Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.9.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07032	0.851
27DAP/17DAP	1.11426	0.873
39DAP/27DAP	0.84922	0.512
41DAP/39DAP	1.47536	0.511
42DAP/41DAP	1.07945	0.974
43DAP/42DAP	1.0161	1
47DAP/43DAP	1.08401	0.659
52DAP/47DAP	1.36534	0.521
57DAP/52DAP	1.00837	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05277	0.567
17DAP/reference	0.94672	0.278
27DAP/reference	0.94393	0.176
39DAP/reference	0.9872	0.797
41DAP/reference	0.98422	0.667
42DAP/reference	0.97236	0.124
43DAP/reference	0.99107	0.805
47DAP/reference	0.94708	0.106
52DAP/reference	1.01248	1
57DAP/reference	0.95112	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98683	0.732
27DAP/17DAP	1.01262	1
39DAP/27DAP	1.03014	0.685
41DAP/39DAP	1.02946	0.896
42DAP/41DAP	1.00196	0.932
43DAP/42DAP	0.97216	0.665
47DAP/43DAP	1.042	0.822
52DAP/47DAP	1.01585	0.945
57DAP/52DAP	1.05569	0.643
57DAP/7DAP	1.13817	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74103	0.066
17DAP/reference	0.80481	0.028
27DAP/reference	0.7263	0.012
39DAP/reference	0.77275	0.012
41DAP/reference	0.76454	0.023
42DAP/reference	0.63293	0.01
43DAP/reference	0.58294	0.011
47DAP/reference	0.83295	0.168
52DAP/reference	0.62613	0.012
57DAP/reference	0.61566	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07632	0.22
17DAP/reference	1.03138	0.708
27DAP/reference	1.02054	1
39DAP/reference	0.9437	0.129
41DAP/reference	0.92462	0.096
42DAP/reference	0.93424	0.135
43DAP/reference	1.27318	0.386
47DAP/reference	0.98269	0.459
52DAP/reference	1.03381	0.444
57DAP/reference	1.10697	0.104

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79125	0.055
17DAP/reference	0.97458	0.601
27DAP/reference	0.73608	0.032
39DAP/reference	0.67567	0.008
41DAP/reference	0.79084	0.035
42DAP/reference	0.79236	0.018
43DAP/reference	0.73489	0.031
47DAP/reference	0.90464	0.069
52DAP/reference	0.75179	0.109
57DAP/reference	0.69388	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04199	0.966
26DAP/20DAP	0.93691	1
34DAP/26DAP	1.1087	1
51DAP/34DAP	1.04496	0.759
52DAP/51DAP	1.08879	0.367
53DAP/52DAP	0.94435	0.758
55DAP/53DAP	1.04335	0.855
57DAP/55DAP	1.04588	0.953
62DAP/57DAP	1.00091	1
68DAP/62DAP	0.95671	0.722
68DAP/14DAP	0.86543	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04624	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.90613	0.487
Immature Eggplant/Mature Eggplant	1.25209	0.267
Ripe Pepper/Ripe Tomato	1.04648	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.78223	0.958
12-2/M82	0.99839	1
12-4/M82	1.03531	1
1-3/M82	0.61106
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.19517
3-2/M82	N/A	N/A
4-1-1/M82	17.4778
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.42009
9-3-2/M82	0.90535

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92663	0.321
IL2-6/WTpooled	0.74253	0.473
IL7-5/WTpooled	0.72808	0.559
IL7-3/WTpooled	0.98735	1
IL12-4/WTpooled	0.7833	0.543
IL1-4/WTpooled	0.887	0.562
WT/WTpooled	0.97625	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	1.05	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.84579	0.697
DC3000/delta hrp 6h	1.03722	0.95
DC3000/delta hrp 12h	1.00561	1
DC3000/delta hrp 24h	1.73711	0.025

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14379	0.121
DC3000 delta B/DC3000 delta AB	1.06578	0.443

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1681	0.254
Exp 36h	1.19763	1
Exp 60h	1.44147	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01025	1
Var 0h	1.09174	0.594
Var 12h I row2-row1	1.12617	0.379
Var 12h NI row2-row1	0.99709	1
Var 36h I row2-row1	0.83252	1
Var 36h NI row2-row1	0.95003	0.743
Var 60h I row2-row1	1.13939	1
Var 60h NI row2-row1	1.42848	0.904
Time course 0hI-0hNI	1.09553	0.799
Time course 12hI-12hNI	1.09785	0.517
Time course 36hI-36hNI	1.18244	0.023
Time course 60hI-60hNI	1.496	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)	1.01387	0.654
transgenic ySAMdc/azygous control (breaker)	2.0546	0.165
transgenic ySAMdc/azygous control (red)	1.1176	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97888	0.305

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01828	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01081	1
Manapal/WT (break)	1.38435	0.13
Manapal/WT (red)	1.00564	1