Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.9.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.65827	0.033
27DAP/17DAP	1.08726	0.872
39DAP/27DAP	1.72202	0.329
41DAP/39DAP	0.74612	0.153
42DAP/41DAP	2.50206	0.089
43DAP/42DAP	1.00343	0.937
47DAP/43DAP	1.31605	0.474
52DAP/47DAP	0.46887	0.044
57DAP/52DAP	1.25521	0.955

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16468	0.197
17DAP/reference	0.97414	0.63
27DAP/reference	0.88281	0.147
39DAP/reference	1.13614	0.386
41DAP/reference	0.90361	0.201
42DAP/reference	1.10694	0.055
43DAP/reference	1.05023	0.678
47DAP/reference	0.96867	0.3
52DAP/reference	0.81602	0.06
57DAP/reference	0.96612	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99852	0.782
27DAP/17DAP	0.94552	0.821
39DAP/27DAP	1.30491	0.135
41DAP/39DAP	1.51434	0.035
42DAP/41DAP	0.82644	0.143
43DAP/42DAP	0.79425	0.028
47DAP/43DAP	1.33016	0.016
52DAP/47DAP	0.9141	0.739
57DAP/52DAP	0.95703	0.68
57DAP/7DAP	0.80433	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97014	0.495
17DAP/reference	0.88305	0.018
27DAP/reference	1.32013	0.006
39DAP/reference	0.89337	0.073
41DAP/reference	1.00194	0.741
42DAP/reference	0.90359	0.035
43DAP/reference	0.98898	0.58
47DAP/reference	0.94561	0.504
52DAP/reference	1.06295	0.781
57DAP/reference	1.04033	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16426	0.226
17DAP/reference	1.00373	0.711
27DAP/reference	1.07852	0.535
39DAP/reference	0.85325	0.189
41DAP/reference	0.94301	0.212
42DAP/reference	1.1709	0.294
43DAP/reference	1.44436	0.122
47DAP/reference	1.42794	0.008
52DAP/reference	0.68425	0.086
57DAP/reference	1.43043	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22779	0.084
17DAP/reference	0.98591	0.709
27DAP/reference	1.07149	0.467
39DAP/reference	1.06145	0.365
41DAP/reference	0.97122	0.618
42DAP/reference	1.05641	0.45
43DAP/reference	1.03842	0.867
47DAP/reference	1.00207	0.667
52DAP/reference	1.30089	0.398
57DAP/reference	0.89701	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82097	0.585
26DAP/20DAP	1.29887	0.604
34DAP/26DAP	1.41868	0.819
51DAP/34DAP	0.76527	0.18
52DAP/51DAP	1.02386	1
53DAP/52DAP	1.11831	0.738
55DAP/53DAP	1.09066	0.939
57DAP/55DAP	1.12775	0.854
62DAP/57DAP	1.37305	0.393
68DAP/62DAP	1.12686	0.872
68DAP/14DAP	0.70446	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.76439	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15662
Mature Green Tomato/Ripe Tomato	0.26533	0.017
Immature Eggplant/Mature Eggplant	7.62914	0.05
Ripe Pepper/Ripe Tomato	0.46607	0.293
Mature Eggplant/Ripe Tomato	0.25044	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07901	0.877
1-1-2/M82	1.35201	1
12-2/M82	1.49808	1
12-4/M82	1.42008	1
1-3/M82	1.04949	0.248
2-1-1/M82	0.7182
2-1/M82	0.54867
2-6/M82	1.06459	0.695
3-2/M82	0.93506	1
4-1-1/M82	1.37053	1
4-1/M82	1.06643
4-3-2/M82	2.45904	0.241
4-3/M82	2.28706	0.268
5-3/M82	0.80855	0.49
6-2/M82	1.93764	1
6-3/M82	0.66708	0.916
7-1/M82	0.62899
7-2/M82	1.12888	0.282
9-3-2/M82	1.57809	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.742	0.247
IL2-6/WTpooled	3.42252	0.46
IL7-5/WTpooled	1.03629	1
IL7-3/WTpooled	0.71499	1
IL12-4/WTpooled	0.88489	1
IL1-4/WTpooled	0.99486	1
WT/WTpooled	0.96558	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	1.71638	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03532	0.921
DC3000/delta hrp 6h	1.07506	1
DC3000/delta hrp 12h	1.08952	1
DC3000/delta hrp 24h	0.9435	0.575

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.16735
DC3000 delta B/DC3000 delta AB	2.41399	0.086

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23981	0.254
Exp 36h	2.30565	0.489
Exp 60h	1.78205	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00016	1
Var 0h	1.07924	0.98
Var 12h I row2-row1	1.0929	0.736
Var 12h NI row2-row1	1.18527	0.649
Var 36h I row2-row1	1.15292	0.908
Var 36h NI row2-row1	0.62537	0.413
Var 60h I row2-row1	1.12368	1
Var 60h NI row2-row1	0.63787	0.306
Time course 0hI-0hNI	1.10128	0.537
Time course 12hI-12hNI	2.28718	0.005
Time course 36hI-36hNI	5.38354	0.005
Time course 60hI-60hNI	18.8518	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)	0.99221	0.862
transgenic ySAMdc/azygous control (breaker)	0.53783	0.139
transgenic ySAMdc/azygous control (red)	1.06785	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08574	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.30811	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24531	1
Manapal/WT (break)	1.30891	1
Manapal/WT (red)	0.69541	0.503