Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.20.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02518	0.847
27DAP/17DAP	1.04541	1
39DAP/27DAP	0.86076	0.537
41DAP/39DAP	1.48035	0.265
42DAP/41DAP	1.03561	1
43DAP/42DAP	0.86725	0.776
47DAP/43DAP	1.05903	0.873
52DAP/47DAP	1.24135	0.543
57DAP/52DAP	1.12638	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82664	0.06
17DAP/reference	1.02674	0.813
27DAP/reference	0.9869	0.725
39DAP/reference	0.80127	0.267
41DAP/reference	1.02486	0.759
42DAP/reference	0.80552	0.003
43DAP/reference	0.96394	0.611
47DAP/reference	0.95185	0.148
52DAP/reference	0.91635	0.223
57DAP/reference	0.85115	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33846	0.605
27DAP/17DAP	1.18623	0.686
39DAP/27DAP	1.20912	0.832
41DAP/39DAP	0.95503	0.968
42DAP/41DAP	1.09411	1
43DAP/42DAP	0.98421	0.751
47DAP/43DAP	1.10379	0.88
52DAP/47DAP	1.0976	0.816
57DAP/52DAP	1.43136	0.523
57DAP/7DAP	0.83776

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06915	0.999
17DAP/reference	1.07346	0.822
27DAP/reference	1.12734	0.023
39DAP/reference	1.20393	0.012
41DAP/reference	1.02064	0.848
42DAP/reference	1.1569	0.174
43DAP/reference	1.13584	0.063
47DAP/reference	0.98342	0.671
52DAP/reference	0.97124	0.435
57DAP/reference	1.04104	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87021	0.096
17DAP/reference	0.86504	0.063
27DAP/reference	0.77843	0.043
39DAP/reference	0.77927	0.014
41DAP/reference	0.73067	0.01
42DAP/reference	0.7482	0.014
43DAP/reference	0.94499	0.438
47DAP/reference	0.81835	0.032
52DAP/reference	0.85685	0.029
57DAP/reference	0.87935	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18398	0.158
17DAP/reference	0.95409	0.519
27DAP/reference	1.09679	0.26
39DAP/reference	1.04695	0.733
41DAP/reference	1.08072	0.471
42DAP/reference	1.06385	0.994
43DAP/reference	0.96779	0.568
47DAP/reference	0.9113	0.24
52DAP/reference	1.12893	0.405
57DAP/reference	0.68863	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01844	1
26DAP/20DAP	0.56552	0.228
34DAP/26DAP	0.84234	0.753
51DAP/34DAP	1.1633	0.967
52DAP/51DAP	2.21624	0.099
53DAP/52DAP	0.89962	0.604
55DAP/53DAP	1.10743	0.599
57DAP/55DAP	1.12855	0.975
62DAP/57DAP	1.24352	0.622
68DAP/62DAP	0.91215	0.7
68DAP/14DAP	0.74757	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81925	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.52325
Mature Green Tomato/Ripe Tomato	1.04736	0.898
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.92535	1
Mature Eggplant/Ripe Tomato	0.7337	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97964	0.961
1-1-2/M82	0.88968	0.958
12-2/M82	0.91746	0.955
12-4/M82	0.81095	0.25
1-3/M82	0.77622	0.378
2-1-1/M82	1.08991	0.689
2-1/M82	1.23789	1
2-6/M82	1.00582	1
3-2/M82	0.79992
4-1-1/M82	0.77765	0.959
4-1/M82	0.94022	1
4-3-2/M82	0.82804	0.37
4-3/M82	0.60606	0.611
5-3/M82	1.03209	1
6-2/M82	0.8303	0.497
6-3/M82	1.27206	1
7-1/M82	N/A	N/A
7-2/M82	0.93576	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.21051	0.365
IL2-6/WTpooled	0.70733	0.473
IL7-5/WTpooled	1.10804	1
IL7-3/WTpooled	1.16483	1
IL12-4/WTpooled	1.30103	0.546
IL1-4/WTpooled	0.9604	1
WT/WTpooled	1.14918	0.686

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	0.64073

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94755	1
DC3000/delta hrp 6h	0.96725	0.95
DC3000/delta hrp 12h	0.98541	1
DC3000/delta hrp 24h	1.03543	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.49004
DC3000 delta B/DC3000 delta AB	1.02465

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	1.06661	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.14066	0.324
Var 12h NI row2-row1	1.0685	0.649
Var 36h I row2-row1	1.06387	1
Var 36h NI row2-row1	5.38261	1
Var 60h I row2-row1	0.98867	1
Var 60h NI row2-row1	0.86814	1
Time course 0hI-0hNI	1.07261	0.63
Time course 12hI-12hNI	0.89893	0.501
Time course 36hI-36hNI	0.79622	0.129
Time course 60hI-60hNI	0.98657	1

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)	0.88239	0.348
transgenic ySAMdc/azygous control (breaker)	1.46932	0.248
transgenic ySAMdc/azygous control (red)	1.10693	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02989	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18794	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02739	1
Manapal/WT (break)	0.9841	1
Manapal/WT (red)	0.65717	0.199