Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.5.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94823	0.689
27DAP/17DAP	0.7163	0.125
39DAP/27DAP	0.9844	0.719
41DAP/39DAP	1.45109	0.494
42DAP/41DAP	1.07052	1
43DAP/42DAP	0.72866	0.566
47DAP/43DAP	0.85253	0.54
52DAP/47DAP	1.42739	0.538
57DAP/52DAP	0.84696	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04221	0.814
17DAP/reference	0.96203	0.393
27DAP/reference	0.94793	0.428
39DAP/reference	0.97047	0.624
41DAP/reference	1.08343	0.158
42DAP/reference	0.96708	0.225
43DAP/reference	1.03503	0.838
47DAP/reference	0.86826	0.042
52DAP/reference	0.73733	0.026
57DAP/reference	0.77587	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15701	0.124
27DAP/17DAP	0.85402	0.475
39DAP/27DAP	1.04128	1
41DAP/39DAP	1.10691	0.773
42DAP/41DAP	0.91944	0.503
43DAP/42DAP	0.94686	0.522
47DAP/43DAP	0.99715	0.909
52DAP/47DAP	0.9616	0.876
57DAP/52DAP	0.74175	0.085
57DAP/7DAP	0.98354	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81779	0.082
17DAP/reference	0.75955	0.018
27DAP/reference	0.75973	0.01
39DAP/reference	0.76488	0.011
41DAP/reference	0.69117	0.015
42DAP/reference	0.7461	0.032
43DAP/reference	0.73468	0.016
47DAP/reference	0.80123	0.128
52DAP/reference	0.61027	0.013
57DAP/reference	0.60683	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17493	0.172
17DAP/reference	1.00372	0.805
27DAP/reference	0.93301	0.327
39DAP/reference	0.90933	0.235
41DAP/reference	0.79007	0.03
42DAP/reference	0.86543	0.039
43DAP/reference	1.3239	0.038
47DAP/reference	0.97595	0.459
52DAP/reference	1.16705	0.208
57DAP/reference	1.5132	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8953	0.268
17DAP/reference	1.06432	0.784
27DAP/reference	0.77705	0.048
39DAP/reference	0.75279	0.013
41DAP/reference	0.74748	0.019
42DAP/reference	0.72643	0.018
43DAP/reference	0.6997	0.02
47DAP/reference	0.94508	0.409
52DAP/reference	1.00123	0.69
57DAP/reference	0.57587	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08376	0.966
26DAP/20DAP	1.01322	1
34DAP/26DAP	1.18263	0.819
51DAP/34DAP	0.92102	0.563
52DAP/51DAP	1.0346	1
53DAP/52DAP	0.9977	0.99
55DAP/53DAP	1.04124	0.855
57DAP/55DAP	1.02947	0.935
62DAP/57DAP	1.81049
68DAP/62DAP	0.79608	0.505
68DAP/14DAP	0.76688	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15118	0.391

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.46364	0.095
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.46853
Mature Eggplant/Ripe Tomato	0.85441

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97781	1
1-1-2/M82	0.96237	0.958
12-2/M82	1.06343
12-4/M82	1.19378	1
1-3/M82	0.80944	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.14352	0.695
3-2/M82	1.04886
4-1-1/M82	0.66348
4-1/M82	1.15198	0.418
4-3-2/M82	0.75281	0.698
4-3/M82	1.05581	1
5-3/M82	1.08613	0.572
6-2/M82	0.92642	0.481
6-3/M82	1.03292	1
7-1/M82	0.86113	0.803
7-2/M82	1.0031	1
9-3-2/M82	0.82521	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19538	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.08998	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.84745
IL1-4/WTpooled	1.4209	1
WT/WTpooled	1.07742

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	0.84612	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00235	1
DC3000/delta hrp 6h	1.05832	1
DC3000/delta hrp 12h	1.05903	1
DC3000/delta hrp 24h	1.03002	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.44218
DC3000 delta B/DC3000 delta AB	0.64064	0.058

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.7372	1
Exp 36h	0.81521	0.539
Exp 60h	0.65135	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05095	1
Var 0h	0.99631	1
Var 12h I row2-row1	0.98527	0.948
Var 12h NI row2-row1	0.89395	0.494
Var 36h I row2-row1	0.9017	1
Var 36h NI row2-row1	1.06765	1
Var 60h I row2-row1	0.76623	0.832
Var 60h NI row2-row1	1.20237	0.904
Time course 0hI-0hNI	0.97353	0.821
Time course 12hI-12hNI	0.92905	0.309
Time course 36hI-36hNI	0.88453	0.058
Time course 60hI-60hNI	1.08504	0.161

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)	1.19	0.384
transgenic ySAMdc/azygous control (breaker)	0.79367	0.15
transgenic ySAMdc/azygous control (red)	1.2205	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01211	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.23671	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.09391	0.087
Manapal/WT (break)	1.49586	0.13
Manapal/WT (red)	1.36815	0.137