var 36h I row2-row1	1.10696	1
Var 36h NI row2-row1	0.64021	0.347
Var 60h I row2-row1	1.29955	1
Var 60h NI row2-row1	0.95649	1
Time course 0hI-0hNI	0.77765	0.051
Time course 12hI-12hNI	0.82483	0.298
Time course 36hI-36hNI	0.78182	0.15
Time course 60hI-60hNI	0.27909	0.008

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)	1.22897	0.261
transgenic ySAMdc/azygous control (breaker)	0.75264	0.15
transgenic ySAMdc/azygous control (red)	1.01397	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99176	0.737

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7716	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.56374	1
Manapal/WT (red)	0.98667	0.863