Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61901	0.08
27DAP/17DAP	0.76894	0.452
39DAP/27DAP	0.94407	0.67
41DAP/39DAP	1.08925	0.879
42DAP/41DAP	0.87071	1
43DAP/42DAP	0.89755	0.786
47DAP/43DAP	0.97199	0.879
52DAP/47DAP	1.45075	0.521
57DAP/52DAP	0.8883	0.872

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9994	0.693
17DAP/reference	0.9841	0.664
27DAP/reference	0.9849	0.694
39DAP/reference	1.13735	0.061
41DAP/reference	1.08015	0.187
42DAP/reference	0.95357	0.225
43DAP/reference	1.02144	0.899
47DAP/reference	0.92568	0.116
52DAP/reference	1.0175	1
57DAP/reference	1.08902	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47907	0.278
27DAP/17DAP	0.91848	0.878
39DAP/27DAP	0.85857	0.388
41DAP/39DAP	1.35187	0.719
42DAP/41DAP	0.67791	0.023
43DAP/42DAP	0.93052	0.503
47DAP/43DAP	1.83001	0.641
52DAP/47DAP	1.10639	0.915
57DAP/52DAP	1.31944	0.293
57DAP/7DAP	1.97928	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80288	0.086
17DAP/reference	0.88112	0.082
27DAP/reference	1.19002	0.06
39DAP/reference	0.78655	0.025
41DAP/reference	0.83337	0.076
42DAP/reference	0.8088	0.035
43DAP/reference	0.7446	0.072
47DAP/reference	0.83229	0.168
52DAP/reference	0.75952	0.053
57DAP/reference	0.71184	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03638	0.979
17DAP/reference	1.12	0.257
27DAP/reference	1.21604	0.045
39DAP/reference	0.96601	0.497
41DAP/reference	1.10335	0.536
42DAP/reference	1.093	0.359
43DAP/reference	1.41415	0.024
47DAP/reference	1.07781	0.426
52DAP/reference	1.309	0.223
57DAP/reference	0.98983	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84292	0.092
17DAP/reference	1.10567	0.689
27DAP/reference	0.87002	0.302
39DAP/reference	0.84537	0.122
41DAP/reference	1.15464	0.156
42DAP/reference	0.92686	0.287
43DAP/reference	0.89278	0.281
47DAP/reference	1.12472	0.187
52DAP/reference	1.19236	0.904
57DAP/reference	0.97676	0.602

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.31647	0.966
26DAP/20DAP	1.2098	0.353
34DAP/26DAP	0.73357
51DAP/34DAP	1.06122	0.993
52DAP/51DAP	0.9536	1
53DAP/52DAP	0.8699	0.595
55DAP/53DAP	1.32107	0.064
57DAP/55DAP	0.99248	0.94
62DAP/57DAP	0.92884	0.871
68DAP/62DAP	1.36017	0.582
68DAP/14DAP	0.95538	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.56291	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.24206
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	1.34709
1-1-2/M82	1.03887
12-2/M82	N/A	N/A
12-4/M82	1.19389
1-3/M82	1.05065	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.03469
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
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	0.9318	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.95227
7-2/M82	0.70853	0.578
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.61631	0.243
IL2-6/WTpooled	0.61689	0.473
IL7-5/WTpooled	1.33514	1
IL7-3/WTpooled	0.84253	0.418
IL12-4/WTpooled	0.73818	0.71
IL1-4/WTpooled	0.76936	0.415
WT/WTpooled	0.97129	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	1.0151	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96541	1
DC3000/delta hrp 6h	1.01679	0.95
DC3000/delta hrp 12h	1.16936	1
DC3000/delta hrp 24h	0.7537	0.036

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61034	0.059
DC3000 delta B/DC3000 delta AB	0.53132	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86986	1
Exp 36h	0.7984	0.589
Exp 60h	0.70802	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.23036	1
Var 0h	0.8684	1
Var 12h I row2-row1	0.75585	0.39
Var 12h NI row2-row1	1.21825	1
Var 36h I row2-row1	1.11167	1
Var 36h NI row2-row1	1.29667	1
Var 60h I row2-row1	1.05286	0.487
Var 60h NI row2-row1	1.28061	1
Time course 0hI-0hNI	0.93603	0.649
Time course 12hI-12hNI	0.9491	0.701
Time course 36hI-36hNI	0.83051	0.127
Time course 60hI-60hNI	0.09476	0.005

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)	1.27742	0.482
transgenic ySAMdc/azygous control (breaker)	2.13595	0.248
transgenic ySAMdc/azygous control (red)	1.30854	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04186	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.3712	0.237

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)	3.36569	0.123
Manapal/WT (red)	N/A	N/A