Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.52187	0.019
27DAP/17DAP	0.84383	0.579
39DAP/27DAP	0.71152	0.335
41DAP/39DAP	1.18966	0.352
42DAP/41DAP	0.92279	1
43DAP/42DAP	1.01696	1
47DAP/43DAP	0.97318	0.859
52DAP/47DAP	1.09887	0.898
57DAP/52DAP	1.00911	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.33319	0.007
17DAP/reference	1.66341	0.016
27DAP/reference	1.97027	0.012
39DAP/reference	0.64416	0.032
41DAP/reference	0.57796	0.014
42DAP/reference	0.70187	0.003
43DAP/reference	0.55283	0.014
47DAP/reference	0.53963	0.001
52DAP/reference	0.61034	0.029
57DAP/reference	0.72874	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83913	0.065
27DAP/17DAP	1.05948	0.751
39DAP/27DAP	0.94981	0.514
41DAP/39DAP	0.87495	0.256
42DAP/41DAP	0.97388	0.721
43DAP/42DAP	1.09296	0.162
47DAP/43DAP	1.00154	1
52DAP/47DAP	1.03479	0.844
57DAP/52DAP	0.97282	0.637
57DAP/7DAP	0.92766	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26678	0.534
17DAP/reference	0.75682	0.049
27DAP/reference	0.86137	0.082
39DAP/reference	1.01359	1
41DAP/reference	0.76373	0.056
42DAP/reference	0.76173	0.04
43DAP/reference	0.81962	0.095
47DAP/reference	0.85759	0.293
52DAP/reference	0.70502	0.011
57DAP/reference	0.78724	0.041

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65556	0.099
17DAP/reference	1.47594	0.023
27DAP/reference	1.36403	0.367
39DAP/reference	0.59315	0.062
41DAP/reference	0.61115	0.008
42DAP/reference	0.86505	0.189
43DAP/reference	0.57137	0.017
47DAP/reference	0.54684	0.007
52DAP/reference	0.43117	0.004
57DAP/reference	0.37653	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3861	0.036
17DAP/reference	1.2641	0.474
27DAP/reference	1.04628	0.871
39DAP/reference	0.85052	0.069
41DAP/reference	0.84799	0.058
42DAP/reference	0.92219	0.287
43DAP/reference	0.72334	0.033
47DAP/reference	0.41221	0.004
52DAP/reference	0.59358	0.121
57DAP/reference	0.58086	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14017	0.966
26DAP/20DAP	1.03962	0.905
34DAP/26DAP	0.89806	0.498
51DAP/34DAP	0.92893	0.351
52DAP/51DAP	1.02754	0.708
53DAP/52DAP	0.88916	0.245
55DAP/53DAP	0.98289	0.82
57DAP/55DAP	0.80795	0.327
62DAP/57DAP	1.84436	0.833
68DAP/62DAP	1.23982	0.616
68DAP/14DAP	0.31873	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89343	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.14107	0.058
Mature Green Tomato/Ripe Tomato	0.90271	0.287
Immature Eggplant/Mature Eggplant	0.35429	0.058
Ripe Pepper/Ripe Tomato	66.3778
Mature Eggplant/Ripe Tomato	32.9446	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.18365	0.526
1-1-2/M82	0.92171	0.958
12-2/M82	N/A	N/A
12-4/M82	0.90829	1
1-3/M82	0.50857
2-1-1/M82	0.73518
2-1/M82	N/A	N/A
2-6/M82	1.08503	0.695
3-2/M82	0.91914	1
4-1-1/M82	0.62322
4-1/M82	1.02276	1
4-3-2/M82	0.92568	1
4-3/M82	N/A	N/A
5-3/M82	0.91376	1
6-2/M82	0.5909	1
6-3/M82	N/A	N/A
7-1/M82	0.96697
7-2/M82	1.01059
9-3-2/M82	0.85053	0.449

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	1.22674
IL7-3/WTpooled	0.92868	1
IL12-4/WTpooled	0.88597	0.581
IL1-4/WTpooled	0.99933	1
WT/WTpooled	1.00156	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	0.80738	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00378	1
DC3000/delta hrp 6h	0.86798	0.95
DC3000/delta hrp 12h	1.43089	1
DC3000/delta hrp 24h	0.53978	0.107

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.46577	0.023
DC3000 delta B/DC3000 delta AB	0.60704	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91483	1
Exp 36h	0.68958	0.449
Exp 60h	0.68319	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.10385	0.782
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.74056	0.315
transgenic ySAMdc/azygous control (breaker)	1.41797	1
transgenic ySAMdc/azygous control (red)	0.90814	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.70051	0.072

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	5.63312	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.39455	0.105
Manapal/WT (break)	2.14379	1
Manapal/WT (red)	1.01258	0.863