Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.14.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98403	0.823
27DAP/17DAP	0.9963	1
39DAP/27DAP	1.06169	1
41DAP/39DAP	1.16055	0.545
42DAP/41DAP	0.88801	1
43DAP/42DAP	0.82108	0.554
47DAP/43DAP	1.18726	0.756
52DAP/47DAP	1.05599	0.883
57DAP/52DAP	0.90005	0.836

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.642	0.023
17DAP/reference	1.29019	0.02
27DAP/reference	1.18137	0.066
39DAP/reference	1.23084	0.169
41DAP/reference	1.20537	0.079
42DAP/reference	1.29412	0.005
43DAP/reference	1.25418	0.126
47DAP/reference	1.07909	0.817
52DAP/reference	1.02028	1
57DAP/reference	0.86504	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.54457	0.047
27DAP/17DAP	1.11856	0.587
39DAP/27DAP	1.23104	0.403
41DAP/39DAP	0.98134	0.997
42DAP/41DAP	1.05501	1
43DAP/42DAP	0.92151	0.538
47DAP/43DAP	0.99096	0.928
52DAP/47DAP	0.91465	0.538
57DAP/52DAP	1.00821	0.881
57DAP/7DAP	2.34438

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84873	0.203
17DAP/reference	0.68917	0.012
27DAP/reference	0.81857	0.01
39DAP/reference	0.70954	0.011
41DAP/reference	0.7563	0.052
42DAP/reference	0.75855	0.012
43DAP/reference	0.60828	0.011
47DAP/reference	1.11781	0.932
52DAP/reference	0.6447	0.009
57DAP/reference	0.62592	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3244	0.172
17DAP/reference	1.63267	0.007
27DAP/reference	1.56816	0.023
39DAP/reference	1.54011	0.011
41DAP/reference	1.36465	0.012
42DAP/reference	1.49044	0.008
43DAP/reference	1.59273	0.012
47DAP/reference	1.27698	0.015
52DAP/reference	1.34068	0.024
57DAP/reference	1.35141	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78244	0.052
17DAP/reference	1.29468	0.585
27DAP/reference	0.80496	0.089
39DAP/reference	0.69627	0.024
41DAP/reference	0.69537	0.019
42DAP/reference	0.92552	0.445
43DAP/reference	0.91636	0.398
47DAP/reference	1.26451	0.163
52DAP/reference	0.7915	0.197
57DAP/reference	1.11774	0.828

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16285	0.966
26DAP/20DAP	1.02466	1
34DAP/26DAP	1.09886	1
51DAP/34DAP	0.98795	0.743
52DAP/51DAP	1.21459	0.367
53DAP/52DAP	1.31234	0.662
55DAP/53DAP	0.89684	0.675
57DAP/55DAP	1.33049	0.694
62DAP/57DAP	1.00058	1
68DAP/62DAP	0.86508	0.046
68DAP/14DAP	0.6154	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81796	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.08139	0.948
Immature Eggplant/Mature Eggplant	4.92418	0.054
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00869	1
1-1-2/M82	0.86203
12-2/M82	N/A	N/A
12-4/M82	1.05822	1
1-3/M82	N/A	N/A
2-1-1/M82	0.97566
2-1/M82	N/A	N/A
2-6/M82	0.86804
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.74372
4-3-2/M82	0.88899
4-3/M82	0.98247
5-3/M82	1.1527	0.39
6-2/M82	0.79384
6-3/M82	0.84183
7-1/M82	0.98995	1
7-2/M82	0.92874	0.381
9-3-2/M82	0.87523	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93094	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.87648	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.9932
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	0.94892

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.19819	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05312	1
DC3000/delta hrp 24h	3.81504	0.027

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09275	0.045
DC3000 delta B/DC3000 delta AB	0.94432	0.575

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15544	1
Exp 36h	N/A	N/A
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	1.00083	1
Var 0h	1.01452
Var 12h I row2-row1	2.38603	0.379
Var 12h NI row2-row1	0.58947	0.494
Var 36h I row2-row1	1.05084	0.742
Var 36h NI row2-row1	1.08768	1
Var 60h I row2-row1	1.28014	0.543
Var 60h NI row2-row1	0.72856	1
Time course 0hI-0hNI	0.88597	0.349
Time course 12hI-12hNI	0.98183	0.897
Time course 36hI-36hNI	0.84872	0.023
Time course 60hI-60hNI	0.48078	0.006

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.99709	1
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94706	0.22

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32443	1

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)	N/A	N/A
Manapal/WT (red)	1.00322	1