Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.2.16.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98363	0.823
27DAP/17DAP	1.51567	0.592
39DAP/27DAP	1.12665	0.841
41DAP/39DAP	1.25956	0.321
42DAP/41DAP	0.91188	1
43DAP/42DAP	0.84889	0.773
47DAP/43DAP	0.92425	0.652
52DAP/47DAP	1.52377	0.278
57DAP/52DAP	0.93815	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00891	1
17DAP/reference	1.08113	0.201
27DAP/reference	1.0572	0.66
39DAP/reference	0.942	0.206
41DAP/reference	1.01789	0.808
42DAP/reference	1.20543	0.048
43DAP/reference	1.09101	0.306
47DAP/reference	0.94684	0.077
52DAP/reference	0.9679	0.449
57DAP/reference	0.98482	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0498	0.431
27DAP/17DAP	0.92038	0.782
39DAP/27DAP	1.13447	0.646
41DAP/39DAP	1.4129	0.084
42DAP/41DAP	1.01677	0.926
43DAP/42DAP	1.46218	0.015
47DAP/43DAP	0.9473	0.701
52DAP/47DAP	1.22671	0.463
57DAP/52DAP	2.60749	0.05
57DAP/7DAP	1.65654	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8014	0.108
17DAP/reference	0.81729	0.064
27DAP/reference	0.86564	0.094
39DAP/reference	0.90861	0.17
41DAP/reference	1.18592	0.207
42DAP/reference	1.383	0.174
43DAP/reference	1.49471	0.008
47DAP/reference	0.9293	0.293
52DAP/reference	0.82582	0.057
57DAP/reference	1.22718	0.053

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06819	0.55
17DAP/reference	1.10451	0.375
27DAP/reference	0.96887	0.407
39DAP/reference	0.91274	0.257
41DAP/reference	1.17665	0.094
42DAP/reference	0.8575	0.042
43DAP/reference	1.05852	0.624
47DAP/reference	1.06289	0.247
52DAP/reference	0.96942	0.351
57DAP/reference	0.95626	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9735	0.566
17DAP/reference	0.96553	0.537
27DAP/reference	0.97767	0.594
39DAP/reference	0.81706	0.063
41DAP/reference	1.04247	0.916
42DAP/reference	0.8362	0.059
43DAP/reference	0.9583	0.523
47DAP/reference	1.01442	1
52DAP/reference	0.93335	0.538
57DAP/reference	0.98387	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09876	0.966
26DAP/20DAP	1.80609	0.098
34DAP/26DAP	1.00112	1
51DAP/34DAP	0.71133	0.06
52DAP/51DAP	1.00758	1
53DAP/52DAP	1.07636	0.924
55DAP/53DAP	0.91309	0.604
57DAP/55DAP	1.07256	0.986
62DAP/57DAP	0.83801	0.681
68DAP/62DAP	1.63157	0.792
68DAP/14DAP	1.38503	0.436

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.8641	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.67548	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.10625	0.224
Mature Eggplant/Ripe Tomato	0.13225	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19206	0.591
1-1-2/M82	1.17452	1
12-2/M82	1.00067	N/A
12-4/M82	0.85592	0.25
1-3/M82	0.86648	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.65801	1
3-2/M82	N/A	N/A
4-1-1/M82	0.936	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.35437	0.241
4-3/M82	1.09741	1
5-3/M82	0.89862	0.49
6-2/M82	0.63037	N/A
6-3/M82	0.63749	N/A
7-1/M82	N/A	N/A
7-2/M82	0.81519	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97277	1
IL2-6/WTpooled	0.91348	1
IL7-5/WTpooled	1.0687	N/A
IL7-3/WTpooled	1.09405	1
IL12-4/WTpooled	0.90867	1
IL1-4/WTpooled	0.93705	0.699
WT/WTpooled	1.08948	0.911

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	1.16742	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91529	1
DC3000/delta hrp 6h	0.80535	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.74672	0.044

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	1.06732	1
Exp 36h	0.77216	0.749
Exp 60h	1.26537	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10021	N/A
Var 0h	0.85072	0.457
Var 12h I row2-row1	0.59423	0.627
Var 12h NI row2-row1	1.04623	1
Var 36h I row2-row1	9.67604	1
Var 36h NI row2-row1	1.00081	1
Var 60h I row2-row1	0.93545	0.952
Var 60h NI row2-row1	1.27689	0.904
Time course 0hI-0hNI	1.01957	0.867
Time course 12hI-12hNI	0.83568	0.072
Time course 36hI-36hNI	0.86184	0.023
Time course 60hI-60hNI	1.07334	0.08

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)	1.0781	0.455
transgenic ySAMdc/azygous control (breaker)	0.48464	0.173
transgenic ySAMdc/azygous control (red)	1.13535	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01463	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69255	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70339	1
Manapal/WT (break)	0.89977	1
Manapal/WT (red)	0.81379	0.181