Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.16.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0974	0.588
27DAP/17DAP	1.31854	0.801
39DAP/27DAP	1.15647	0.713
41DAP/39DAP	0.82757	0.424
42DAP/41DAP	0.86001	1
43DAP/42DAP	0.98189	0.925
47DAP/43DAP	1.06429	0.965
52DAP/47DAP	0.89819	0.702
57DAP/52DAP	1.10872	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90529	0.074
17DAP/reference	1.01306	0.696
27DAP/reference	1.04438	0.426
39DAP/reference	1.01519	0.593
41DAP/reference	1.03299	0.855
42DAP/reference	0.84977	0.002
43DAP/reference	0.94664	0.464
47DAP/reference	0.9186	0.032
52DAP/reference	0.95912	0.35
57DAP/reference	1.01894	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03511	0.881
27DAP/17DAP	1.00143	0.969
39DAP/27DAP	1.22682	0.353
41DAP/39DAP	1.12748	0.868
42DAP/41DAP	1.00315	0.784
43DAP/42DAP	1.12428	0.351
47DAP/43DAP	1.02405	0.95
52DAP/47DAP	1.03983	0.933
57DAP/52DAP	0.95059	0.608
57DAP/7DAP	1.39	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7304	0.058
17DAP/reference	0.65194	0.014
27DAP/reference	0.83233	0.023
39DAP/reference	0.75021	0.018
41DAP/reference	0.76875	0.042
42DAP/reference	0.73548	0.02
43DAP/reference	0.82769	0.066
47DAP/reference	0.91408	0.383
52DAP/reference	0.90073	0.179
57DAP/reference	0.93203	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9145	0.248
17DAP/reference	0.9085	0.182
27DAP/reference	0.92081	0.304
39DAP/reference	0.89159	0.152
41DAP/reference	0.90691	0.205
42DAP/reference	0.87529	0.135
43DAP/reference	0.95267	0.45
47DAP/reference	0.94403	0.246
52DAP/reference	0.95986	0.171
57DAP/reference	0.91254	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78195	0.082
17DAP/reference	0.96145	0.537
27DAP/reference	0.7963	0.048
39DAP/reference	0.90851	0.179
41DAP/reference	0.91541	0.237
42DAP/reference	0.82837	0.087
43DAP/reference	0.8251	0.088
47DAP/reference	1.06881	0.339
52DAP/reference	0.75605	0.141
57DAP/reference	0.86433	0.158

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15599	0.586
26DAP/20DAP	0.87828	0.512
34DAP/26DAP	1.04017	1
51DAP/34DAP	0.95764	0.698
52DAP/51DAP	1.11177	0.439
53DAP/52DAP	1.02915	0.921
55DAP/53DAP	1.1603	0.312
57DAP/55DAP	1.01374	0.953
62DAP/57DAP	1.01467	1
68DAP/62DAP	0.88293	0.144
68DAP/14DAP	0.871	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78417	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.27255	0.064
Immature Eggplant/Mature Eggplant	4.29289
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	0.87488	0.944
1-1-2/M82	1.01252	1
12-2/M82	1.2221
12-4/M82	1.12546	1
1-3/M82	0.72389	0.378
2-1-1/M82	0.99842
2-1/M82	N/A	N/A
2-6/M82	0.98361	1
3-2/M82	0.98012
4-1-1/M82	1.31019
4-1/M82	0.99092
4-3-2/M82	0.95388	0.487
4-3/M82	N/A	N/A
5-3/M82	1.00841	1
6-2/M82	1.03995
6-3/M82	0.98048	1
7-1/M82	N/A	N/A
7-2/M82	1.08102	1
9-3-2/M82	0.9645	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04097	0.277
IL2-6/WTpooled	1.09721
IL7-5/WTpooled	0.64855
IL7-3/WTpooled	0.98821	1
IL12-4/WTpooled	1.11292	1
IL1-4/WTpooled	0.95053	1
WT/WTpooled	1.10259	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00573	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.29955	1
DC3000/delta hrp 24h	1.03799	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.72963	0.029

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0275	1
Exp 36h	N/A	N/A
Exp 60h	1.10481	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03832	1
Var 0h	0.64809	0.933
Var 12h I row2-row1	1.09957	0.406
Var 12h NI row2-row1	0.74832	0.438
Var 36h I row2-row1	0.84934	0.374
Var 36h NI row2-row1	0.93703	0.645
Var 60h I row2-row1	1.47176	0.562
Var 60h NI row2-row1	1.34771	0.904
Time course 0hI-0hNI	1.14784	0.799
Time course 12hI-12hNI	1.11033	0.633
Time course 36hI-36hNI	0.92416	0.153
Time course 60hI-60hNI	1.15559	0.096

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)	0.81479	0.485
transgenic ySAMdc/azygous control (breaker)	0.78092	0.251
transgenic ySAMdc/azygous control (red)	1.08365	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04308	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11821	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89113	0.172
Manapal/WT (break)	0.83905	1
Manapal/WT (red)	N/A	N/A