Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.3.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0484	0.752
27DAP/17DAP	1.18266	0.872
39DAP/27DAP	1.36199	0.603
41DAP/39DAP	1.15813	0.334
42DAP/41DAP	0.60353	0.774
43DAP/42DAP	0.95914	0.9
47DAP/43DAP	0.89401	0.625
52DAP/47DAP	2.3332	0.205
57DAP/52DAP	0.72553	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11578	0.241
17DAP/reference	0.74435	0.009
27DAP/reference	0.95417	0.538
39DAP/reference	0.82662	0.021
41DAP/reference	0.81743	0.049
42DAP/reference	1.69094	0.001
43DAP/reference	0.92977	0.287
47DAP/reference	0.91162	0.279
52DAP/reference	1.18077	0.388
57DAP/reference	1.07304	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.63481	0.228
27DAP/17DAP	0.99244	0.943
39DAP/27DAP	0.91002	0.556
41DAP/39DAP	1.05523	0.799
42DAP/41DAP	0.88464	0.368
43DAP/42DAP	1.70352	0.015
47DAP/43DAP	0.88828	0.395
52DAP/47DAP	1.19956	0.552
57DAP/52DAP	2.69994	0.029
57DAP/7DAP	0.63522	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26032	0.066
17DAP/reference	1.15861	0.244
27DAP/reference	1.40088	0.008
39DAP/reference	1.35592	0.011
41DAP/reference	1.687	0.01
42DAP/reference	1.59022	0.076
43DAP/reference	2.01892	0.009
47DAP/reference	1.2618	0.025
52DAP/reference	1.66978	0.007
57DAP/reference	1.31722	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1015	0.75
17DAP/reference	1.50987	0.01
27DAP/reference	1.44687	0.086
39DAP/reference	1.45698	0.012
41DAP/reference	1.4353	0.48
42DAP/reference	1.61999	0.009
43DAP/reference	1.55259	0.065
47DAP/reference	1.235	0.081
52DAP/reference	1.04562	0.576
57DAP/reference	0.9518	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24368	0.122
17DAP/reference	1.10511	0.631
27DAP/reference	1.38395	0.027
39DAP/reference	1.29454	0.041
41DAP/reference	1.20695	0.156
42DAP/reference	1.26002	0.094
43DAP/reference	1.51118	0.126
47DAP/reference	1.15858	0.057
52DAP/reference	1.60492	0.039
57DAP/reference	1.97641	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91724	1
26DAP/20DAP	0.77194	1
34DAP/26DAP	0.75314	0.848
51DAP/34DAP	0.89465	0.513
52DAP/51DAP	0.82906	1
53DAP/52DAP	1.07151	0.552
55DAP/53DAP	1.20968	0.629
57DAP/55DAP	0.78056
62DAP/57DAP	0.64501	0.681
68DAP/62DAP	1.20297	0.936
68DAP/14DAP	1.61109	0.034

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04476	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.25469	0.02
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.03306	0.224
Mature Eggplant/Ripe Tomato	0.07508	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.18655	0.526
1-1-2/M82	1.12329	1
12-2/M82	1.558	1
12-4/M82	0.74521	0.358
1-3/M82	1.24694	1
2-1-1/M82	0.79348	0.784
2-1/M82	1.04676
2-6/M82	0.8506	1
3-2/M82	0.76037
4-1-1/M82	0.92951	1
4-1/M82	1.68494
4-3-2/M82	1.17122	1
4-3/M82	0.98199	1
5-3/M82	0.92843	1
6-2/M82	1.37357	1
6-3/M82	0.9459	1
7-1/M82	1.07103	1
7-2/M82	0.67783	0.578
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	0.80353	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.18398	0.362
IL12-4/WTpooled	1.12251	0.891
IL1-4/WTpooled	0.70844
WT/WTpooled	0.95777	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	1.30132	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9819	1
DC3000/delta hrp 6h	0.90008	0.95
DC3000/delta hrp 12h	0.97698	1
DC3000/delta hrp 24h	1.9368	0.041

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	2.21581

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.96883	0.943
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	1.01637
Var 0h	0.79622	0.933
Var 12h I row2-row1	1.3001
Var 12h NI row2-row1	0.94946
Var 36h I row2-row1	0.93733
Var 36h NI row2-row1	1.0664	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.38765
Time course 0hI-0hNI	0.80508	0.185
Time course 12hI-12hNI	1.0367	0.892
Time course 36hI-36hNI	1.0326	0.881
Time course 60hI-60hNI	1.1909	0.302

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)	1.53148	0.261
transgenic ySAMdc/azygous control (breaker)	0.96227	1
transgenic ySAMdc/azygous control (red)	1.26591	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94192	0.058

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.531	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89384	1
Manapal/WT (break)	1.17605	1
Manapal/WT (red)	0.94475	0.607