Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37574	0.498
27DAP/17DAP	0.92179	0.846
39DAP/27DAP	0.87699	0.564
41DAP/39DAP	2.33492	0.245
42DAP/41DAP	1.8842	0.207
43DAP/42DAP	8.79107	0.019
47DAP/43DAP	1.97445	0.215
52DAP/47DAP	0.35915	0.033
57DAP/52DAP	0.67384	0.765

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03405	1
17DAP/reference	0.93259	0.448
27DAP/reference	1.27269	0.156
39DAP/reference	1.08822	0.654
41DAP/reference	1.01718	0.91
42DAP/reference	1.09242	0.995
43DAP/reference	1.1337	0.518
47DAP/reference	1.19942	0.182
52DAP/reference	1.48386	0.076
57DAP/reference	1.35513	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10392	0.312
27DAP/17DAP	1.1303	0.506
39DAP/27DAP	0.90623	0.279
41DAP/39DAP	1.0802	0.849
42DAP/41DAP	1.01568	1
43DAP/42DAP	0.8282	0.04
47DAP/43DAP	1.16661	0.095
52DAP/47DAP	0.95557	0.807
57DAP/52DAP	0.64451	0.047
57DAP/7DAP	0.75299	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75635	0.074
17DAP/reference	0.88785	0.108
27DAP/reference	0.89375	0.2
39DAP/reference	1.0995	0.077
41DAP/reference	0.91721	0.311
42DAP/reference	0.77134	0.032
43DAP/reference	0.75402	0.012
47DAP/reference	1.05424	1
52DAP/reference	0.90229	0.106
57DAP/reference	1.0909	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00789	0.97
17DAP/reference	0.99476	0.728
27DAP/reference	1.3399	0.037
39DAP/reference	1.38626	0.024
41DAP/reference	1.3064	0.033
42DAP/reference	1.24747	0.016
43DAP/reference	1.0319	0.892
47DAP/reference	1.03009	0.816
52DAP/reference	1.44243	0.061
57DAP/reference	0.98044	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70493	0.055
17DAP/reference	1.07212	0.932
27DAP/reference	0.75066	0.026
39DAP/reference	0.83685	0.046
41DAP/reference	0.85982	0.107
42DAP/reference	1.04922	1
43DAP/reference	1.30342	0.179
47DAP/reference	1.87625	0.008
52DAP/reference	1.04389	0.952
57DAP/reference	1.45422	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28827	0.966
26DAP/20DAP	1.35852	0.22
34DAP/26DAP	0.96983	0.94
51DAP/34DAP	1.11919	0.962
52DAP/51DAP	0.88984	1
53DAP/52DAP	0.96976	0.835
55DAP/53DAP	0.88226	0.663
57DAP/55DAP	1.24598	0.694
62DAP/57DAP	1.09566	1
68DAP/62DAP	2.15669	0.23
68DAP/14DAP	1.42513	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.24744	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.09097	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	5.66629
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.71197	0.717
4-1-1/M82	N/A	N/A
4-1/M82	8.92515	0.512
4-3-2/M82	1.91653	0.284
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.64274
7-2/M82	N/A	N/A
9-3-2/M82	3.00172	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.11288	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.00205	1
IL12-4/WTpooled	1.17641	0.538
IL1-4/WTpooled	1.35853	1
WT/WTpooled	1.06401	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	1.16252	0.167

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	N/A	N/A
DC3000/delta hrp 12h	0.79365	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99219	1
DC3000 delta B/DC3000 delta AB	1.41944	0.24

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02176	1
Var 0h	0.855	0.98
Var 12h I row2-row1	0.87571	0.338
Var 12h NI row2-row1	1.12316	1
Var 36h I row2-row1	1.40949	0.41
Var 36h NI row2-row1	0.83609	0.478
Var 60h I row2-row1	0.87751	0.832
Var 60h NI row2-row1	0.78866	0.292
Time course 0hI-0hNI	0.94213	0.458
Time course 12hI-12hNI	1.05466	0.672
Time course 36hI-36hNI	1.29951	0.028
Time course 60hI-60hNI	1.84817	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.67123	0.142
transgenic ySAMdc/azygous control (red)	0.83653	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	1.25418	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A