Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.17.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26734	0.681
27DAP/17DAP	1.1397	0.966
39DAP/27DAP	6.18657	0.028
41DAP/39DAP	1.0683	0.905
42DAP/41DAP	1.45909	0.877
43DAP/42DAP	1.29796	0.885
47DAP/43DAP	0.38086	0.047
52DAP/47DAP	0.57065	0.098
57DAP/52DAP	1.34242	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97674	0.526
17DAP/reference	1.04703	0.294
27DAP/reference	1.02222	0.587
39DAP/reference	1.02962	0.57
41DAP/reference	0.97002	0.667
42DAP/reference	0.95854	0.124
43DAP/reference	1.00847	0.957
47DAP/reference	0.9515	0.161
52DAP/reference	0.92651	0.055
57DAP/reference	0.95387	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.71771
27DAP/17DAP	1.46244	0.905
39DAP/27DAP	0.84613	0.54
41DAP/39DAP	2.30413
42DAP/41DAP	1.02347	0.63
43DAP/42DAP	1.39396	0.446
47DAP/43DAP	1.05313	0.95
52DAP/47DAP	0.96795	0.893
57DAP/52DAP	0.8744	0.528
57DAP/7DAP	1.95653	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93067	0.095
17DAP/reference	0.93638	0.014
27DAP/reference	0.97711	0.248
39DAP/reference	0.98889	0.411
41DAP/reference	0.97684	0.271
42DAP/reference	0.9872	0.554
43DAP/reference	0.93337	0.082
47DAP/reference	0.93691	0.293
52DAP/reference	0.90526	0.097
57DAP/reference	0.90902	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01155	0.794
17DAP/reference	0.95179	0.195
27DAP/reference	0.93883	0.282
39DAP/reference	1.0143	1
41DAP/reference	0.92107	0.152
42DAP/reference	0.95894	0.261
43DAP/reference	0.92393	0.14
47DAP/reference	0.94482	0.159
52DAP/reference	0.95604	0.143
57DAP/reference	1.05492	0.244

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97014	0.087
17DAP/reference	0.9419	0.398
27DAP/reference	1.0077	0.967
39DAP/reference	0.98902	0.643
41DAP/reference	0.95793	0.331
42DAP/reference	0.86753	0.172
43DAP/reference	0.94573	0.267
47DAP/reference	0.91905	0.139
52DAP/reference	0.93418	0.223
57DAP/reference	0.71528	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9885	1
26DAP/20DAP	1.2349
34DAP/26DAP	1.60782	0.819
51DAP/34DAP	0.67243	0.333
52DAP/51DAP	1.10789
53DAP/52DAP	1.36084	0.806
55DAP/53DAP	0.92328	0.663
57DAP/55DAP	1.33328	0.559
62DAP/57DAP	0.86632	0.871
68DAP/62DAP	1.2254	0.539
68DAP/14DAP	1.24054	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.67285	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.26186	0.067
Mature Green Tomato/Ripe Tomato	0.58571	0.017
Immature Eggplant/Mature Eggplant	1.7802	0.05
Ripe Pepper/Ripe Tomato	4.15443	1
Mature Eggplant/Ripe Tomato	0.66672	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04568	1
1-1-2/M82	2.42797	1
12-2/M82	1.0255	1
12-4/M82	0.97587
1-3/M82	1.01366	1
2-1-1/M82	1.23928	0.457
2-1/M82	0.95931	1
2-6/M82	0.99402	1
3-2/M82	1.31109	0.84
4-1-1/M82	1.26139	1
4-1/M82	1.10987
4-3-2/M82	2.86742	0.508
4-3/M82	1.1839	1
5-3/M82	1.00283	1
6-2/M82	1.12543	1
6-3/M82	1.07877	1
7-1/M82	1.09002	0.539
7-2/M82	1.02211	1
9-3-2/M82	2.99786

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8092	0.243
IL2-6/WTpooled	1.25615	0.46
IL7-5/WTpooled	0.3124
IL7-3/WTpooled	1.25297	1
IL12-4/WTpooled	1.1947	0.546
IL1-4/WTpooled	0.80644
WT/WTpooled	1.08987	0.999

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	2.32584

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9759	1
DC3000/delta hrp 6h	0.8255	0.95
DC3000/delta hrp 12h	1.23225	1
DC3000/delta hrp 24h	1.24264	0.069

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	1.17884	1
Exp 36h	N/A	N/A
Exp 60h	1.66754	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93039	1
Var 0h	0.32955
Var 12h I row2-row1	1.07372
Var 12h NI row2-row1	0.77609	1
Var 36h I row2-row1	1.54541	0.339
Var 36h NI row2-row1	0.67731	1
Var 60h I row2-row1	1.6789	0.562
Var 60h NI row2-row1	2.26367	0.904
Time course 0hI-0hNI	1.26743	0.833
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	3.27796	0.019
Time course 60hI-60hNI	4.1569	0.012

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)	0.95564	0.314
transgenic ySAMdc/azygous control (breaker)	1.33819	0.248
transgenic ySAMdc/azygous control (red)	1.12426	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92532	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12807	0.307
Manapal/WT (break)	1.11443	0.381
Manapal/WT (red)	1.28435	0.413