Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03206	0.932
27DAP/17DAP	0.99142	1
39DAP/27DAP	0.97123	0.733
41DAP/39DAP	0.95142	0.735
42DAP/41DAP	1.0487	0.938
43DAP/42DAP	1.12328	0.88
47DAP/43DAP	0.9819	0.884
52DAP/47DAP	1.09381	0.949
57DAP/52DAP	1.04621	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91704	0.172
17DAP/reference	0.7862	0.017
27DAP/reference	0.79324	0.035
39DAP/reference	0.68535	0.021
41DAP/reference	0.67716	0.011
42DAP/reference	0.82218	0.012
43DAP/reference	0.83101	0.017
47DAP/reference	0.711	0.002
52DAP/reference	0.6736	0.026
57DAP/reference	0.80645	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34933	0.482
27DAP/17DAP	0.85822	0.339
39DAP/27DAP	0.8904	0.146
41DAP/39DAP	1.10539	0.801
42DAP/41DAP	1.0007	0.925
43DAP/42DAP	0.92938	0.308
47DAP/43DAP	0.98015	0.911
52DAP/47DAP	0.88738	0.553
57DAP/52DAP	1.014	0.869
57DAP/7DAP	1.03957	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33909	0.036
17DAP/reference	0.83629	0.035
27DAP/reference	1.01198	1
39DAP/reference	1.02119	0.819
41DAP/reference	1.07153	0.593
42DAP/reference	1.15252	0.308
43DAP/reference	1.20685	0.045
47DAP/reference	0.8257	0.293
52DAP/reference	1.14464	0.183
57DAP/reference	1.0107	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90312	0.353
17DAP/reference	0.79199	0.022
27DAP/reference	0.79445	0.018
39DAP/reference	0.6708	0.02
41DAP/reference	0.74645	0.023
42DAP/reference	0.72126	0.015
43DAP/reference	0.75288	0.018
47DAP/reference	0.7475	0.01
52DAP/reference	0.67227	0.004
57DAP/reference	0.66291	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38387	0.023
17DAP/reference	1.10527	0.627
27DAP/reference	0.83454	0.036
39DAP/reference	1.03791	0.563
41DAP/reference	0.97217	0.56
42DAP/reference	0.90947	0.172
43DAP/reference	1.04186	0.796
47DAP/reference	0.63038	0.004
52DAP/reference	0.75514	0.101
57DAP/reference	0.87115	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06383	0.966
26DAP/20DAP	0.76982	0.228
34DAP/26DAP	1.14706	0.542
51DAP/34DAP	1.21231	0.079
52DAP/51DAP	0.91206	1
53DAP/52DAP	1.14485	0.23
55DAP/53DAP	0.84442	0.225
57DAP/55DAP	0.9526	0.799
62DAP/57DAP	0.94953	0.871
68DAP/62DAP	1.28604	0.589
68DAP/14DAP	0.7544	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87851	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70895	0.192
Mature Green Tomato/Ripe Tomato	1.49469	0.331
Immature Eggplant/Mature Eggplant	0.45698	0.057
Ripe Pepper/Ripe Tomato	6.61925	0.258
Mature Eggplant/Ripe Tomato	3.71087	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99599	0.944
1-1-2/M82	0.96988	0.804
12-2/M82	1.02893	1
12-4/M82	1.10716	1
1-3/M82	1.02416	1
2-1-1/M82	1.12039	0.764
2-1/M82	1.4088	1
2-6/M82	0.98451	1
3-2/M82	0.95834	1
4-1-1/M82	0.99509	1
4-1/M82	1.03363	1
4-3-2/M82	1.23148	0.508
4-3/M82	0.98811	1
5-3/M82	0.99839	1
6-2/M82	1.06725	0.253
6-3/M82	0.9648	1
7-1/M82	1.02454	1
7-2/M82	0.9881	1
9-3-2/M82	1.08996	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.33181	0.277
IL2-6/WTpooled	1.29773	0.456
IL7-5/WTpooled	1.41622	0.792
IL7-3/WTpooled	0.93387	1
IL12-4/WTpooled	1.43387	0.504
IL1-4/WTpooled	0.95401	0.834
WT/WTpooled	0.9622	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	1.07167	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03109	0.921
DC3000/delta hrp 6h	1.03715	1
DC3000/delta hrp 12h	0.88109	1
DC3000/delta hrp 24h	0.98487	0.957

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.62396	0.024
DC3000 delta B/DC3000 delta AB	0.50048	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8893	1
Exp 36h	0.71818	0.449
Exp 60h	0.61439	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95853	1
Var 0h	1.04871	0.936
Var 12h I row2-row1	0.65059	0.357
Var 12h NI row2-row1	1.05531	1
Var 36h I row2-row1	0.9586	1
Var 36h NI row2-row1	1.04184	1
Var 60h I row2-row1	0.9682	0.582
Var 60h NI row2-row1	0.98942	1
Time course 0hI-0hNI	0.8943	0.247
Time course 12hI-12hNI	1.07086	0.63
Time course 36hI-36hNI	1.0201	0.975
Time course 60hI-60hNI	0.36524	0.006

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)	1.15252	0.408
transgenic ySAMdc/azygous control (breaker)	1.19567	0.178
transgenic ySAMdc/azygous control (red)	1.0478	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.76177	0.087

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.75715	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.47608	0.083
Manapal/WT (break)	1.82056	0.123
Manapal/WT (red)	0.98426	0.863