Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.12.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21291	0.414
27DAP/17DAP	1.14783	0.833
39DAP/27DAP	0.98071	0.733
41DAP/39DAP	1.48109	0.178
42DAP/41DAP	1.7682	0.336
43DAP/42DAP	6.38734	0.016
47DAP/43DAP	1.79478	0.156
52DAP/47DAP	0.36856	0.033
57DAP/52DAP	0.60187	0.518

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.43223	0.029
17DAP/reference	0.38139	0.008
27DAP/reference	0.39434	0.011
39DAP/reference	0.61471	0.032
41DAP/reference	0.49117	0.014
42DAP/reference	2.05599	0.003
43DAP/reference	8.54499	0.006
47DAP/reference	8.66631	0.001
52DAP/reference	2.13401	0.096
57DAP/reference	2.26584	0.3

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16445	0.066
27DAP/17DAP	0.8149	0.227
39DAP/27DAP	0.97231	0.821
41DAP/39DAP	0.95993	0.91
42DAP/41DAP	1.26968	0.03
43DAP/42DAP	1.40793	0.015
47DAP/43DAP	1.10894	0.563
52DAP/47DAP	1.73089	0.072
57DAP/52DAP	1.1677	0.662
57DAP/7DAP	2.19978	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.33996	0.044
17DAP/reference	0.29612	0.011
27DAP/reference	0.37286	0.01
39DAP/reference	0.34405	0.011
41DAP/reference	0.33834	0.009
42DAP/reference	0.43729	0.01
43DAP/reference	0.3975	0.013
47DAP/reference	0.43017	0.044
52DAP/reference	0.25444	0.01
57DAP/reference	0.18027	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.4271	0.008
17DAP/reference	0.44643	0.003
27DAP/reference	0.61406	0.018
39DAP/reference	0.50402	0.06
41DAP/reference	0.45284	0.006
42DAP/reference	0.61604	0.025
43DAP/reference	0.56146	0.01
47DAP/reference	0.66412	0.012
52DAP/reference	0.31687	0.003
57DAP/reference	0.5444	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.29715	0.023
17DAP/reference	0.70465	0.139
27DAP/reference	0.24175	0.023
39DAP/reference	0.35184	0.014
41DAP/reference	0.27371	0.018
42DAP/reference	2.08291	0.012
43DAP/reference	6.12801	0.007
47DAP/reference	9.90656	0.004
52DAP/reference	3.59674	0.055
57DAP/reference	0.82855	0.191

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05832	0.966
26DAP/20DAP	1.05892	1
34DAP/26DAP	2.27727	0.819
51DAP/34DAP	1.17535	0.863
52DAP/51DAP	2.1962	0.055
53DAP/52DAP	0.75359	0.049
55DAP/53DAP	1.57498	0.039
57DAP/55DAP	0.58494	0.062
62DAP/57DAP	0.3923	0.028
68DAP/62DAP	2.43173	0.759
68DAP/14DAP	0.81869	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.37875	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86684	0.491
Mature Green Tomato/Ripe Tomato	0.12635	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.09141	0.224
Mature Eggplant/Ripe Tomato	0.04209	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.42927	0.551
1-1-2/M82	2.50544	1
12-2/M82	0.88832	0.623
12-4/M82	3.30109	1
1-3/M82	2.19252
2-1-1/M82	1.09249	0.689
2-1/M82	N/A	N/A
2-6/M82	1.15224	0.425
3-2/M82	2.04774
4-1-1/M82	0.91133
4-1/M82	2.87794	0.853
4-3-2/M82	1.4153	0.284
4-3/M82	1.42821	1
5-3/M82	0.76397	0.642
6-2/M82	2.1909	1
6-3/M82	1.02238	1
7-1/M82	N/A	N/A
7-2/M82	1.28203	0.385
9-3-2/M82	3.5443	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.08956
WT/WTpooled	N/A	N/A

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	0.99535	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01954	0.921
DC3000/delta hrp 6h	1.02572	0.95
DC3000/delta hrp 12h	0.98	1
DC3000/delta hrp 24h	1.09341	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06775	0.408
DC3000 delta B/DC3000 delta AB	1.13932	0.462

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09906	1
Exp 36h	1.1255	1
Exp 60h	1.22099	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98496	1
Var 0h	1.58491	0.594
Var 12h I row2-row1	0.75975	0.357
Var 12h NI row2-row1	1.02006	1
Var 36h I row2-row1	1.04155	0.908
Var 36h NI row2-row1	0.9885	0.852
Var 60h I row2-row1	0.97635	0.306
Var 60h NI row2-row1	1.01611	1
Time course 0hI-0hNI	0.93483	0.519
Time course 12hI-12hNI	1.01131	0.842
Time course 36hI-36hNI	0.86909	0.048
Time course 60hI-60hNI	0.29112	0.005

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)	1.00761	1
transgenic ySAMdc/azygous control (breaker)	0.54083	0.15
transgenic ySAMdc/azygous control (red)	0.95571	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91538	0.112

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69935	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.0358	0.093
Manapal/WT (break)	0.97038	1
Manapal/WT (red)	0.77121	0.315