Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33904	0.588
27DAP/17DAP	0.99266	0.996
39DAP/27DAP	1.6937	0.138
41DAP/39DAP	0.64356	0.073
42DAP/41DAP	1.08328	1
43DAP/42DAP	1.15987	1
47DAP/43DAP	1.181	0.702
52DAP/47DAP	0.61399	0.08
57DAP/52DAP	1.02544	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06866	0.334
17DAP/reference	1.04196	0.318
27DAP/reference	0.94508	0.359
39DAP/reference	0.97171	0.5
41DAP/reference	1.01713	0.759
42DAP/reference	0.95978	0.129
43DAP/reference	0.99821	0.924
47DAP/reference	0.99493	0.636
52DAP/reference	1.03826	0.576
57DAP/reference	0.9651	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49414	0.07
27DAP/17DAP	0.94865	0.878
39DAP/27DAP	1.24965	0.076
41DAP/39DAP	0.74201	0.547
42DAP/41DAP	0.85429	0.234
43DAP/42DAP	1.07706	0.23
47DAP/43DAP	1.09698	0.444
52DAP/47DAP	0.98853	0.941
57DAP/52DAP	0.74355	0.14
57DAP/7DAP	1.07007	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13289	0.286
17DAP/reference	1.0764	0.688
27DAP/reference	1.05786	0.664
39DAP/reference	1.24632	0.12
41DAP/reference	0.98527	0.589
42DAP/reference	1.04137	0.534
43DAP/reference	0.85614	0.105
47DAP/reference	0.88926	0.222
52DAP/reference	0.87372	0.106
57DAP/reference	0.98183	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1279	0.249
17DAP/reference	1.0745	0.264
27DAP/reference	1.06783	0.526
39DAP/reference	1.00234	1
41DAP/reference	0.98754	0.531
42DAP/reference	0.93611	0.135
43DAP/reference	1.06935	0.745
47DAP/reference	0.91265	0.102
52DAP/reference	0.99659	0.713
57DAP/reference	1.08819	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.078	0.56
17DAP/reference	0.95467	0.537
27DAP/reference	0.94315	0.23
39DAP/reference	1.06944	0.437
41DAP/reference	1.06315	0.796
42DAP/reference	1.0612	0.635
43DAP/reference	1.13846	0.285
47DAP/reference	0.96392	0.259
52DAP/reference	0.98277	0.675
57DAP/reference	0.87303	0.149

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03259	0.966
26DAP/20DAP	0.77758	0.512
34DAP/26DAP	0.78074	0.084
51DAP/34DAP	0.8724	0.155
52DAP/51DAP	0.74489	0.151
53DAP/52DAP	1.34805	0.082
55DAP/53DAP	0.78181	0.024
57DAP/55DAP	0.96552	0.783
62DAP/57DAP	1.01532	0.902
68DAP/62DAP	1.05568	0.926
68DAP/14DAP	0.81449	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.0223	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00009	0.673
Mature Green Tomato/Ripe Tomato	1.70055	0.032
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	584.31
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.47675
1-1-2/M82	2.28688
12-2/M82	N/A	N/A
12-4/M82	1.14501	1
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	0.78356
3-2/M82	1.16291
4-1-1/M82	N/A	N/A
4-1/M82	4.81282
4-3-2/M82	1.70736	0.262
4-3/M82	N/A	N/A
5-3/M82	0.85196
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.06499
7-2/M82	N/A	N/A
9-3-2/M82	1.92784	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89897	0.321
IL2-6/WTpooled	1.0973	0.659
IL7-5/WTpooled	1.15695	0.792
IL7-3/WTpooled	1.69347	0.362
IL12-4/WTpooled	1.16463	0.525
IL1-4/WTpooled	1.04984	1
WT/WTpooled	0.99559	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	0.91416	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93799	1
DC3000/delta hrp 6h	1.13074	1
DC3000/delta hrp 12h	1.07678	1
DC3000/delta hrp 24h	0.73184	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09432	0.27
DC3000 delta B/DC3000 delta AB	1.10908	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14651	1
Exp 36h	1.08804	1
Exp 60h	0.96439	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98167	1
Var 0h	1.09239	1
Var 12h I row2-row1	1.35892	0.348
Var 12h NI row2-row1	0.79677	0.546
Var 36h I row2-row1	1.09209	1
Var 36h NI row2-row1	1.50011	0.482
Var 60h I row2-row1	1.18247	0.562
Var 60h NI row2-row1	1.1769	0.904
Time course 0hI-0hNI	0.99069	1
Time course 12hI-12hNI	1.0115	0.868
Time course 36hI-36hNI	0.82086	0.023
Time course 60hI-60hNI	0.24506	0.005

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)	1.14175	0.238
transgenic ySAMdc/azygous control (breaker)	1.09823	1
transgenic ySAMdc/azygous control (red)	1.13028	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96982	0.313

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12754	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.44972	0.09
Manapal/WT (break)	1.91386	0.13
Manapal/WT (red)	4.33228	0.126