Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.46258	0.015
27DAP/17DAP	2.33935	0.159
39DAP/27DAP	0.82279	0.522
41DAP/39DAP	0.85939	0.459
42DAP/41DAP	1.37573	0.556
43DAP/42DAP	1.02825	0.937
47DAP/43DAP	0.56094	0.08
52DAP/47DAP	2.47201	0.251
57DAP/52DAP	0.54159	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93544	0.211
17DAP/reference	1.05119	0.412
27DAP/reference	1.00066	0.923
39DAP/reference	0.8739	0.424
41DAP/reference	1.10716	0.05
42DAP/reference	0.95545	0.145
43DAP/reference	1.05468	0.617
47DAP/reference	1.01211	0.728
52DAP/reference	1.02821	0.695
57DAP/reference	0.9205	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89995	0.415
27DAP/17DAP	0.91267	0.58
39DAP/27DAP	0.88517	0.54
41DAP/39DAP	1.56341	0.247
42DAP/41DAP	0.92546	0.576
43DAP/42DAP	1.12571	1
47DAP/43DAP	1.35757	0.601
52DAP/47DAP	0.69259	0.284
57DAP/52DAP	1.32468	0.897
57DAP/7DAP	0.554

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98323	0.613
17DAP/reference	1.14851	0.244
27DAP/reference	1.03793	0.974
39DAP/reference	1.12482	0.511
41DAP/reference	1.19283	0.241
42DAP/reference	1.35895	0.059
43DAP/reference	1.06528	0.569
47DAP/reference	1.03256	0.965
52DAP/reference	1.19863	0.139
57DAP/reference	1.28585	0.049

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94728	0.475
17DAP/reference	0.98364	0.474
27DAP/reference	0.93128	0.188
39DAP/reference	0.95947	0.298
41DAP/reference	0.94402	0.173
42DAP/reference	0.9721	0.067
43DAP/reference	0.9411	0.394
47DAP/reference	0.98277	0.338
52DAP/reference	1.01328	0.988
57DAP/reference	1.07074	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28454	0.311
17DAP/reference	0.97208	0.624
27DAP/reference	1.06177	0.777
39DAP/reference	0.99098	0.693
41DAP/reference	1.04276	0.818
42DAP/reference	0.87436	0.287
43DAP/reference	0.99701	0.712
47DAP/reference	0.97982	0.509
52DAP/reference	1.00299	0.928
57DAP/reference	0.76307	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0693	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.56414	1
51DAP/34DAP	1.32556	0.281
52DAP/51DAP	1.20247	0.542
53DAP/52DAP	1.78451	0.594
55DAP/53DAP	0.71733	0.282
57DAP/55DAP	0.76082
62DAP/57DAP	0.95665	0.871
68DAP/62DAP	1.05924	0.864
68DAP/14DAP	1.02338	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.91786	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78022	0.26
Mature Green Tomato/Ripe Tomato	0.15506	0.017
Immature Eggplant/Mature Eggplant	0.95524	0.72
Ripe Pepper/Ripe Tomato	1.31253	1
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	0.58699
12-2/M82	N/A	N/A
12-4/M82	0.82146	1
1-3/M82	0.66361
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.83525
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.73855
4-3-2/M82	1.27137
4-3/M82	1.16889
5-3/M82	0.64145	0.49
6-2/M82	1.19703
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.84756
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96195	1
IL2-6/WTpooled	0.88496	1
IL7-5/WTpooled	1.15904	1
IL7-3/WTpooled	1.03686	1
IL12-4/WTpooled	1.01587	0.891
IL1-4/WTpooled	0.85031	0.699
WT/WTpooled	1.01226	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	1.05206	0.921
DC3000/delta hrp 6h	1.14857	1
DC3000/delta hrp 12h	0.97984	1
DC3000/delta hrp 24h	1.03783	0.728

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	0.69764	1
Exp 36h	0.88959	0.699
Exp 60h	1.02648	1

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	0.80927	0.332
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.41446	1
Var 36h I row2-row1	0.85215
Var 36h NI row2-row1	1.03111
Var 60h I row2-row1	0.98179
Var 60h NI row2-row1	0.9842
Time course 0hI-0hNI	1.24463	0.852
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	1.16105	0.881
Time course 60hI-60hNI	2.02046	0.008

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)	1.08671	0.482
transgenic ySAMdc/azygous control (breaker)	0.94179	0.49
transgenic ySAMdc/azygous control (red)	0.90456	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97747	0.117

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93317	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.89563	0.083
Manapal/WT (break)	1.44593	0.14
Manapal/WT (red)	0.86839	0.181