Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.3.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34001	0.858
27DAP/17DAP	1.40437	0.688
39DAP/27DAP	0.90649	0.631
41DAP/39DAP	0.91478	0.748
42DAP/41DAP	1.24412	0.954
43DAP/42DAP	1.66585	0.763
47DAP/43DAP	0.97524	0.825
52DAP/47DAP	0.96691	0.761
57DAP/52DAP	1.15759	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45102	0.188
17DAP/reference	0.96077	0.701
27DAP/reference	0.96031	0.654
39DAP/reference	1.29275	0.016
41DAP/reference	1.40561	0.552
42DAP/reference	0.91433	0.359
43DAP/reference	0.73797	0.346
47DAP/reference	0.9075	0.445
52DAP/reference	1.99627	0.102
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.40566
27DAP/17DAP	1.38312	0.969
39DAP/27DAP	N/A	N/A
41DAP/39DAP	1.68834
42DAP/41DAP	1.90174
43DAP/42DAP	1.45968	0.788
47DAP/43DAP	1.19897
52DAP/47DAP	2.25426	0.067
57DAP/52DAP	N/A	N/A
57DAP/7DAP	1.18746

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56471	0.028
17DAP/reference	1.09716	0.011
27DAP/reference	1.3475	0.007
39DAP/reference	1.31641	0.006
41DAP/reference	1.37906	0.05
42DAP/reference	1.65869	0.021
43DAP/reference	1.52482	0.008
47DAP/reference	2.0774	0.016
52DAP/reference	1.58842	0.052
57DAP/reference	1.28916	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26936	0.642
17DAP/reference	1.12548	0.415
27DAP/reference	1.36104	0.149
39DAP/reference	0.95307	0.497
41DAP/reference	1.14802	0.536
42DAP/reference	1.41461	0.053
43DAP/reference	0.86154	0.314
47DAP/reference	1.07984	0.658
52DAP/reference	2.28404	0.747
57DAP/reference	0.6324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28035	0.086
17DAP/reference	0.95399	0.452
27DAP/reference	1.27986	0.03
39DAP/reference	1.65293	0.017
41DAP/reference	1.15664	0.174
42DAP/reference	1.41927	0.021
43DAP/reference	1.39762	0.01
47DAP/reference	1.21333	0.12
52DAP/reference	1.51397	0.041
57DAP/reference	2.75397	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13134	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.04208
51DAP/34DAP	1.03968	0.927
52DAP/51DAP	0.44374	0.151
53DAP/52DAP	0.86548	0.715
55DAP/53DAP	0.79883	0.478
57DAP/55DAP	N/A	N/A
62DAP/57DAP	3.92794	0.569
68DAP/62DAP	1.08721
68DAP/14DAP	1.16179

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16427

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	N/A	N/A
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	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	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	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70102
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.76432
IL7-3/WTpooled	1.16866	0.362
IL12-4/WTpooled	0.9588	1
IL1-4/WTpooled	1.01537	1
WT/WTpooled	0.85781	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	1.21826	0.14
Manapal/WT (red)	N/A	N/A