Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.17.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19266	0.838
27DAP/17DAP	1.49191	0.552
39DAP/27DAP	1.59706	0.159
41DAP/39DAP	1.04236	1
42DAP/41DAP	1.15505	0.797
43DAP/42DAP	1.42703	0.317
47DAP/43DAP	3.54768	0.172
52DAP/47DAP	0.8121	0.534
57DAP/52DAP	1.42428	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15075	0.587
17DAP/reference	1.4467	0.016
27DAP/reference	1.20319	0.322
39DAP/reference	1.24938	0.249
41DAP/reference	1.55517	0.015
42DAP/reference	1.03526	0.68
43DAP/reference	1.02948	0.866
47DAP/reference	1.09943	0.404
52DAP/reference	1.11729	0.407
57DAP/reference	0.91268	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76548	0.064
27DAP/17DAP	1.22814	0.523
39DAP/27DAP	1.14841	0.496
41DAP/39DAP	1.35301	0.087
42DAP/41DAP	1.08439	0.984
43DAP/42DAP	1.51592	0.02
47DAP/43DAP	1.41511	0.026
52DAP/47DAP	0.82105	0.24
57DAP/52DAP	0.87832	0.331
57DAP/7DAP	1.18854	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30275	0.091
17DAP/reference	1.09294	1
27DAP/reference	1.01186	1
39DAP/reference	0.8433	0.073
41DAP/reference	0.97781	0.489
42DAP/reference	0.9172	0.289
43DAP/reference	0.97738	0.368
47DAP/reference	0.96315	0.504
52DAP/reference	1.03001	0.886
57DAP/reference	0.83115	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21239	0.484
17DAP/reference	1.40898	0.055
27DAP/reference	1.37319	0.06
39DAP/reference	1.19917	0.188
41DAP/reference	1.15907	0.362
42DAP/reference	1.22784	0.202
43DAP/reference	1.9313	0.083
47DAP/reference	1.18475	0.038
52DAP/reference	1.39667	0.074
57DAP/reference	1.28165	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02031	1
17DAP/reference	1.35494	0.118
27DAP/reference	1.01821	0.871
39DAP/reference	0.97505	0.591
41DAP/reference	1.13442	0.57
42DAP/reference	1.2008	0.364
43DAP/reference	1.10716	0.935
47DAP/reference	1.12414	0.405
52DAP/reference	0.80288	0.197
57DAP/reference	0.76885	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97271	1
26DAP/20DAP	1.61503	0.099
34DAP/26DAP	0.81668	0.179
51DAP/34DAP	0.89591	0.341
52DAP/51DAP	0.89244	1
53DAP/52DAP	1.5854	0.057
55DAP/53DAP	0.9183	0.515
57DAP/55DAP	1.07522	0.914
62DAP/57DAP	1.05084	0.994
68DAP/62DAP	1.5655	0.214
68DAP/14DAP	0.95728	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79771	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.2033	0.058
Mature Green Tomato/Ripe Tomato	0.17315	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	12.0999
Mature Eggplant/Ripe Tomato	7.37777	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.97935
12-2/M82	N/A	N/A
12-4/M82	1.82996
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	1.19404
4-1-1/M82	N/A	N/A
4-1/M82	2.00077
4-3-2/M82	1.22137	1
4-3/M82	N/A	N/A
5-3/M82	1.07911
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	1.86668

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.56693	0.277
IL2-6/WTpooled	1.10491	0.659
IL7-5/WTpooled	0.8238
IL7-3/WTpooled	0.87115	0.294
IL12-4/WTpooled	0.92104	0.581
IL1-4/WTpooled	1.09632	1
WT/WTpooled	0.99373	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	0.9589	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.24819	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05506	1
DC3000/delta hrp 24h	0.7578	0.042

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92063	0.882
DC3000 delta B/DC3000 delta AB	1.14508	0.655

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	0.93548	1
Var 0h	1.15261	0.936
Var 12h I row2-row1	1.0309	0.736
Var 12h NI row2-row1	1.12935	0.649
Var 36h I row2-row1	1.14711	0.742
Var 36h NI row2-row1	1.45659	1
Var 60h I row2-row1	0.99437	1
Var 60h NI row2-row1	0.94289	1
Time course 0hI-0hNI	1.00222	1
Time course 12hI-12hNI	1.06645	0.544
Time course 36hI-36hNI	1.21329	0.056
Time course 60hI-60hNI	1.3624	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)	1.01262	1
transgenic ySAMdc/azygous control (breaker)	1.1955	1
transgenic ySAMdc/azygous control (red)	1.05656	0.92

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	1.05222	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08914	0.096
Manapal/WT (break)	0.99715	1
Manapal/WT (red)	N/A	N/A