Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.8.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19821	0.878
27DAP/17DAP	0.77313	0.494
39DAP/27DAP	0.92653	0.216
41DAP/39DAP	1.71689	0.708
42DAP/41DAP	1.31496	0.773
43DAP/42DAP	2.65329	0.158
47DAP/43DAP	1.08575	0.98
52DAP/47DAP	1.12821	0.982
57DAP/52DAP	0.90457	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	0.81333
27DAP/reference	0.40071
39DAP/reference	1.00393
41DAP/reference	1.12239	1
42DAP/reference	0.93079	0.455
43DAP/reference	0.67355	0.48
47DAP/reference	0.57699	0.01
52DAP/reference	1.10363	0.709
57DAP/reference	1.23654

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01047	0.871
27DAP/17DAP	1.04061	0.932
39DAP/27DAP	1.05876	0.698
41DAP/39DAP	0.97547	0.98
42DAP/41DAP	1.1116	0.508
43DAP/42DAP	1.00372	1
47DAP/43DAP	0.9851	0.939
52DAP/47DAP	0.95168	0.778
57DAP/52DAP	0.96016	0.626
57DAP/7DAP	1.20089	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05053	1
17DAP/reference	1.0707	1
27DAP/reference	0.78644	0.051
39DAP/reference	0.67107	0.012
41DAP/reference	0.8791	0.247
42DAP/reference	0.70159	0.063
43DAP/reference	0.96106	0.44
47DAP/reference	0.87829	0.504
52DAP/reference	0.9945	0.679
57DAP/reference	0.89912	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86273	0.426
17DAP/reference	1.20251	0.839
27DAP/reference	1.65554	0.014
39DAP/reference	1.03277	0.891
41DAP/reference	1.09414	0.925
42DAP/reference	1.00377	0.655
43DAP/reference	0.55046
47DAP/reference	0.61589	0.018
52DAP/reference	1.09135	1
57DAP/reference	0.94389	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0605	0.827
17DAP/reference	0.81876	0.313
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	1.14736	0.486
42DAP/reference	1.1776	0.818
43DAP/reference	1.51807	0.038
47DAP/reference	0.75046	0.269
52DAP/reference	0.70563	0.155
57DAP/reference	1.4556	0.218

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20126	0.966
26DAP/20DAP	1.04909	0.896
34DAP/26DAP	1.0134	1
51DAP/34DAP	1.14781	0.293
52DAP/51DAP	1.10818	0.454
53DAP/52DAP	0.83814	0.091
55DAP/53DAP	1.076	0.876
57DAP/55DAP	1.30859	0.87
62DAP/57DAP	0.97478	0.994
68DAP/62DAP	0.93295	0.722
68DAP/14DAP	1.49346	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89805	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
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	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76266	0.243
IL2-6/WTpooled	1.03342	0.788
IL7-5/WTpooled	1.08908	0.792
IL7-3/WTpooled	1.13438	0.362
IL12-4/WTpooled	0.86395	0.71
IL1-4/WTpooled	1.05194	1
WT/WTpooled	0.87082	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	0.95617	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.19625	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.15031	1
DC3000/delta hrp 24h	0.79778	0.274

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98799	1
DC3000 delta B/DC3000 delta AB	0.91787	0.369

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	0.91588	1
Var 0h	1.12081	0.782
Var 12h I row2-row1	0.89907	0.39
Var 12h NI row2-row1	0.90643	0.546
Var 36h I row2-row1	0.8672	0.805
Var 36h NI row2-row1	0.59795	0.225
Var 60h I row2-row1	1.52838	0.562
Var 60h NI row2-row1	0.98654	1
Time course 0hI-0hNI	1.04855	0.662
Time course 12hI-12hNI	0.99304	0.994
Time course 36hI-36hNI	0.93666	0.096
Time course 60hI-60hNI	0.61673	0.005

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)	3.1406	0.921
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.99979	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	0.9188	0.728