Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.6.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91581	0.543
27DAP/17DAP	0.93786	0.899
39DAP/27DAP	1.55082	0.099
41DAP/39DAP	1.01919	1
42DAP/41DAP	1.33184	0.797
43DAP/42DAP	1.12375	1
47DAP/43DAP	1.28832	0.633
52DAP/47DAP	1.24482	0.67
57DAP/52DAP	1.37894	0.817

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76647	0.057
17DAP/reference	0.96044	0.536
27DAP/reference	0.95751	0.417
39DAP/reference	1.02337	0.889
41DAP/reference	0.90362	0.201
42DAP/reference	0.86023	0.016
43DAP/reference	1.00552	0.942
47DAP/reference	0.8923	0.016
52DAP/reference	0.93471	0.33
57DAP/reference	1.0897	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8165	0.454
27DAP/17DAP	2.87337
39DAP/27DAP	1.31827	0.422
41DAP/39DAP	N/A	N/A
42DAP/41DAP	2.1319	0.001
43DAP/42DAP	1.27498	0.025
47DAP/43DAP	0.57438	0.008
52DAP/47DAP	1.17331	0.603
57DAP/52DAP	1.07055	1
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15246	0.223
17DAP/reference	1.13775	0.147
27DAP/reference	0.79573	0.076
39DAP/reference	0.96273	0.411
41DAP/reference	1.09783	0.147
42DAP/reference	0.84337	0.033
43DAP/reference	1.17369	0.483
47DAP/reference	1.15844	0.21
52DAP/reference	1.18467	0.052
57DAP/reference	1.06897	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04549	0.794
17DAP/reference	0.9605	0.474
27DAP/reference	0.75919	0.071
39DAP/reference	0.83644	0.056
41DAP/reference	0.95577	0.403
42DAP/reference	0.90068	0.261
43DAP/reference	0.95964	0.478
47DAP/reference	0.90437	0.137
52DAP/reference	0.86327	0.051
57DAP/reference	1.03701	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89591	0.29
17DAP/reference	0.75521	0.143
27DAP/reference	1.18318	0.834
39DAP/reference	1.08648	0.711
41DAP/reference	1.10574	0.818
42DAP/reference	1.24672	0.347
43DAP/reference	1.04853	0.828
47DAP/reference	0.95873	0.357
52DAP/reference	1.12774	0.705
57DAP/reference	1.16871	0.135

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92991	1
26DAP/20DAP	0.66982	0.244
34DAP/26DAP	1.33443	0.542
51DAP/34DAP	0.70102	0.246
52DAP/51DAP	3.42638
53DAP/52DAP	0.90891	0.723
55DAP/53DAP	0.49579
57DAP/55DAP	1.04751	0.969
62DAP/57DAP	1.94453	0.393
68DAP/62DAP	1.38063	0.845
68DAP/14DAP	0.96538	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.43558	0.072
Immature Eggplant/Mature Eggplant	2.92075
Ripe Pepper/Ripe Tomato	1.38284
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.28344	0.478
1-1-2/M82	1.04249	1
12-2/M82	2.2614	0.389
12-4/M82	0.66009	1
1-3/M82	0.51713	0.378
2-1-1/M82	0.16528
2-1/M82	0.59149
2-6/M82	0.2383	0.209
3-2/M82	0.20866	0.752
4-1-1/M82	0.21104
4-1/M82	N/A	N/A
4-3-2/M82	0.60907
4-3/M82	0.14138	0.404
5-3/M82	1.004	1
6-2/M82	0.18394	0.375
6-3/M82	1.40338	1
7-1/M82	0.87886	0.466
7-2/M82	0.54209	0.565
9-3-2/M82	0.7311

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.3955
IL2-6/WTpooled	1.02067	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.25464	1
IL12-4/WTpooled	0.9382	1
IL1-4/WTpooled	0.9579
WT/WTpooled	1.04813	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91226
DC3000/delta hrp 6h	1.12547	0.95
DC3000/delta hrp 12h	1.01657	1
DC3000/delta hrp 24h	0.87747	0.534

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	0.53207	1
Exp 36h	1.25997	1
Exp 60h	1.03648	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.97382	0.933
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.9567	0.614
transgenic ySAMdc/azygous control (breaker)	1.42162	0.172
transgenic ySAMdc/azygous control (red)	0.86644	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02825	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6926	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08765	0.307
Manapal/WT (break)	1.03928	1
Manapal/WT (red)	0.85798	0.315