Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.20.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89847	0.511
27DAP/17DAP	1.21293	0.825
39DAP/27DAP	1.04024	1
41DAP/39DAP	1.17789	0.921
42DAP/41DAP	0.91563	1
43DAP/42DAP	1.74093	0.099
47DAP/43DAP	1.04023	0.92
52DAP/47DAP	0.97782	0.816
57DAP/52DAP	1.53943	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99533	0.707
17DAP/reference	1.08523	0.185
27DAP/reference	1.01702	0.847
39DAP/reference	1.04517	0.125
41DAP/reference	1.11304	0.171
42DAP/reference	0.88446	0.012
43DAP/reference	0.94884	0.555
47DAP/reference	0.91486	0.098
52DAP/reference	0.88283	0.215
57DAP/reference	0.74109	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05346	0.858
27DAP/17DAP	1.00141	1
39DAP/27DAP	1.05167	0.603
41DAP/39DAP	1.08665	0.817
42DAP/41DAP	1.04555	0.893
43DAP/42DAP	0.96746	0.684
47DAP/43DAP	0.97909	0.857
52DAP/47DAP	1.02436	0.9
57DAP/52DAP	1.05178	0.674
57DAP/7DAP	1.09496	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80863	0.095
17DAP/reference	0.72241	0.011
27DAP/reference	0.79041	0.011
39DAP/reference	0.68627	0.011
41DAP/reference	0.7367	0.018
42DAP/reference	0.73083	0.01
43DAP/reference	0.65885	0.011
47DAP/reference	0.77242	0.066
52DAP/reference	0.61583	0.01
57DAP/reference	0.66102	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01334	0.903
17DAP/reference	0.93587	0.113
27DAP/reference	0.88579	0.249
39DAP/reference	0.85679	0.122
41DAP/reference	0.80038	0.045
42DAP/reference	0.8052	0.055
43DAP/reference	1.08185	0.681
47DAP/reference	0.91608	0.043
52DAP/reference	0.96139	0.327
57DAP/reference	0.94583	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81493	0.098
17DAP/reference	0.89042	0.292
27DAP/reference	0.63956	0.028
39DAP/reference	0.7158	0.02
41DAP/reference	0.77059	0.022
42DAP/reference	0.72483	0.016
43DAP/reference	0.68003	0.047
47DAP/reference	0.96909	0.452
52DAP/reference	1.064	0.837
57DAP/reference	0.60652	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10569	0.817
26DAP/20DAP	0.87637	0.512
34DAP/26DAP	1.06419	0.542
51DAP/34DAP	0.8862	0.217
52DAP/51DAP	0.94412	1
53DAP/52DAP	1.03229	0.819
55DAP/53DAP	0.95068	0.592
57DAP/55DAP	1.07648	0.393
62DAP/57DAP	0.9763	0.994
68DAP/62DAP	0.98157	0.863
68DAP/14DAP	1.03694	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89259	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.85575
Ripe Pepper/Ripe Tomato	0.92311	1
Mature Eggplant/Ripe Tomato	0.59189	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94595	0.907
1-1-2/M82	0.9928	1
12-2/M82	0.90833	0.464
12-4/M82	1.04434	1
1-3/M82	0.73738	0.378
2-1-1/M82	0.98165	1
2-1/M82	1.24693
2-6/M82	1.16373	0.695
3-2/M82	0.90542
4-1-1/M82	1.01195	1
4-1/M82	0.96475
4-3-2/M82	N/A	N/A
4-3/M82	0.87161	0.72
5-3/M82	1.03641	0.572
6-2/M82	1.06552
6-3/M82	N/A	N/A
7-1/M82	0.78825
7-2/M82	0.91127	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76908	0.243
IL2-6/WTpooled	0.78565	0.473
IL7-5/WTpooled	1.10247	1
IL7-3/WTpooled	1.05577	1
IL12-4/WTpooled	0.74579	0.566
IL1-4/WTpooled	0.79891	0.415
WT/WTpooled	0.98566	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	0.85789

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11382	0.914
DC3000/delta hrp 6h	0.66267
DC3000/delta hrp 12h	0.91974	1
DC3000/delta hrp 24h	1.06829	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08514	0.043
DC3000 delta B/DC3000 delta AB	1.02983	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82965	0.24
Exp 36h	N/A	N/A
Exp 60h	1.47099	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99879	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.20583	0.242
Var 12h NI row2-row1	1.02976	1
Var 36h I row2-row1	0.71839	0.805
Var 36h NI row2-row1	1.21992	1
Var 60h I row2-row1	1.32712	0.562
Var 60h NI row2-row1	1.31549	0.904
Time course 0hI-0hNI	1.03201	1
Time course 12hI-12hNI	0.99383	1
Time course 36hI-36hNI	0.87324	0.095
Time course 60hI-60hNI	1.65784	0.187

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)	1.10705	0.699
transgenic ySAMdc/azygous control (breaker)	1.08496	1
transgenic ySAMdc/azygous control (red)	1.05971	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05064	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17902	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80701	1
Manapal/WT (break)	0.89516	1
Manapal/WT (red)	1.4254	0.164