Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9466	0.689
27DAP/17DAP	1.22878	0.781
39DAP/27DAP	0.97669	0.733
41DAP/39DAP	1.19092	0.545
42DAP/41DAP	1.17334	0.743
43DAP/42DAP	1.01954	0.94
47DAP/43DAP	0.93814	0.754
52DAP/47DAP	0.89131	0.705
57DAP/52DAP	0.99738	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65268	0.031
17DAP/reference	0.85706	0.079
27DAP/reference	0.82619	0.035
39DAP/reference	0.8359	0.062
41DAP/reference	0.81274	0.065
42DAP/reference	0.78865	0.001
43DAP/reference	0.86703	0.129
47DAP/reference	0.86858	0.004
52DAP/reference	0.66367	0.012
57DAP/reference	0.85367	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8938	0.613
27DAP/17DAP	0.99388	0.943
39DAP/27DAP	1.17369	0.526
41DAP/39DAP	1.05418	0.909
42DAP/41DAP	1.06047	0.999
43DAP/42DAP	1.18278	0.554
47DAP/43DAP	1.254	0.529
52DAP/47DAP	0.78405	0.446
57DAP/52DAP	1.34609	0.204
57DAP/7DAP	0.99665	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79958	0.104
17DAP/reference	0.75953	0.013
27DAP/reference	0.75709	0.01
39DAP/reference	0.71231	0.011
41DAP/reference	0.69458	0.013
42DAP/reference	0.74083	0.021
43DAP/reference	0.73439	0.015
47DAP/reference	0.73639	0.04
52DAP/reference	0.76709	0.083
57DAP/reference	0.83001	0.059

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73448	0.019
17DAP/reference	0.68311	0.009
27DAP/reference	0.72351	0.027
39DAP/reference	0.64106	0.011
41DAP/reference	0.66939	0.01
42DAP/reference	0.7659	0.027
43DAP/reference	0.79733	0.08
47DAP/reference	0.79631	0.009
52DAP/reference	0.68099	0.003
57DAP/reference	0.70592	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7844	0.03
17DAP/reference	0.84561	0.177
27DAP/reference	0.83665	0.027
39DAP/reference	0.7	0.006
41DAP/reference	0.9184	0.237
42DAP/reference	0.77763	0.071
43DAP/reference	0.76918	0.046
47DAP/reference	0.70379	0.005
52DAP/reference	0.59421	0.056
57DAP/reference	0.65269	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15558	0.966
26DAP/20DAP	1.94822	0.195
34DAP/26DAP	0.95032	0.961
51DAP/34DAP	1.25114
52DAP/51DAP	1.01721	1
53DAP/52DAP	1.05305	0.806
55DAP/53DAP	0.96504	0.82
57DAP/55DAP	0.83359	0.577
62DAP/57DAP	1.15955	1
68DAP/62DAP	0.71453	0.378
68DAP/14DAP	0.74666	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2073	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.78413	0.256
Immature Eggplant/Mature Eggplant	3.14191	0.205
Ripe Pepper/Ripe Tomato	0.49088	0.293
Mature Eggplant/Ripe Tomato	0.8698

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95622	0.961
1-1-2/M82	0.82618	0.804
12-2/M82	1.01822	1
12-4/M82	1.12376	1
1-3/M82	0.68364	0.378
2-1-1/M82	1.34013	0.26
2-1/M82	0.93366
2-6/M82	1.08056	0.695
3-2/M82	0.95267	1
4-1-1/M82	1.21528	0.864
4-1/M82	1.45453	0.853
4-3-2/M82	1.01719	1
4-3/M82	0.80963	1
5-3/M82	0.94139	1
6-2/M82	0.93063	1
6-3/M82	1.22425	1
7-1/M82	1.28307	0.87
7-2/M82	1.18298	1
9-3-2/M82	1.16388	1

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	N/A	N/A
WT/WTpooled	0.59059

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	1.2826	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98937	1
DC3000/delta hrp 6h	1.13754	1
DC3000/delta hrp 12h	1.02643	1
DC3000/delta hrp 24h	1.0901	0.422

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	1.05307	1
Exp 36h	0.82897	0.406
Exp 60h	0.85304	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95618	1
Var 0h	0.70493	1
Var 12h I row2-row1	0.89762	0.705
Var 12h NI row2-row1	1.0346
Var 36h I row2-row1	0.90376	1
Var 36h NI row2-row1	1.36999	0.276
Var 60h I row2-row1	0.82065	0.285
Var 60h NI row2-row1	0.79437	0.977
Time course 0hI-0hNI	1.14539	0.833
Time course 12hI-12hNI	1.09449	0.567
Time course 36hI-36hNI	1.79285	0.006
Time course 60hI-60hNI	4.99453	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)	0.70908	0.213
transgenic ySAMdc/azygous control (breaker)	1.23358	0.248
transgenic ySAMdc/azygous control (red)	0.85864	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.76534	0.064

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.54129	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.38643	0.084
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A