Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.17.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89903	0.543
27DAP/17DAP	1.00215	1
39DAP/27DAP	0.9589	0.7
41DAP/39DAP	0.8664	0.645
42DAP/41DAP	1.03915	0.974
43DAP/42DAP	1.11629	0.982
47DAP/43DAP	1.07101	0.889
52DAP/47DAP	0.94901	0.821
57DAP/52DAP	1.18906	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18433	0.35
17DAP/reference	0.72427	0.009
27DAP/reference	0.84726	0.257
39DAP/reference	1.37712	0.465
41DAP/reference	1.18641	0.221
42DAP/reference	1.02347	0.755
43DAP/reference	0.98067	0.763
47DAP/reference	1.04849	0.937
52DAP/reference	0.92237	0.31
57DAP/reference	1.17394	0.744

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43152	0.508
27DAP/17DAP	1.24836	0.186
39DAP/27DAP	1.01016	0.874
41DAP/39DAP	1.01864	0.88
42DAP/41DAP	0.89256	0.453
43DAP/42DAP	1.10002	0.478
47DAP/43DAP	1.04435	0.889
52DAP/47DAP	1.03506	0.979
57DAP/52DAP	1.14805	0.777
57DAP/7DAP	2.20499	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73745	0.066
17DAP/reference	0.79588	0.039
27DAP/reference	0.8656	0.117
39DAP/reference	0.71153	0.011
41DAP/reference	0.8756	0.194
42DAP/reference	0.8298	0.022
43DAP/reference	0.9494	0.368
47DAP/reference	0.71122	0.05
52DAP/reference	0.7079	0.017
57DAP/reference	0.83306	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74576	0.01
17DAP/reference	0.8511	0.164
27DAP/reference	1.09325	0.66
39DAP/reference	0.69351
41DAP/reference	1.04606	1
42DAP/reference	0.90636	0.321
43DAP/reference	1.21836	0.526
47DAP/reference	1.08496	0.751
52DAP/reference	0.80389	0.101
57DAP/reference	0.79718	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80262	0.044
17DAP/reference	1.08611	0.842
27DAP/reference	0.8903	0.14
39DAP/reference	0.92558	0.299
41DAP/reference	1.02958	0.826
42DAP/reference	1.04902	0.979
43DAP/reference	1.12061	0.667
47DAP/reference	0.81329	0.168
52DAP/reference	0.85639	0.242
57DAP/reference	1.00684	0.672

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30227	0.966
26DAP/20DAP	1.20144	0.77
34DAP/26DAP	0.76829	0.488
51DAP/34DAP	1.54527	0.054
52DAP/51DAP	0.7615	1
53DAP/52DAP	2.20567	0.022
55DAP/53DAP	1.26881	0.075
57DAP/55DAP	0.67908	0.099
62DAP/57DAP	0.72002	0.28
68DAP/62DAP	1.53374	0.507
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.52623	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.26893	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.66103
Mature Eggplant/Ripe Tomato	1.00043

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.30002	0.877
1-1-2/M82	1.07995
12-2/M82	1.13521
12-4/M82	0.98665	1
1-3/M82	0.70694	0.378
2-1-1/M82	0.89722	0.465
2-1/M82	N/A	N/A
2-6/M82	0.98694	1
3-2/M82	1.0439	0.84
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.87931
4-3/M82	0.80524
5-3/M82	1.14915	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.84787
9-3-2/M82	0.81584

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93645	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.15467	0.587
IL7-3/WTpooled	1.01336	1
IL12-4/WTpooled	0.96311	1
IL1-4/WTpooled	0.92364	0.834
WT/WTpooled	1.01956	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	0.71741	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09061	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.97686	0.887

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	0.9956	1
Var 0h	0.68367	1
Var 12h I row2-row1	1.13887	0.272
Var 12h NI row2-row1	1.20996	1
Var 36h I row2-row1	0.96459	1
Var 36h NI row2-row1	0.93579	0.791
Var 60h I row2-row1	0.81939	0.582
Var 60h NI row2-row1	1.02359	0.904
Time course 0hI-0hNI	1.06492	0.662
Time course 12hI-12hNI	0.98157	0.889
Time course 36hI-36hNI	0.87314	0.15
Time course 60hI-60hNI	1.84691	0.495

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)	0.43349	0.87

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	1.54328	0.277

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)	0.81157	1
Manapal/WT (red)	1.00161	1