Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.2.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94277	0.671
27DAP/17DAP	1.1445	0.877
39DAP/27DAP	1.47387	0.175
41DAP/39DAP	0.87627	0.543
42DAP/41DAP	1.05073	1
43DAP/42DAP	0.92233	0.829
47DAP/43DAP	0.80791	0.366
52DAP/47DAP	1.18402	0.626
57DAP/52DAP	1.38146	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91569	0.111
17DAP/reference	1.03979	0.653
27DAP/reference	1.5785	0.017
39DAP/reference	1.28402	0.082
41DAP/reference	1.2575	0.338
42DAP/reference	0.96088	0.287
43DAP/reference	0.99393	0.82
47DAP/reference	1.02321	1
52DAP/reference	1.34807	0.024
57DAP/reference	1.3973	0.066

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2072	0.179
27DAP/17DAP	1.03289	0.957
39DAP/27DAP	1.45155	0.084
41DAP/39DAP	0.94292	0.91
42DAP/41DAP	0.91399	0.404
43DAP/42DAP	0.80555	0.032
47DAP/43DAP	1.04751	0.713
52DAP/47DAP	1.10433	0.619
57DAP/52DAP	0.9858	0.813
57DAP/7DAP	0.97987	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01714	1
17DAP/reference	1.20915	0.07
27DAP/reference	1.13769	0.301
39DAP/reference	1.21932	0.012
41DAP/reference	1.47331	0.011
42DAP/reference	1.3655	0.009
43DAP/reference	1.47616	0.009
47DAP/reference	1.2103	0.2
52DAP/reference	1.40531	0.013
57DAP/reference	1.35702	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00428	0.907
17DAP/reference	0.82215	0.01
27DAP/reference	1.00958	1
39DAP/reference	1.05673	0.3
41DAP/reference	1.03309	0.781
42DAP/reference	1.06568	0.81
43DAP/reference	0.96967	0.561
47DAP/reference	1.0873	0.513
52DAP/reference	0.96792	0.433
57DAP/reference	0.93711	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11989	0.122
17DAP/reference	0.98625	0.763
27DAP/reference	1.49257	0.033
39DAP/reference	1.31123	0.019
41DAP/reference	1.32113	0.013
42DAP/reference	1.18877	0.134
43DAP/reference	1.10931	0.465
47DAP/reference	0.92292	0.199
52DAP/reference	1.01884	0.979
57DAP/reference	1.1064	0.233

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09786	0.966
26DAP/20DAP	2.2998	0.097
34DAP/26DAP	0.58903	0.078
51DAP/34DAP	1.41957	0.039
52DAP/51DAP	1.04688	0.792
53DAP/52DAP	0.94737	0.835
55DAP/53DAP	0.96891	0.775
57DAP/55DAP	1.0653	0.955
62DAP/57DAP	1.06655	1
68DAP/62DAP	1.26274	0.22
68DAP/14DAP	1.22316	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81175	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88642	0.39
Mature Green Tomato/Ripe Tomato	1.71037	0.04
Immature Eggplant/Mature Eggplant	2.44063	0.05
Ripe Pepper/Ripe Tomato	1.39948	1
Mature Eggplant/Ripe Tomato	1.19443	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89445	0.944
1-1-2/M82	1.12514	1
12-2/M82	1.08605	1
12-4/M82	0.76994	0.619
1-3/M82	1.17368	1
2-1-1/M82	0.60571	0.465
2-1/M82	1.12448	1
2-6/M82	0.51789	0.501
3-2/M82	1.03583
4-1-1/M82	0.67036	1
4-1/M82	N/A	N/A
4-3-2/M82	0.61418	0.698
4-3/M82	0.83973	0.72
5-3/M82	1.13088	1
6-2/M82	0.73932
6-3/M82	1.07334	1
7-1/M82	0.9989	1
7-2/M82	0.92585	0.796
9-3-2/M82	0.66626	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.66454	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.22916	1
IL12-4/WTpooled	0.9765	1
IL1-4/WTpooled	1.10474
WT/WTpooled	0.91182	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	1.10099	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05789	0.921
DC3000/delta hrp 6h	1.10902	1
DC3000/delta hrp 12h	0.88526	1
DC3000/delta hrp 24h	2.74658	0.018

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25351	0.044
DC3000 delta B/DC3000 delta AB	1.17497	0.204

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01589	1
Exp 36h	1.53958	0.693
Exp 60h	1.64116	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01114	1
Var 0h	0.3809	0.206
Var 12h I row2-row1	0.97765	0.948
Var 12h NI row2-row1	1.64529	0.34
Var 36h I row2-row1	0.95241	1
Var 36h NI row2-row1	1.35401	1
Var 60h I row2-row1	0.74673	0.285
Var 60h NI row2-row1	0.94529	1
Time course 0hI-0hNI	0.95402	0.745
Time course 12hI-12hNI	1.09157	0.647
Time course 36hI-36hNI	1.90869	0.005
Time course 60hI-60hNI	3.06155	0.008

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)	0.98888	0.862
transgenic ySAMdc/azygous control (breaker)	0.92864	0.49
transgenic ySAMdc/azygous control (red)	0.86932	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.25695	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04172	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.22655	0.14
Manapal/WT (break)	0.93029	1
Manapal/WT (red)	1.30324	0.164