Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.2.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2599	0.315
27DAP/17DAP	1.17312	0.809
39DAP/27DAP	0.93951	0.573
41DAP/39DAP	1.22272	0.591
42DAP/41DAP	1.04341	1
43DAP/42DAP	1.09093	0.976
47DAP/43DAP	1.04472	0.756
52DAP/47DAP	1.24983	0.615
57DAP/52DAP	1.06477	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84281	0.177
17DAP/reference	0.64481	0.24
27DAP/reference	0.75186	0.232
39DAP/reference	0.73878	0.261
41DAP/reference	0.79968	0.154
42DAP/reference	1.11395	0.414
43DAP/reference	1.19115
47DAP/reference	1.24889	0.078
52DAP/reference	1.18708	0.114
57DAP/reference	1.12825	0.6

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9754	0.75
27DAP/17DAP	1.02182	1
39DAP/27DAP	1.18909	0.41
41DAP/39DAP	0.99018	0.997
42DAP/41DAP	0.9606	0.693
43DAP/42DAP	1.10275	0.273
47DAP/43DAP	0.95054	0.805
52DAP/47DAP	0.9552	0.839
57DAP/52DAP	1.07111	0.877
57DAP/7DAP	1.28011	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48768	0.121
17DAP/reference	1.42388	0.054
27DAP/reference	1.15299	0.049
39DAP/reference	1.59006	0.009
41DAP/reference	1.46781	0.032
42DAP/reference	1.4023	0.037
43DAP/reference	1.47052	0.018
47DAP/reference	1.55693	0.086
52DAP/reference	1.4514	0.011
57DAP/reference	1.45585	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96325	0.607
17DAP/reference	1.56664	0.028
27DAP/reference	1.15826	0.735
39DAP/reference	1.2393	0.783
41DAP/reference	0.95618	0.472
42DAP/reference	1.46551	0.22
43DAP/reference	1.12608	0.801
47DAP/reference	0.87625	0.328
52DAP/reference	1.17885	0.702
57DAP/reference	1.30973	0.306

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39244	0.016
17DAP/reference	1.16584	0.343
27DAP/reference	1.1714	0.284
39DAP/reference	1.28671	0.043
41DAP/reference	1.26009	0.031
42DAP/reference	1.44502	0.062
43DAP/reference	1.25131	0.27
47DAP/reference	1.29214	0.048
52DAP/reference	1.04168	1
57DAP/reference	1.2722	0.218

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.26334	0.966
26DAP/20DAP	1.08021	0.818
34DAP/26DAP	1.08445	1
51DAP/34DAP	1.0834	0.429
52DAP/51DAP	1.19141	0.295
53DAP/52DAP	1.05772	0.662
55DAP/53DAP	1.18776	0.064
57DAP/55DAP	0.907	0.601
62DAP/57DAP	0.6577	0.466
68DAP/62DAP	0.67726	0.044
68DAP/14DAP	0.93134	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85002	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.79709	0.364
Mature Green Tomato/Ripe Tomato	0.74881	0.182
Immature Eggplant/Mature Eggplant	1.21778	0.07
Ripe Pepper/Ripe Tomato	0.35454	0.224
Mature Eggplant/Ripe Tomato	1.27164	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.93266
12-2/M82	0.84966
12-4/M82	0.85811	0.358
1-3/M82	0.9895
2-1-1/M82	0.88256
2-1/M82	N/A	N/A
2-6/M82	0.90783
3-2/M82	1.16562
4-1-1/M82	N/A	N/A
4-1/M82	0.75159
4-3-2/M82	0.87894	0.487
4-3/M82	1.06641	1
5-3/M82	0.96438	1
6-2/M82	0.91908	0.497
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.26024
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04948	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.08578	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.08046
WT/WTpooled	N/A	N/A

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	1.04415	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.98525	0.95
DC3000/delta hrp 12h	1.33614	1
DC3000/delta hrp 24h	0.97721	0.7

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	1.00398	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12865	1
Exp 36h	1.19543	0.326
Exp 60h	1.1691	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9397	1
Var 0h	1.20142	0.936
Var 12h I row2-row1	0.97136	0.948
Var 12h NI row2-row1	0.96156	0.82
Var 36h I row2-row1	0.98001	1
Var 36h NI row2-row1	1.04017	1
Var 60h I row2-row1	1.0367	1
Var 60h NI row2-row1	0.96006	1
Time course 0hI-0hNI	1.15183	0.63
Time course 12hI-12hNI	1.03007	0.816
Time course 36hI-36hNI	0.95996	0.418
Time course 60hI-60hNI	1.05695	0.673

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)	1.08441	0.272
transgenic ySAMdc/azygous control (breaker)	1.31067	0.172
transgenic ySAMdc/azygous control (red)	0.96963	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.18628	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99148	1
Manapal/WT (break)	1.0987	1
Manapal/WT (red)	1.55746	0.413