Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.10.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72616	0.159
27DAP/17DAP	0.82303	0.626
39DAP/27DAP	0.67373	0.458
41DAP/39DAP	1.34065	0.422
42DAP/41DAP	1.17354	0.926
43DAP/42DAP	0.91744	0.846
47DAP/43DAP	0.59563	0.109
52DAP/47DAP	1.36317	0.652
57DAP/52DAP	0.921	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90209	0.097
17DAP/reference	0.91294	0.069
27DAP/reference	1.14142	0.156
39DAP/reference	0.97808	0.704
41DAP/reference	0.80469	0.018
42DAP/reference	1.00339	0.645
43DAP/reference	0.96461	0.48
47DAP/reference	0.9283	0.207
52DAP/reference	1.06934	0.134
57DAP/reference	1.09059	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08044	0.899
27DAP/17DAP	1.05443	0.928
39DAP/27DAP	1.06017	0.677
41DAP/39DAP	1.14129	0.807
42DAP/41DAP	0.87558	0.387
43DAP/42DAP	0.98784	0.928
47DAP/43DAP	1.08585	0.744
52DAP/47DAP	1.2064	0.428
57DAP/52DAP	1.84811	0.036
57DAP/7DAP	1.56857	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07149	0.761
17DAP/reference	1.0413	0.896
27DAP/reference	0.92196	0.135
39DAP/reference	0.74971	0.031
41DAP/reference	0.9643	0.449
42DAP/reference	1.08745	0.889
43DAP/reference	1.32425	0.011
47DAP/reference	0.84759	0.128
52DAP/reference	0.94283	0.304
57DAP/reference	0.85404	0.028

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84774	0.067
17DAP/reference	0.89849	0.223
27DAP/reference	0.98104	0.554
39DAP/reference	0.92115	0.243
41DAP/reference	1.03078	1
42DAP/reference	1.02642	0.969
43DAP/reference	0.93847	0.37
47DAP/reference	0.94807	0.232
52DAP/reference	0.98588	0.576
57DAP/reference	0.88362	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85629	0.057
17DAP/reference	0.9922	0.751
27DAP/reference	0.95053	0.257
39DAP/reference	1.02941	0.773
41DAP/reference	0.97915	0.618
42DAP/reference	0.89013	0.22
43DAP/reference	0.83891	0.068
47DAP/reference	0.98994	0.61
52DAP/reference	0.9644	0.623
57DAP/reference	1.19305	0.106

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.42121	0.966
26DAP/20DAP	0.73443	0.512
34DAP/26DAP	1.0147	1
51DAP/34DAP	0.85426	0.64
52DAP/51DAP	1.10379	0.758
53DAP/52DAP	0.84894	0.562
55DAP/53DAP	1.18997	0.671
57DAP/55DAP	0.86901	0.443
62DAP/57DAP	1.4273	0.115
68DAP/62DAP	1.40715	0.609
68DAP/14DAP	1.50111	0.113

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9803	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.78803
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.38804	0.068
Ripe Pepper/Ripe Tomato	0.56588	1
Mature Eggplant/Ripe Tomato	1.79691

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	0.80977
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	0.56956
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	1.15279	0.493
IL2-6/WTpooled	1.09016	0.788
IL7-5/WTpooled	1.11159	1
IL7-3/WTpooled	0.86554	1
IL12-4/WTpooled	0.74693	0.543
IL1-4/WTpooled	1.09242	1
WT/WTpooled	0.73933	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	1.08781

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07468	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.21119	1
DC3000/delta hrp 24h	1.03161	0.84

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	0.98889	1
Var 0h	0.77614	1
Var 12h I row2-row1	0.90472	0.338
Var 12h NI row2-row1	1.1841	1
Var 36h I row2-row1	0.928	1
Var 36h NI row2-row1	0.74451	0.253
Var 60h I row2-row1	1.00803	1
Var 60h NI row2-row1	1.24574	0.904
Time course 0hI-0hNI	1.11967	0.662
Time course 12hI-12hNI	0.86672	0.11
Time course 36hI-36hNI	0.7794	0.023
Time course 60hI-60hNI	0.7607	0.026

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)	1.40088	1
transgenic ySAMdc/azygous control (breaker)	0.20141	0.139
transgenic ySAMdc/azygous control (red)	2.10274	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95022	0.072

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.49652	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.36458	0.172
Manapal/WT (break)	0.41414	0.333
Manapal/WT (red)	0.91914	0.607