Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69149	0.111
27DAP/17DAP	0.96945	0.966
39DAP/27DAP	1.20952	0.825
41DAP/39DAP	1.02055	0.988
42DAP/41DAP	1.128	0.926
43DAP/42DAP	1.07969	1
47DAP/43DAP	0.71545	0.203
52DAP/47DAP	1.10725	0.827
57DAP/52DAP	1.01468	0.985

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48452	0.02
17DAP/reference	0.85342	0.053
27DAP/reference	1.01048	0.885
39DAP/reference	0.91184	0.333
41DAP/reference	0.93593	0.434
42DAP/reference	1.16309	0.022
43DAP/reference	1.22337	0.057
47DAP/reference	0.92309	0.191
52DAP/reference	0.7054	0.018
57DAP/reference	0.92438	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96396	0.644
27DAP/17DAP	1.25608	0.105
39DAP/27DAP	1.25357	0.236
41DAP/39DAP	0.74951	0.074
42DAP/41DAP	1.1458	0.067
43DAP/42DAP	1.20886	0.042
47DAP/43DAP	0.97254	0.857
52DAP/47DAP	0.88275	0.29
57DAP/52DAP	0.84194	0.15
57DAP/7DAP	1.07073	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.8591	0.024
17DAP/reference	1.5732	0.012
27DAP/reference	1.23677	0.03
39DAP/reference	1.62382	0.018
41DAP/reference	1.57489	0.27
42DAP/reference	1.50758	0.009
43DAP/reference	1.69385	0.011
47DAP/reference	1.61637	0.073
52DAP/reference	1.2436	0.139
57DAP/reference	1.39328	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43863	0.035
17DAP/reference	0.81557	0.116
27DAP/reference	0.75065	0.037
39DAP/reference	1.02619	0.769
41DAP/reference	0.82454	0.044
42DAP/reference	0.71822	0.032
43DAP/reference	0.74932	0.03
47DAP/reference	1.08042	0.441
52DAP/reference	0.74623	0.055
57DAP/reference	0.90735	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.78148	0.024
17DAP/reference	1.58658	0.738
27DAP/reference	1.3017	0.216
39DAP/reference	1.25772	0.116
41DAP/reference	1.15946	0.134
42DAP/reference	1.41033	0.04
43DAP/reference	1.2959	0.355
47DAP/reference	0.738	0.028
52DAP/reference	1.27016	0.384
57DAP/reference	0.72811	0.104

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22724	0.966
26DAP/20DAP	1.33347	0.197
34DAP/26DAP	0.91993	0.735
51DAP/34DAP	0.85189	0.449
52DAP/51DAP	1.04109	0.742
53DAP/52DAP	0.97526	0.848
55DAP/53DAP	0.97565	0.807
57DAP/55DAP	1.12062	1
62DAP/57DAP	1.34736	0.185
68DAP/62DAP	1.06448	0.8
68DAP/14DAP	1.63515	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.59115	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	5.39671
Immature Eggplant/Mature Eggplant	6.2213	0.05
Ripe Pepper/Ripe Tomato	0.52604	0.293
Mature Eggplant/Ripe Tomato	1.66708

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.63421
12-2/M82	N/A	N/A
12-4/M82	0.99207	1
1-3/M82	N/A	N/A
2-1-1/M82	1.03558
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.27248
4-1-1/M82	N/A	N/A
4-1/M82	1.28525
4-3-2/M82	1.51028
4-3/M82	N/A	N/A
5-3/M82	0.81851	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.91883
7-2/M82	N/A	N/A
9-3-2/M82	0.98626	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.16189	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.09587	1
IL12-4/WTpooled	1.13164	0.557
IL1-4/WTpooled	0.73653	0.699
WT/WTpooled	0.97435	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	1.10045	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92504	1
DC3000/delta hrp 6h	0.94279	0.95
DC3000/delta hrp 12h	0.81247	1
DC3000/delta hrp 24h	3.13336	0.024

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9738	0.765
DC3000 delta B/DC3000 delta AB	0.88544	0.369

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24858	1
Exp 36h	1.41118	0.693
Exp 60h	1.59825	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98754	1
Var 0h	0.88697	0.933
Var 12h I row2-row1	0.90953	0.467
Var 12h NI row2-row1	1.12084	0.649
Var 36h I row2-row1	0.9306	1
Var 36h NI row2-row1	6.14674	1
Var 60h I row2-row1	0.69632	0.285
Var 60h NI row2-row1	1.117	0.904
Time course 0hI-0hNI	0.94159	0.699
Time course 12hI-12hNI	1.0443	0.703
Time course 36hI-36hNI	1.1867	0.031
Time course 60hI-60hNI	2.22296	0.009

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)	0.99438	0.931
transgenic ySAMdc/azygous control (breaker)	1.07403	1
transgenic ySAMdc/azygous control (red)	1.03964	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1178	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06669	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.84622	0.093
Manapal/WT (break)	0.81762	1
Manapal/WT (red)	1.10732	0.413